#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample N jcn_only_AD CUFF.1570 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133234-101133373 chr13:101133373-101133374 82;272 N jcn_only_AD CUFF.1571 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 16;141 K jcn_only_AD CUFF.1548 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 675;191 K alternative_last_exon CUFF.1571 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131799-101132017 464;767 K jcn_only_AA CUFF.1548,CUFF.1562 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 675;163 K alternative_first_exon CUFF.1573 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 4903;1214 K intron_retention CUFF.1573 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 16;313 K jcn_only_AA CUFF.1570 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 111;62 N cassette CUFF.1548 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 160;1318 N alternative_donor CUFF.1558 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 16;442 N alternative_donor CUFF.1573 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 35;60 N alternative_acceptor CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 122;373 K jcn_only_AD CUFF.1568,CUFF.1570 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 16;69 N alternative_donor CUFF.1558 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 275;178 K alternative_acceptor CUFF.1570 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 111;105 N jcn_only_AD CUFF.1573 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 35;29 K alternative_donor CUFF.1568,CUFF.1570 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 16;315 N jcn_only_AA CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 122;91 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 29;980 K alternative_donor CUFF.1570 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 11;272 N alternative_acceptor chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 74;718 K jcn_only_AA CUFF.1556 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 536;109 K jcn_only_AA CUFF.1556 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 40;367 K intron_retention CUFF.1548 chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 21;68 N alternative_donor CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 122;53 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 29;1097 N jcn_only_AD CUFF.1558 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 16;301 K jcn_only_AA CUFF.1556 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 34;784 K intron_retention CUFF.1548 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 624;85 N coord_cassette CUFF.1548 chr13 + chr13:21141396-21148518 chr13:21141396-21141808;chr13:21141925-21142023;chr13:21142137-21148518 chr13:21141809-21141924;chr13:21142024-21142136 58;159 N alternative_acceptor CUFF.1554 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 19;1195 K alternative_first_exon CUFF.1570 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97647081 chr13:97646552-97646811 114;218 K alternative_last_exon CUFF.1573 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511288 17;97 K jcn_only_AA CUFF.1568 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 32;36 N jcn_only_AD CUFF.1558 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 275;18 N jcn_only_AD CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 122;53 N jcn_only_AA CUFF.1554 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 19;327 K alternative_first_exon CUFF.1556 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542719 chr13:25541530-25541657 1454;39 K jcn_only_AD CUFF.1570 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 11;173 N alternative_donor CUFF.1570 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133234-101133373 chr13:101133373-101133374 82;301 K cassette CUFF.1557 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 26;22 K jcn_only_AA CUFF.1562 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 31;108 K alternative_acceptor CUFF.1568 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 32;1216 N cassette CUFF.1548 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 30;133 K alternative_first_exon CUFF.1568,CUFF.1572 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054195 chr13:102568803-102569074 chr13:102527536-102527646 60;98 N alternative_donor CUFF.1571 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 16;837 K intron_retention CUFF.1568 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 16;33 N jcn_only_AA chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 74;106 N jcn_only_AA CUFF.1477 chr12 - chr12:48272899-48298737;chr12:48276558-48298737 chr12:48293742-48298737 1012;174 N jcn_only_AD CUFF.1532 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 256;19 N alternative_acceptor CUFF.1466 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 593;175 N coord_cassette CUFF.1462 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 48;1505 N cassette CUFF.1450 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 76;896 K cassette CUFF.1544 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 171;645 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 20;2912 K jcn_only_AA CUFF.1462,CUFF.1500 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 43;79 N alternative_acceptor CUFF.1485 chr12 - chr12:49332631-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 3738;90 N jcn_only_AA CUFF.1466 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 482;28 K intron_retention CUFF.1518 chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 45;3111 K cassette CUFF.1513 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 77;871 K coord_cassette CUFF.1467 chr12 - chr12:25702481-25801427 chr12:25702481-25710172;chr12:25710304-25735355;chr12:25735398-25801427 chr12:25710173-25710303;chr12:25735356-25735397 107;220 N jcn_only_AA CUFF.1436 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 1507;341 N jcn_only_AA chr12 - chr12:48272899-48293619 chr12:48276558-48293619 21;108 K intron_retention CUFF.1518 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 40;3248 N alternative_donor CUFF.1521 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 162;729 N jcn_only_AD CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 1064;32 K intron_retention CUFF.1513 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 236;669 K alternative_first_exon CUFF.1466,CUFF.1477 chr12 - chr12:48276558-48293619,chr12:48276558-48298346;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48336646-48336831 chr12:48298738-48298915 128;902 N alternative_donor chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 49;136 K cassette CUFF.1513 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 66;1655 K intron_retention CUFF.1450 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 725;67 K jcn_only_AA CUFF.1544 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 119;4 N jcn_only_AA CUFF.1500 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1307;330 K jcn_only_AA CUFF.1542 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 73;88 N jcn_only_AD CUFF.1462 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 227;330 N intron_retention chr12 - chr12:52407560-52407655 chr12:52407559-52407560;chr12:52407655-52407656 16;552 K intron_retention CUFF.1532 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 61;103 K cassette CUFF.1485 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 143;1297 N intron_retention chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 128;406 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 1134;373 K cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 120;1262 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 105;889 K intron_retention CUFF.1455 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 1877;404 N jcn_only_AA CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49350319-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 145;511 N cassette CUFF.1544 chr12 - chr12:120204987-120210573 chr12:120204987-120208588;chr12:120208715-120210573 chr12:120208589-120208714 7;100 N alternative_donor CUFF.1500 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1148;1238 N coord_cassette CUFF.1521 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 96;1141 N jcn_only_AD CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 43;20 K intron_retention CUFF.1528 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 1552;86 K alternative_first_exon CUFF.1467 chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 190;405 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 102;670 N alternative_first_exon CUFF.1469 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205425-26205929 163;1118 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 66;132 N cassette CUFF.1467 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 39;698 N jcn_only_AD CUFF.1480,CUFF.1531 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 169;79 K intron_retention CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 1252;1066 N alternative_donor CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 43;873 N cassette CUFF.1521 chr12 + chr12:69207409-69222550;chr12:69207409-69233053;chr12:69207409-69218142;chr12:69203073-69218142;chr12:69203073-69233053 chr12:69207409-69214104,chr12:69203073-69214104;chr12:69214155-69233053,chr12:69214155-69222550,chr12:69214155-69218142 chr12:69214105-69214154 414;1199 K jcn_only_AA CUFF.1467 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 89;208 N coord_cassette CUFF.1471 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 42;1764 N jcn_only_AA chr12 + chr12:57854339-57858455 chr12:57854339-57857447 64;34 K jcn_only_AA CUFF.1544 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 239;395 N alternative_donor chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 363;104 N jcn_only_AA chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 368;31 K jcn_only_AD CUFF.1477 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 1015;258 K alternative_last_exon CUFF.1467 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25652931-25656671;chr12:25629395-25656671 chr12:25562365-25656671 chr12:25652755-25652930;chr12:25629016-25629394 chr12:25562229-25562364 708;144 K jcn_only_AA CUFF.1469 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 214;93 N jcn_only_AD CUFF.1500 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1148;100 N jcn_only_AD CUFF.1466 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 447;148 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 30;210 N jcn_only_AD chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 311;148 N alternative_donor CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 1064;68 K alternative_first_exon CUFF.1516 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853825-57853984 chr12:57854200-57854338 64;41 N alternative_donor CUFF.1480,CUFF.1531 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 169;237 N alternative_donor CUFF.1466 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 447;715 N cassette CUFF.1436 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 124;2070 N alternative_donor CUFF.1532 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 256;75 K alternative_first_exon CUFF.1444 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444657-4444817 113;194 N jcn_only_AD CUFF.1436,CUFF.1450 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 382;64 N jcn_only_AD CUFF.1437 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 344;514 K intron_retention CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 59;1858 N jcn_only_AD CUFF.1462 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 489;68 N alternative_acceptor CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 3787;41 N intron_retention CUFF.1436 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 102;2750 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 105;924 N jcn_only_AD CUFF.1437 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 703;155 K jcn_only_AD CUFF.1531 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 767;1076 N alternative_acceptor CUFF.1436 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 659;1279 N alternative_first_exon CUFF.1469 chr12 + chr12:26174452-26208168,chr12:26205536-26208168;chr12:26205930-26208168;chr12:26164755-26208168 chr12:26148064-26208168 chr12:26205425-26205929;chr12:26164622-26164754 chr12:26147970-26148063 754;11 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 39;118 K alternative_donor CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 627;3457 K intron_retention CUFF.1513 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 54;311 K cassette CUFF.1450 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 238;167 N jcn_only_AD CUFF.1466 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 141;22 K jcn_only_AA CUFF.1500 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 550;885 N cassette CUFF.1480 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48398019 chr12:48393702-48393908 45;467 N jcn_only_AA CUFF.1466 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 369;141 N cassette CUFF.1455 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 149;5428 K cassette CUFF.1451 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 59;113 N jcn_only_AD CUFF.1544 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 207;49 K intron_retention CUFF.1455 chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 474;948 N alternative_acceptor CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 408;56 N coord_cassette CUFF.1455 chr12 + chr12:13349807-13366614 chr12:13349807-13364402;chr12:13364523-13366412;chr12:13366510-13366614 chr12:13364403-13364522;chr12:13366413-13366509 21;8066 N cassette CUFF.1466 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 66;838 K alternative_acceptor CUFF.1469 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 214;211 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 216;183 N cassette CUFF.1485 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 42;847 N alternative_acceptor chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 133;129 K intron_retention chr12 - chr12:56709027-56709604 chr12:56709026-56709027;chr12:56709604-56709605 859;29 N mutually_exclusive CUFF.1450 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 268;637 K intron_retention CUFF.1521 chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 101;466 N coord_cassette CUFF.1485 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 42;1728 N intron_retention chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 183;947 N jcn_only_AA CUFF.1485 chr12 - chr12:49332631-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 633;23 N intron_retention CUFF.1531 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 32;23 K alternative_first_exon CUFF.1500 chr12 + chr12:53847068-53848509,chr12:53846760-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837175-53837557 chr12:53845800-53846160 198;1782 K alternative_donor CUFF.1531 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 767;1241 N cassette CUFF.1443 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 1783;720 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 59;857 K alternative_last_exon CUFF.1453 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743304 chr12:11716635-11717337 363;371 K alternative_acceptor CUFF.1544 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 119;53 N jcn_only_AA CUFF.1500 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1478;159 N jcn_only_AD chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 49;98 K alternative_donor CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 654;713 K intron_retention CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 627;996 N alternative_donor CUFF.1455 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 3237;104 K intron_retention CUFF.1518 chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 1039;3181 N alternative_first_exon CUFF.1516 chr12 + chr12:57857875-57858455;chr12:57853985-57858455 chr12:57854339-57858455 chr12:57853825-57853984 chr12:57854200-57854338 314;76 N cassette CUFF.1521 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 367;1001 K intron_retention CUFF.1500 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 843;740 N jcn_only_AD chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 39;14 K jcn_only_AD CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 627;1552 K jcn_only_AD CUFF.1547 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 33;673 N jcn_only_AD CUFF.1521 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 162;591 K intron_retention CUFF.1544 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 822;172 K intron_retention CUFF.1491 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 730;525 N jcn_only_AA CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 1064;46 N cassette CUFF.1518 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 83;5659 N cassette CUFF.1493 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 121;39 K intron_retention CUFF.1453 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 82;128 N jcn_only_AD CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 408;30 N jcn_only_AD CUFF.1515 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 918;170 N cassette CUFF.1521 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 151;1236 K intron_retention CUFF.1513 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 612;342 N alternative_first_exon CUFF.1469 chr12 + chr12:26174452-26208168,chr12:26205536-26208168;chr12:26148064-26208168;chr12:26205930-26208168 chr12:26164755-26208168 chr12:26147970-26148063;chr12:26205425-26205929 chr12:26164622-26164754 684;81 N alternative_acceptor CUFF.1469,CUFF.1516 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 84;115 N alternative_acceptor CUFF.1436 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 1507;373 N jcn_only_AD CUFF.1455 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 3237;14 N alternative_donor CUFF.1541 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 161;1228 N coord_cassette CUFF.1521 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 592;796 N intron_retention CUFF.1544 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 49;252 K cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 120;662 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 30;422 N alternative_donor CUFF.1444 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 173;189 K cassette CUFF.1471 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 192;1256 N jcn_only_AA CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 615;41 K alternative_acceptor CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 1252;852 N coord_cassette CUFF.1500 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 177;1648 N alternative_acceptor CUFF.1500 chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 4372;1148 N jcn_only_AD chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 229;859 N intron_retention CUFF.1436 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 96;222 N jcn_only_AD CUFF.1477,CUFF.1515 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1029;59 N jcn_only_AD CUFF.1437 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 669;189 N jcn_only_AA CUFF.1469 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 91;2761 N alternative_donor CUFF.1436 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 319;443 K intron_retention CUFF.1477 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 713;34 N coord_cassette CUFF.1521 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 101;348 K alternative_donor CUFF.1547 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 33;673 N jcn_only_AA CUFF.1436 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 333;39 N jcn_only_AA chr12 + chr12:21229508-21242846 chr12:21229508-21242844 4;4 N alternative_donor CUFF.1518 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 40;235 N cassette CUFF.1521 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 332;1836 K alternative_first_exon CUFF.1491 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404237-52404346 173;650 K intron_retention chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 1300;159 K intron_retention CUFF.1452 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 382;244 K alternative_donor CUFF.1477 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 1015;678 K intron_retention CUFF.1450 chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 243;40 K intron_retention CUFF.1513 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 140;553 N jcn_only_AD chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 113;333 K alternative_acceptor CUFF.1544 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 94;123 K cassette CUFF.1467 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 28;226 N alternative_donor CUFF.1462 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 34;22 K cassette CUFF.1513 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 771;496 N alternative_first_exon CUFF.1469 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164622-26164754 99;740 K alternative_last_exon CUFF.1469,CUFF.1516 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26221674 212;351 K cassette CUFF.1513 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 372;349 N alternative_acceptor CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 1064;360 N jcn_only_AD CUFF.1436 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 319;102 N alternative_acceptor CUFF.1444,CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 166;123 N alternative_acceptor CUFF.1466 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 740;28 N cassette CUFF.1443 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 1768;3603 K coord_cassette CUFF.1450 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 232;1593 K cassette CUFF.1454 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 11;152 N cassette CUFF.1500 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 982;1271 N cassette CUFF.1467 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 24;1012 N jcn_only_AA CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49349981-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 575;81 N jcn_only_AA CUFF.1541 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 125;2867 N jcn_only_AA CUFF.1444,CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 166;123 N jcn_only_AD CUFF.1443 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 2429;33 N jcn_only_AA CUFF.1477 chr12 - chr12:48293742-48298737;chr12:48276558-48298737 chr12:48272899-48298737 887;299 N jcn_only_AD chr12 + chr12:66187084-66451370 chr12:66232792-66451370 4;6 N coord_cassette CUFF.1518 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 20;99 N mutually_exclusive CUFF.1466 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 99;118 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 30;92 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 29;519 K alternative_last_exon CUFF.1437,CUFF.1455 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756378 chr12:1748850-1749142 1034;851 N cassette CUFF.1515 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 47;2380 N alternative_acceptor CUFF.1437 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 162;1176 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 170;609 K jcn_only_AA CUFF.1544 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 94;97 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 29;815 K intron_retention CUFF.1544 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 30;193 K cassette CUFF.1443 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665669-4668022 chr12:4665519-4665668 48;3969 N alternative_donor CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 408;35 N jcn_only_AA CUFF.1500 chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 489;1148 N cassette CUFF.1521 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 76;876 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 47;1448 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 67;441 N jcn_only_AD CUFF.1518 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 40;196 K alternative_acceptor CUFF.1542 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 73;326 N jcn_only_AD CUFF.1532 chr12 - chr12:102796345-102809481;chr12:102796345-102811732 chr12:102796345-102813286 256;33 N jcn_only_AA CUFF.1436 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 659;310 N alternative_donor CUFF.1466 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 141;167 N alternative_first_exon CUFF.1469 chr12 + chr12:26174452-26208168,chr12:26205536-26208168;chr12:26148064-26208168;chr12:26164755-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26164622-26164754 chr12:26205425-26205929 277;488 K jcn_only_AA CUFF.1516 chr12 + chr12:57853985-57858455 chr12:57853985-57857447 214;53 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 319;80 K alternative_acceptor CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 159;1457 N alternative_acceptor CUFF.1541 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 125;2881 K intron_retention CUFF.1518 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 29;88 K cassette CUFF.1500 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 296;2669 K intron_retention CUFF.1466 chr12 - chr12:22697114-22697253 chr12:22697113-22697114;chr12:22697253-22697254 349;238 N cassette CUFF.1518 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 20;1384 K alternative_first_exon CUFF.1503 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393875-54394510 282;826 K intron_retention CUFF.1495 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 79;551 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 294;105 N intron_retention chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 156;561 N cassette CUFF.1466 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 50;1598 K coord_cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 120;1615 N jcn_only_AD CUFF.1462 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 34;9 N jcn_only_AD chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 363;61 N jcn_only_AD CUFF.1480 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 70;5 K intron_retention CUFF.1455 chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 2134;549 N alternative_acceptor CUFF.1462 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 1111;458 K intron_retention CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 159;698 N intron_retention chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 162;316 N intron_retention chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 31;999 N jcn_only_AD CUFF.1469 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 159;67 N intron_retention CUFF.1443 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 34;1096 K intron_retention CUFF.1491 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 534;254 N alternative_acceptor CUFF.1500 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 3472;2048 N cassette CUFF.1541 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 29;2003 K cassette CUFF.1493 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 357;262 N jcn_only_AA chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 133;11 K intron_retention CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 824;920 N mutually_exclusive CUFF.1500 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 1701;188 K alternative_first_exon CUFF.1437 chr12 + chr12:1726310-1740463,chr12:1684008-1740463,chr12:1640117-1740463,chr12:1738538-1740463;chr12:1639176-1740463 chr12:1739393-1740463 chr12:1639003-1639175 chr12:1739024-1739392 2093;2554 N alternative_donor CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 166;77 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 14;16 N jcn_only_AA chr12 - chr12:351921-352844 chr12:351932-352844 228;136 N alternative_donor CUFF.1443 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 182;246 N cassette CUFF.1521 chr12 + chr12:69207409-69233053;chr12:69214155-69233053;chr12:69207409-69229608;chr12:69218432-69233053;chr12:69218432-69229608 chr12:69207409-69222550,chr12:69218432-69222550,chr12:69214155-69222550;chr12:69222712-69233053,chr12:69222712-69229608 chr12:69222551-69222711 973;1078 N cassette CUFF.1521 chr12 + chr12:69207409-69233053;chr12:69222712-69233053;chr12:69203073-69233053;chr12:69218432-69233053 chr12:69203073-69229608,chr12:69222712-69229608,chr12:69207409-69229608,chr12:69218432-69229608;chr12:69229765-69233053 chr12:69229609-69229764 418;2639 K intron_retention CUFF.1513 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 709;225 N alternative_acceptor CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49349981-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 2470;1358 N alternative_donor chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 39;210 N coord_cassette CUFF.1443 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 254;832 K jcn_only_AA CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 159;372 N jcn_only_AD CUFF.1444 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 173;45 K intron_retention CUFF.1488 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 290;171 N alternative_acceptor CUFF.1436 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 333;39 N intron_retention chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 311;44 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 89;2003 N alternative_donor CUFF.1544 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 79;32 N jcn_only_AD CUFF.1443 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 182;203 K alternative_last_exon CUFF.1467 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25652931-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25652755-25652930;chr12:25562229-25562364 chr12:25629016-25629394 359;493 N alternative_donor CUFF.1480 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 273;27 K intron_retention CUFF.1493 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 421;312 K intron_retention chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 1004;323 K alternative_acceptor CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 824;2908 N jcn_only_AD CUFF.1544 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 79;11 N alternative_acceptor CUFF.1466 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 203;565 N jcn_only_AD CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 166;77 K cassette CUFF.1518 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 1039;85 K intron_retention CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 1064;22 N alternative_acceptor chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 255;692 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173471 203;2504 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 27;364 K alternative_donor CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 59;4720 N alternative_donor CUFF.1515 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1508;170 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 100;865 N cassette CUFF.1485 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 30;394 N jcn_only_AD CUFF.1436 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 397;49 K intron_retention CUFF.1441 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 147;738 K jcn_only_AD CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 654;534 K jcn_only_AA CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 1252;474 K alternative_first_exon CUFF.1535 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834568-111834677 83;203 N alternative_donor chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 311;284 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 60;1597 K alternative_last_exon CUFF.1500 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53873190-53874983 chr12:53868653-53869850 9969;4499 N jcn_only_AD CUFF.1480 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 273;5 N jcn_only_AA chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 255;158 N jcn_only_AA CUFF.1469,CUFF.1516 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 84;39 K intron_retention CUFF.1531 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 903;222 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 210;334 N alternative_donor CUFF.1469 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 159;218 N alternative_last_exon CUFF.1532 chr12 - chr12:102796345-102813286 chr12:102811782-102813286 chr12:102789597-102796344 chr12:102811267-102811781 339;769 N alternative_donor CUFF.1544 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 207;51 N jcn_only_AA CUFF.1462 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 1111;76 N jcn_only_AD CUFF.1541 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 69;72 N cassette CUFF.1500 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 210;2138 K intron_retention CUFF.1518 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 2968;218 K alternative_donor CUFF.1487 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 423;1747 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 102;256 N jcn_only_AA CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 408;51 N jcn_only_AD CUFF.1532 chr12 - chr12:102796345-102811732;chr12:102796345-102813286 chr12:102796345-102809481 139;150 N alternative_acceptor CUFF.1485 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49350319-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 1489;2339 N jcn_only_AA CUFF.1466 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 169;341 N jcn_only_AA CUFF.1437 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 162;1004 K intron_retention CUFF.1507 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 110;97 K intron_retention CUFF.1495 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 342;256 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 366;704 N cassette CUFF.1466 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 112;592 N alternative_donor CUFF.1443 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 2429;38 K jcn_only_AA CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 824;2008 N alternative_donor CUFF.1477,CUFF.1515 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1574;104 N jcn_only_AD chr12 - chr12:120158391-120287977 chr12:120158391-120159113 182;126 N jcn_only_AD CUFF.1541 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 161;128 N alternative_acceptor CUFF.1500 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 3196;2324 N cassette CUFF.1500 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 264;2772 K coord_cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 120;1984 N cassette CUFF.1455 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 21;2910 N jcn_only_AD chr12 - chr12:102796345-102809481;chr12:102796345-102813286 chr12:102796345-102811732 183;106 K alternative_last_exon CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633226-113633694 chr12:113637848-113638618 248;977 N alternative_first_exon chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476 chr12:48298738-48298915 chr12:48276477-48276812 399;746 K alternative_acceptor CUFF.1544 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 239;395 K jcn_only_AD CUFF.1487 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 423;311 N cassette CUFF.1495 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 76;1207 K intron_retention CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 654;404 N alternative_acceptor CUFF.1469 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 91;7461 K coord_cassette CUFF.1450 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7108732;chr12:7108792-7125577 chr12:7091837-7091943;chr12:7092593-7092700;chr12:7108733-7108791 232;1321 K intron_retention CUFF.1436 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 659;320 K jcn_only_AD CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 59;2968 N alternative_last_exon CUFF.1469,CUFF.1500 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173471 249;383 N alternative_donor chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 274;1404 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 105;697 N jcn_only_AD CUFF.1462 chr12 + chr12:21242864-21279041;chr12:21229504-21279041 chr12:21272562-21279041 398;159 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 121;3104 N alternative_acceptor CUFF.1513 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 128;511 N alternative_donor CUFF.1541 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 69;93 K intron_retention CUFF.1513 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 229;794 K alternative_acceptor CUFF.1500 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 550;898 N cassette CUFF.1521 chr12 + chr12:69203073-69229608;chr12:69203073-69214104;chr12:69203073-69210591;chr12:69203073-69233053;chr12:69203073-69218142 chr12:69203073-69207333;chr12:69207409-69210591,chr12:69207409-69233053,chr12:69207409-69214104,chr12:69207409-69218142,chr12:69207409-69229608 chr12:69207334-69207408 989;2900 N jcn_only_AA CUFF.1477 chr12 - chr12:48272899-48298737;chr12:48293742-48298737 chr12:48276558-48298737 473;713 K alternative_last_exon CUFF.1467 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25562365-25656671;chr12:25629395-25656671 chr12:25652931-25656671 chr12:25562229-25562364;chr12:25629016-25629394 chr12:25652755-25652930 739;113 N intron_retention chr12 - chr12:56708751-56709604 chr12:56708750-56708751;chr12:56709604-56709605 47;122 K intron_retention CUFF.1450 chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 213;122 N jcn_only_AA CUFF.1513 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 128;140 N cassette CUFF.1493 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 63;1463 K intron_retention CUFF.1513 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 908;329 N intron_retention chr12 + chr12:72080101-72080439 chr12:72080100-72080101;chr12:72080439-72080440 43;84 N alternative_donor CUFF.1480 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 70;8 K intron_retention CUFF.1518 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 128;3137 N jcn_only_AA CUFF.1436 chr12 - chr12:332401-344255 chr12:336835-344255 49;259 K jcn_only_AD CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 363;129 K jcn_only_AD CUFF.1318 chr11 + chr11:830714-831223 chr11:831033-831223 chr11:830714-831032 chr11:830713-830714 362;106 N alternative_donor CUFF.1381 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 292;3721 N jcn_only_AD CUFF.1406 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 196;131 K intron_retention CUFF.1327 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 126;633 N alternative_acceptor CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 205;4678 N jcn_only_AA CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 813;60 N jcn_only_AD chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 24;91 N alternative_acceptor CUFF.1395 chr11 - chr11:75520420-75522468;chr11:75514771-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 1106;337 K alternative_first_exon CUFF.1374 chr11 + chr11:63656437-63662630,chr11:63657768-63662630,chr11:63647701-63662630,chr11:63636382-63662630;chr11:63607033-63662630 chr11:63617502-63662630 chr11:63606400-63607032 chr11:63617393-63617501 1630;282 K alternative_acceptor CUFF.1417 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 238;752 K alternative_first_exon CUFF.1323 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785222 chr11:1783363-1783722 83;249 N jcn_only_AD CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 205;43 N cassette CUFF.1417 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 165;1135 K intron_retention CUFF.1376 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 632;1644 N jcn_only_AD CUFF.1335 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 173;775 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 131;477 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 337;304 K intron_retention chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 91;40 N alternative_donor CUFF.1349,CUFF.1402 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 770;52 N cassette CUFF.1357 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 406;1468 N alternative_acceptor CUFF.1409 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 91;131 N alternative_acceptor chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 2955;19 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 21;413 N intron_retention chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 62;971 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 202;175 N intron_retention chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 53;199 K jcn_only_AD CUFF.1367 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 2085;194 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 111;1330 N cassette CUFF.1344 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 45;1736 K intron_retention CUFF.1316 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 758;338 K alternative_first_exon CUFF.1356 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264172 316;178 N jcn_only_AD CUFF.1402 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 224;332 N mutually_exclusive CUFF.1316 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 332;1131 K intron_retention CUFF.1411 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 80;411 N alternative_first_exon CUFF.1367 chr11 + chr11:61583899-61605249,chr11:61596070-61605249;chr11:61584169-61605249 chr11:61594904-61605249 chr11:61583663-61584168 chr11:61594816-61594903 1103;136 N jcn_only_AD chr11 - chr11:8502162-8615290;chr11:8502162-8615629 chr11:8502162-8587256 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 127;26 N mutually_exclusive CUFF.1410 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 273;825 K jcn_only_AA CUFF.1318,CUFF.1426 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 64;158 K alternative_first_exon CUFF.1335 chr11 - chr11:5701469-5705215,chr11:5701469-5706097;chr11:5701469-5958630 chr11:5701469-5706245 chr11:5958631-5958735 chr11:5706246-5706624 263;217 N intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 526;1122 N cassette CUFF.1331 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 23;1077 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 68;52 K alternative_last_exon CUFF.1391 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 20;250 N jcn_only_AA CUFF.1432 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 717;23 N alternative_acceptor CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 947;5897 K intron_retention CUFF.1370 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 425;96 K intron_retention CUFF.1317 chr11 - chr11:556376-556491 chr11:556375-556376;chr11:556491-556492 17;159 N jcn_only_AD chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 61;110 N alternative_donor chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 2035;119 K intron_retention CUFF.1387 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 935;1216 N jcn_only_AA CUFF.1417 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 885;108 N jcn_only_AD CUFF.1424 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 36;272 N alternative_donor chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102959956-102962515 chr11:102962515-102962516 219;1226 K intron_retention CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 39;403 K intron_retention CUFF.1381 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 2676;128 N jcn_only_AD chr11 - chr11:8496364-8502080;chr11:8496364-8615290 chr11:8496364-8588797 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 161;35 N alternative_donor CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117071059-117073717 chr11:117070149-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 1950;39 K intron_retention CUFF.1412 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 581;89 N cassette CUFF.1426 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 337;1684 N cassette CUFF.1357 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 28;878 K jcn_only_AD CUFF.1418 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 731;71 K intron_retention CUFF.1339 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 608;555 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 20;47 N alternative_acceptor CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 967;252 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 54;245 K intron_retention CUFF.1317 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 21;235 K intron_retention CUFF.1422 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 115;26 K alternative_acceptor CUFF.1426 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 992;215 N jcn_only_AA CUFF.1417 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 885;108 N jcn_only_AD CUFF.1323,CUFF.1406 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 254;73 K cassette CUFF.1344 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 65;1094 K alternative_first_exon CUFF.1387 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67782424-67782545;chr11:67777708-67777862 chr11:67776048-67776162 2542;201 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 39;40 K intron_retention CUFF.1370 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 113;51 N jcn_only_AA CUFF.1395 chr11 - chr11:75514563-75522468;chr11:75520420-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 428;306 N jcn_only_AD chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8476291-8615629 chr11:8615629-8615630 64;576 N intron_retention CUFF.1386 chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 435;2950 K intron_retention CUFF.1411 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 78;131 N intron_retention chr11 - chr11:8474454-8615629 chr11:8474453-8474454;chr11:8615629-8615630 64;24 K intron_retention CUFF.1364 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 489;34 N alternative_acceptor CUFF.1387 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 796;258 N cassette CUFF.1387 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 55;4664 K jcn_only_AA CUFF.1318,CUFF.1374 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 486;195 N intron_retention chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 449;678 N alternative_donor CUFF.1432 chr11 - chr11:124767158-124767621;chr11:124767158-124768293 chr11:124767158-124767483 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 1763;391 N alternative_first_exon CUFF.1326 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466613-2466714 chr11:2483036-2483207 59;583 K intron_retention CUFF.1426 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 440;57 N jcn_only_AD CUFF.1339 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8494710-8615629 chr11:8615629-8615630 23;434 N jcn_only_AA CUFF.1432 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 577;163 N alternative_acceptor CUFF.1316 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 328;2542 N cassette CUFF.1410 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 355;198 N alternative_acceptor CUFF.1424 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 22;868 K intron_retention CUFF.1318 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 168;379 N jcn_only_AA CUFF.1395 chr11 - chr11:75514563-75522468;chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 643;91 K alternative_donor CUFF.1318 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 305;630 N alternative_donor CUFF.1381 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 3321;115 K intron_retention CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 435;657 N jcn_only_AD CUFF.1349 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 107;31 K jcn_only_AA CUFF.1347 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 563;1687 N intron_retention chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 124;202 K jcn_only_AA CUFF.1318 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 382;201 K intron_retention CUFF.1402 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 144;120 K intron_retention CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 967;539 N jcn_only_AD CUFF.1370 chr11 - chr11:410028-417324 chr11:410028-417293 54;182 N jcn_only_AD CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117071059-117073717 chr11:117070149-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 396;39 K intron_retention CUFF.1335 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 371;132 N jcn_only_AA CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 59;56 N jcn_only_AA CUFF.1381,CUFF.1387 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 1674;54 N jcn_only_AD chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 204;123 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 19;999 N jcn_only_AD CUFF.1325 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 666;9 N cassette CUFF.1316 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 449;1687 N jcn_only_AA CUFF.1317 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 35;37 K cassette CUFF.1344 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 155;1157 N jcn_only_AD CUFF.1426 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 75;551 K intron_retention CUFF.1426 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 551;48 K jcn_only_AD CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 88;426 K intron_retention CUFF.1340 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 890;205 N jcn_only_AD CUFF.1349,CUFF.1402 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 526;30 K intron_retention CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 327;2162 N cassette CUFF.1349 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 53;217 K intron_retention CUFF.1331 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 176;249 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 3230;720 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 33;127 N cassette CUFF.1406 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 30;542 N cassette CUFF.1325 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 241;1236 K alternative_first_exon CUFF.1392 chr11 + chr11:74624828-74630577;chr11:74622471-74630577 chr11:74630071-74630577 chr11:74624740-74624827;chr11:74622307-74622470 chr11:74629823-74630070 226;258 N jcn_only_AD CUFF.1409 chr11 - chr11:104915386-104916017;chr11:104915386-104972134 chr11:104915386-104915917 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 102;13 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 253;419 N jcn_only_AA chr11 + chr11:63656437-63662630 chr11:63656437-63657693 chr11:63657694-63662630 chr11:63662630-63662631 46;345 N jcn_only_AD CUFF.1381 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 3321;104 N intron_retention chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 49;2835 N cassette CUFF.1417 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 165;1064 N alternative_donor chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 529;1625 N jcn_only_AD CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 381;54 K cassette CUFF.1406 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 646;1725 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 68;310 N jcn_only_AA CUFF.1432 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 186;554 K intron_retention CUFF.1316 chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 438;370 N jcn_only_AA CUFF.1349 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 83;129 K intron_retention CUFF.1349 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 66;128 N jcn_only_AA CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 3329;272 N alternative_acceptor CUFF.1381,CUFF.1388 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 482;1969 K intron_retention CUFF.1424 chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 272;813 N alternative_acceptor CUFF.1417 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 1658;108 N cassette CUFF.1326 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 77;221 N alternative_acceptor CUFF.1395 chr11 - chr11:75514563-75522468;chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 1187;256 K intron_retention CUFF.1381 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 2885;210 N intron_retention chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 50;579 K intron_retention CUFF.1327 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 426;67 K jcn_only_AD CUFF.1316 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 878;438 N alternative_donor chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 415;316 N alternative_donor CUFF.1349 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 2115;39 N alternative_acceptor CUFF.1417 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 1636;130 N jcn_only_AD CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 2833;190 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 83;760 N jcn_only_AA CUFF.1323 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 201;50 K alternative_donor CUFF.1318 chr11 + chr11:830714-831223 chr11:831033-831223 chr11:830714-831032 chr11:830713-830714 362;949 N cassette CUFF.1349 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 84;1612 K intron_retention CUFF.1432 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 189;50 N mutually_exclusive CUFF.1316 chr11 - chr11:408207-409867,chr11:410028-414822 chr11:408207-408694,chr11:408894-414822 chr11:409868-410027 chr11:408695-408893 1505;215 N jcn_only_AD chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 133;5 N cassette CUFF.1417 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 257;5531 N alternative_acceptor CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 59;138 K intron_retention CUFF.1318 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 531;266 N alternative_donor CUFF.1339 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8494710-8615629 chr11:8615629-8615630 23;4180 N alternative_donor CUFF.1426 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 75;823 K intron_retention CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 33;413 K intron_retention CUFF.1318 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 565;22 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 48;1170 K coord_cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 11;210 K intron_retention CUFF.1426 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 384;106 K intron_retention CUFF.1335 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 371;41 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 39;20 N intron_retention CUFF.1412 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 67;666 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 201;1553 N cassette CUFF.1374 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 209;1184 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 1321;60 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 29;59 N jcn_only_AA CUFF.1318,CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 39;67 K intron_retention CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 813;282 K jcn_only_AA CUFF.1327 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 56;521 K alternative_donor CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 363;580 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 33;206 N coord_cassette CUFF.1417 chr11 + chr11:118403177-118404571 chr11:118403177-118403631;chr11:118403923-118404134;chr11:118404267-118404571 chr11:118403632-118403922;chr11:118404135-118404266 100;3261 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 123;48 N alternative_donor CUFF.1402 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 628;194 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 209;2408 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 153;248 K cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 11;303 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 49;1227 N alternative_acceptor CUFF.1381,CUFF.1387 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 1674;165 N alternative_acceptor chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 445;394 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 41;526 N alternative_donor chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 190;187 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 48;2345 K intron_retention CUFF.1335 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 153;599 N jcn_only_AD CUFF.1432 chr11 - chr11:124767158-124767483;chr11:124767158-124767621 chr11:124767158-124768293 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 687;138 N alternative_acceptor CUFF.1318,CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 39;791 N alternative_acceptor CUFF.1357,CUFF.1376 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 2505;174 N jcn_only_AA chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 111;46 K alternative_last_exon CUFF.1392 chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74630826 chr11:74624740-74624827 383;151 K cassette CUFF.1381 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 681;9041 N alternative_donor chr11 - chr11:8502162-8587256;chr11:8502162-8615290 chr11:8502162-8615629 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 2485;86 N intron_retention chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 12;106 K intron_retention CUFF.1352 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 29;1000 K mutually_exclusive CUFF.1397 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 377;195 N jcn_only_AA CUFF.1357 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 298;1143 N alternative_acceptor CUFF.1424 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 6759;85 K intron_retention CUFF.1417 chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 118;34 N jcn_only_AD CUFF.1367 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 52;196 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 840;145 K intron_retention CUFF.1402 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 95;39 K intron_retention CUFF.1424 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 712;163 K intron_retention CUFF.1424 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 348;72 N jcn_only_AA CUFF.1424 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 3551;50 N alternative_acceptor CUFF.1395 chr11 - chr11:75514563-75522468;chr11:75520420-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 593;850 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 119;1290 N alternative_acceptor chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 128;2917 K jcn_only_AA CUFF.1317 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 91;60 N cassette CUFF.1374 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 123;1355 N mutually_exclusive CUFF.1349 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 207;86 N intron_retention chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 842;1345 N jcn_only_AA CUFF.1357,CUFF.1376 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 2505;174 N intron_retention chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 61;160 K alternative_first_exon CUFF.1326 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798216-2798262 chr11:2798728-2799043 59;456 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 59;196 K intron_retention CUFF.1367 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 520;105 N alternative_donor chr11 - chr11:8496364-8502080;chr11:8496364-8588797 chr11:8496364-8615290 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 592;142 N intron_retention chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 190;860 N jcn_only_AA CUFF.1318,CUFF.1367 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 493;67 N jcn_only_AD CUFF.1412 chr11 + chr11:117072658-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 125;310 K alternative_acceptor CUFF.1318,CUFF.1426 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 64;237 K alternative_first_exon CUFF.1370,CUFF.1418 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367906 chr11:62366690-62366855 444;110 K jcn_only_AA CUFF.1426 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1043;124 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999901;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999865 1095;696 K cassette CUFF.1347 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 69;1728 N alternative_donor CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 59;133 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 108;332 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 387;119 K intron_retention CUFF.1370 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 114;287 K intron_retention CUFF.1422 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 585;70 N cassette CUFF.1374 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 562;477 K intron_retention CUFF.1318 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 305;581 K alternative_first_exon CUFF.1424 chr11 - chr11:119291640-119295607;chr11:119291640-119293822 chr11:119291640-119292320 chr11:119293823-119294838 chr11:119292321-119292417 8051;126 N cassette CUFF.1417 chr11 + chr11:118403177-118404571;chr11:118403923-118404571 chr11:118403177-118404134,chr11:118403923-118404134;chr11:118404267-118404571 chr11:118404135-118404266 1020;1580 K intron_retention CUFF.1318 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 382;71 N jcn_only_AD CUFF.1357 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 14;532 N intron_retention CUFF.1381 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 145;5169 N alternative_acceptor CUFF.1432 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 3496;23 N alternative_donor CUFF.1406 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 600;131 N jcn_only_AA chr11 + chr11:36317989-36422546 chr11:36317989-36318920 144;18 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 31;1300 K intron_retention CUFF.1431 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 39;188 N cassette CUFF.1422 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 40;3774 K alternative_first_exon CUFF.1387 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67782424-67782545;chr11:67776048-67776162 chr11:67777708-67777862 570;2173 N alternative_acceptor CUFF.1410 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 23;542 N cassette CUFF.1344 chr11 - chr11:8496614-8615290 chr11:8496614-8554894;chr11:8555044-8615290 chr11:8554895-8555043 45;410 N alternative_donor CUFF.1424 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 53;65 K alternative_acceptor CUFF.1391,CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 33;266 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-64001365 chr11:63999437-63999981 1228;563 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 326;104 K intron_retention CUFF.1318 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 201;42 K cassette CUFF.1422 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 89;184 N intron_retention chr11 - chr11:65480304-65480390 chr11:65480303-65480304;chr11:65480390-65480391 7;58 N intron_retention chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 30;238 K cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 11;428 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 125;46 N jcn_only_AD CUFF.1412 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 61;527 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 42;387 N jcn_only_AA chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 142;42 K jcn_only_AA CUFF.1318 chr11 + chr11:830714-831223 chr11:830714-830865 chr11:830866-831223 chr11:831223-831224 362;168 N cassette CUFF.1422 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 86;6263 N alternative_donor CUFF.1424 chr11 - chr11:119230945-119252182;chr11:119230945-119234558 chr11:119230945-119243416 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 2321;78 N alternative_acceptor CUFF.1318,CUFF.1417 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 1096;1040 N alternative_acceptor CUFF.1406 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 30;305 K alternative_first_exon CUFF.1317,CUFF.1349 chr11 - chr11:558980-560682;chr11:558980-559968 chr11:558980-559346 chr11:559969-560236 chr11:559347-559498 125;44 K cassette CUFF.1329 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 104;196 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 55;1116 N coord_cassette CUFF.1331 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 176;750 K intron_retention CUFF.1432 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 170;69 K intron_retention CUFF.1318 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 362;444 N intron_retention chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 72;926 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 39;40 K mutually_exclusive CUFF.1329 chr11 + chr11:3239790-3241456,chr11:3241590-3242799 chr11:3239790-3240929,chr11:3241019-3242799 chr11:3241457-3241589 chr11:3240930-3241018 196;92 N alternative_donor CUFF.1412 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 61;653 K alternative_donor CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 88;2753 N mutually_exclusive CUFF.1335 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 93;767 K intron_retention CUFF.1349 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 129;212 N alternative_acceptor chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 111;125 N alternative_last_exon CUFF.1349 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818583-10819428 chr11:10823596-10823756 787;548 N jcn_only_AA CUFF.1357 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 578;42 N jcn_only_AA CUFF.1417 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 216;777 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 96;210 N jcn_only_AD CUFF.1424 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 53;23 N mutually_exclusive CUFF.1417 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 128;404 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 304;306 N alternative_acceptor CUFF.1323 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 201;79 N mutually_exclusive CUFF.1357 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 71;780 K intron_retention CUFF.1376 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 450;360 K intron_retention CUFF.1339 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 1123;576 N alternative_donor CUFF.1432 chr11 - chr11:124767158-124767483;chr11:124767158-124767621 chr11:124767158-124768293 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 2016;138 K cassette CUFF.1409 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 226;322 K intron_retention CUFF.1432 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 152;46 K alternative_first_exon CUFF.1387 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776048-67776162;chr11:67777708-67777862 chr11:67782424-67782545 2374;369 K cassette CUFF.1329 chr11 + chr11:3239790-3242799 chr11:3239790-3240929;chr11:3241019-3242799 chr11:3240930-3241018 104;92 N jcn_only_AD chr11 - chr11:8502162-8587256;chr11:8502162-8615290 chr11:8502162-8615629 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 67;86 K intron_retention CUFF.1335 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 145;366 N coord_cassette CUFF.1325 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188116;chr11:2188263-2188664 chr11:2187863-2187998;chr11:2188117-2188262 241;2329 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 183;957 N jcn_only_AD chr11 - chr11:119230945-119243416;chr11:119230945-119234558 chr11:119230945-119252182 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 286;22 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 203;145 K intron_retention CUFF.1335 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 48;280 K alternative_acceptor CUFF.1347 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 563;2802 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 124;152 N cassette CUFF.1424 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 100;9369 N jcn_only_AD CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 203;39 N cassette CUFF.1403 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 6;216 N mutually_exclusive CUFF.1349 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 207;86 K alternative_donor CUFF.1316 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 878;1568 K intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 696;2429 N alternative_acceptor chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 142;141 N cassette CUFF.1316 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 705;2611 N jcn_only_AD CUFF.1381 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 292;3512 K intron_retention CUFF.1325 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 852;161 K intron_retention CUFF.1366 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 815;390 K cassette CUFF.1397 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 70;102 K intron_retention CUFF.1432 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 461;937 N alternative_donor CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 1579;410 N alternative_acceptor CUFF.1349 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 83;1080 N alternative_acceptor CUFF.1432 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 820;2699 N cassette CUFF.1331 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 277;218 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 39;73 K intron_retention CUFF.1349 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 293;76 K jcn_only_AA CUFF.1368 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 81;27 N alternative_donor CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 205;53 N cassette CUFF.1335 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 46;944 N cassette CUFF.1325 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 156;170 N jcn_only_AA CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 363;41 K jcn_only_AA CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 3863;712 K alternative_acceptor CUFF.1368 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 81;33 N alternative_acceptor chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 110;7282 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 108;332 N alternative_donor CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 1747;242 N mutually_exclusive CUFF.1422 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 172;74 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 253;253 N jcn_only_AA chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 100;19 N intron_retention chr11 - chr11:8486370-8615629 chr11:8486369-8486370;chr11:8615629-8615630 23;77 K intron_retention CUFF.1349 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 755;955 N jcn_only_AD chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 112;41 N coord_cassette CUFF.1374 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 41;476 N alternative_donor CUFF.1402 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 246;576 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 50;61 K jcn_only_AA CUFF.1340 chr11 - chr11:6623446-6624633;chr11:6623495-6624633 chr11:6622006-6624633 196;662 K intron_retention chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 128;137 N alternative_donor chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8476291-8615629 chr11:8615629-8615630 64;6352 N alternative_first_exon CUFF.1417 chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401756-118401949 chr11:118402092-118402316 1253;169 N alternative_donor CUFF.1340,CUFF.1386 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 470;2497 N jcn_only_AA CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 205;48 N alternative_first_exon CUFF.1376 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999006-63999436 chr11:64000176-64000337 401;2660 N intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 563;3342 N alternative_donor CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 256;258 N jcn_only_AA chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 69;50 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 209;1950 N mutually_exclusive CUFF.1374 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 1034;161 K cassette CUFF.1344 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 60;1151 N jcn_only_AA CUFF.1409 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 91;41 N jcn_only_AD CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 59;50 K intron_retention CUFF.1386 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 2497;540 K intron_retention CUFF.1395 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 278;1876 N alternative_donor chr11 - chr11:8496364-8615290;chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 446;288 K intron_retention chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 2819;41 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 84;1077 N alternative_acceptor CUFF.1357 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 478;361 K jcn_only_AA CUFF.1426 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 964;203 K cassette CUFF.1335 chr11 - chr11:5685404-5686885 chr11:5685404-5686398;chr11:5686626-5686885 chr11:5686399-5686625 145;1046 N alternative_donor CUFF.1412 chr11 + chr11:117072658-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 691;1298 K alternative_acceptor CUFF.1318 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 382;244 N alternative_donor CUFF.1367 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 52;384 N alternative_donor chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 38;2760 K intron_retention CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 88;396 K intron_retention chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 403;1042 K jcn_only_AD CUFF.1318 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 305;88 K intron_retention CUFF.1349 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 453;703 N jcn_only_AA CUFF.1387 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 796;49 K cassette CUFF.1406 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 325;945 N jcn_only_AD CUFF.1412 chr11 + chr11:117070546-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 403;32 K intron_retention CUFF.1370 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 110;96 K cassette CUFF.1404 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 98;2322 K alternative_acceptor CUFF.1426 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 367;840 N cassette CUFF.1357 chr11 + chr11:36424929-36453402 chr11:36424929-36440804;chr11:36440854-36453402 chr11:36440805-36440853 83;1012 K intron_retention CUFF.1381 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 482;4299 N jcn_only_AA CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 371;3230 N alternative_donor chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 34;112 K cassette CUFF.1357 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 319;459 K alternative_acceptor CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 3863;1132 N jcn_only_AD chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 38;340 N alternative_donor chr11 - chr11:8502162-8615290;chr11:8502162-8615629 chr11:8502162-8587256 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 1312;1259 N alternative_acceptor CUFF.1357 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 755;84 N jcn_only_AA CUFF.1410 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 23;157 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 23;229 N jcn_only_AD CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 435;98 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 36;898 N jcn_only_AA CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 967;50 K alternative_acceptor CUFF.1317 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 91;64 K alternative_last_exon CUFF.1368 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61516015-61517214 chr11:61521489-61521917 433;656 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 68;307 N alternative_acceptor CUFF.1318,CUFF.1367 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 493;1489 N jcn_only_AD chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 124;49 K intron_retention CUFF.1339 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 460;432 N alternative_donor chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8587257-8615290;chr11:8615291-8615629 chr11:8615290-8615291;chr11:8615629-8615630 1345;1226 N jcn_only_AA chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 69;50 K intron_retention CUFF.1386 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 97;110 K alternative_acceptor CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 327;830 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 77;62 K jcn_only_AA CUFF.1340 chr11 - chr11:6623446-6624633;chr11:6622006-6624633 chr11:6623495-6624633 699;159 K cassette CUFF.1418 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 711;209 N jcn_only_AA CUFF.1406 chr11 - chr11:102937297-102953984 chr11:102953569-102953984 323;412 N jcn_only_AD CUFF.1432 chr11 - chr11:124767158-124767621;chr11:124767158-124768293 chr11:124767158-124767483 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 692;133 K alternative_first_exon CUFF.1370 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369406 chr11:62368495-62368818 428;107 K intron_retention CUFF.1381 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 3900;58 N alternative_acceptor CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 6031;813 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 421;2585 N intron_retention chr11 - chr11:67789001-67795523 chr11:67789000-67789001;chr11:67795523-67795524 6;1261 N mutually_exclusive CUFF.1417 chr11 + chr11:118403177-118404134,chr11:118404267-118404571 chr11:118403177-118403631,chr11:118403923-118404571 chr11:118404135-118404266 chr11:118403632-118403922 241;2936 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 48;826 N jcn_only_AD CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 124;20 N alternative_acceptor chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 1624;1350 N alternative_donor chr11 - chr11:119230945-119243416;chr11:119230945-119234558 chr11:119230945-119252182 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 2377;22 N cassette CUFF.1387 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 216;3373 N alternative_donor CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 124;163 K cassette CUFF.1335 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 371;572 N alternative_donor CUFF.1325 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 666;852 K intron_retention CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 363;371 N alternative_donor CUFF.1424 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 100;2299 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118402960 422;84 K alternative_acceptor CUFF.1426 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1055;152 N jcn_only_AA chr11 - chr11:409102-409867 chr11:409309-409867 128;64 N alternative_acceptor CUFF.1432 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 2722;797 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 156;15 K intron_retention CUFF.1370 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 138;62 N jcn_only_AD chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102959956-102962515 chr11:102962515-102962516 219;639 N alternative_first_exon CUFF.1318 chr11 + chr11:827460-828259;chr11:827712-828259;chr11:827319-828259 chr11:826267-828259 chr11:827543-827711;chr11:827206-827318 chr11:826066-826266 768;140 N intron_retention chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 784;310 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 337;305 K alternative_first_exon CUFF.1340 chr11 - chr11:6622006-6624633 chr11:6622006-6622155 chr11:6624634-6624942 chr11:6622156-6622860 2132;1234 K intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 123;241 N jcn_only_AA CUFF.1406 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 30;123 K intron_retention CUFF.1349 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 5;1751 N jcn_only_AD CUFF.1424 chr11 - chr11:119230945-119252182;chr11:119230945-119234558 chr11:119230945-119243416 chr11:119234559-119243416;chr11:119243417-119252182 chr11:119243416-119243417;chr11:119252182-119252183 294;14 N intron_retention chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 60;366 N jcn_only_AA CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 3552;49 N alternative_acceptor chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 1369;1605 N intron_retention chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 17;1233 N jcn_only_AA chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 128;138 N alternative_acceptor CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 813;201 N mutually_exclusive CUFF.1316 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 332;1131 N alternative_donor CUFF.1349,CUFF.1406 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 281;1873 N alternative_donor CUFF.1323,CUFF.1406 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 447;284 K alternative_acceptor CUFF.1318,CUFF.1374 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 486;195 N cassette CUFF.1418 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 92;964 N cassette CUFF.1339 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 209;1842 N jcn_only_AA CUFF.1318,CUFF.1417 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 1096;1025 K intron_retention CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 256;454 N alternative_donor CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 2833;330 N alternative_first_exon CUFF.1318 chr11 + chr11:827460-828259;chr11:826267-828259;chr11:827319-828259 chr11:827712-828259 chr11:826066-826266;chr11:827206-827318 chr11:827543-827711 818;90 K cassette CUFF.1325 chr11 - chr11:2187999-2188664 chr11:2187999-2188116;chr11:2188263-2188664 chr11:2188117-2188262 144;1504 K jcn_only_AA CUFF.1367 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 727;423 N intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 50;51 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 1170;164 K intron_retention CUFF.1323 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 106;108 K intron_retention CUFF.1349 chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 716;628 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 98;734 K jcn_only_AA CUFF.1426 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 327;840 N alternative_donor CUFF.1357 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 14;2777 K alternative_first_exon CUFF.1392 chr11 + chr11:74630071-74630577;chr11:74624828-74630577 chr11:74622471-74630577 chr11:74629823-74630070;chr11:74624740-74624827 chr11:74622307-74622470 290;194 K intron_retention CUFF.1412 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 527;71 N jcn_only_AD CUFF.1365 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 17;728 N alternative_first_exon CUFF.1357 chr11 + chr11:36322621-36415395;chr11:36383732-36415395 chr11:36398255-36415395 chr11:36383626-36383731 chr11:36397861-36398254 180;1407 N alternative_acceptor CUFF.1417 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 238;1528 N jcn_only_AA chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 226;394 N intron_retention chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 88;57 K intron_retention CUFF.1318 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 88;457 K jcn_only_AA CUFF.1391,CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 33;80 N jcn_only_AA CUFF.1395 chr11 - chr11:75520420-75522468;chr11:75514771-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 397;337 N alternative_acceptor chr11 + chr11:63656437-63662630 chr11:63656437-63657693 chr11:63657694-63662630 chr11:63662630-63662631 46;443 K intron_retention CUFF.1349 chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 258;113 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 30;502 N alternative_donor chr11 - chr11:8496364-8502080;chr11:8496364-8615290 chr11:8496364-8588797 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 430;304 N jcn_only_AA chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 110;2852 N jcn_only_AD CUFF.1402 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 362;194 K intron_retention chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 609;446 N jcn_only_AA CUFF.1381,CUFF.1388 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 482;145 N jcn_only_AD CUFF.1327 chr11 - chr11:408894-409859 chr11:408894-409216 37;55 K intron_retention CUFF.1339 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 471;566 K jcn_only_AA CUFF.1434 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 23;185 N jcn_only_AA CUFF.1392 chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 456;50 N alternative_first_exon CUFF.1318 chr11 + chr11:827460-828259;chr11:827712-828259;chr11:826267-828259 chr11:827319-828259 chr11:827543-827711;chr11:826066-826266 chr11:827206-827318 341;567 N jcn_only_AA CUFF.1316 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 328;1950 K jcn_only_AA CUFF.1417 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 238;752 K cassette CUFF.1422 chr11 - chr11:118926880-118927730 chr11:118926880-118926990;chr11:118927117-118927730 chr11:118926991-118927116 149;4232 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 50;902 K intron_retention CUFF.1316 chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 878;719 N alternative_donor chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 124;91 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 101;70 N jcn_only_AD chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124767622-124768293 chr11:124768293-124768294 128;23 N jcn_only_AD CUFF.1340,CUFF.1386 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 470;435 N jcn_only_AD CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 256;21 K alternative_first_exon CUFF.1392 chr11 + chr11:74630071-74630577;chr11:74622471-74630577 chr11:74624828-74630577 chr11:74629823-74630070;chr11:74622307-74622470 chr11:74624740-74624827 452;32 N alternative_donor CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 203;182 N jcn_only_AD chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124767484-124767621;chr11:124767622-124768293 chr11:124767621-124767622;chr11:124768293-124768294 271;554 N jcn_only_AA CUFF.1424 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 22;15 K cassette CUFF.1349 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 258;1980 N jcn_only_AD CUFF.1349,CUFF.1406 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 75;63 K alternative_first_exon CUFF.1318 chr11 + chr11:827460-828229;chr11:826267-828229 chr11:827712-828229 chr11:826066-826266 chr11:827543-827711 389;342 N alternative_acceptor CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 363;540 N alternative_donor CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 435;503 K alternative_acceptor CUFF.1434 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 23;421 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 61;1407 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 77;876 K jcn_only_AA CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 327;278 N jcn_only_AD CUFF.1349 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 99;39 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 75;298 N jcn_only_AD chr11 - chr11:8496364-8615290;chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 177;19 N alternative_donor chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124767622-124768293 chr11:124768293-124768294 128;1352 N alternative_donor CUFF.1409 chr11 - chr11:104915386-104916017;chr11:104915386-104972134 chr11:104915386-104915917 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 123;23 K alternative_acceptor CUFF.1318 chr11 + chr11:830714-831223 chr11:830714-830865 chr11:830866-831223 chr11:831223-831224 362;1360 N jcn_only_AD CUFF.1409 chr11 - chr11:104915386-104916017;chr11:104915386-104915917 chr11:104915386-104972134 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 104;11 K jcn_only_AA CUFF.1340 chr11 - chr11:6622006-6624633;chr11:6623495-6624633 chr11:6623446-6624633 821;37 N intron_retention chr11 - chr11:118927717-118927742 chr11:118927716-118927717;chr11:118927742-118927743 2;223 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 362;15 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 32;154 K intron_retention CUFF.1426 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 419;25 K intron_retention CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 3863;484 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 63;1708 N alternative_acceptor CUFF.1424 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 6795;49 K intron_retention CUFF.1318 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 469;235 N alternative_donor CUFF.1349 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 2031;123 K alternative_acceptor CUFF.1327 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 56;521 N jcn_only_AD chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 118;53 N cassette CUFF.1316 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 114;2889 K alternative_first_exon CUFF.1388 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819514-67819908 514;891 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 20;57 N jcn_only_AA CUFF.1357 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 436;184 K intron_retention CUFF.1422 chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 1745;51 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-63999981 chr11:63999437-64001365 1680;111 N alternative_acceptor CUFF.1317 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 35;57 N jcn_only_AD chr11 - chr11:8496364-8502080;chr11:8496364-8588797 chr11:8496364-8615290 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 54;142 N alternative_donor CUFF.1365 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 17;909 K intron_retention CUFF.1318 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 106;553 N alternative_donor CUFF.1409 chr11 - chr11:104915386-104916017;chr11:104915386-104915917 chr11:104915386-104972134 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 135;11 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999901 1370;421 K intron_retention CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 2833;559 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 14;39 N coord_cassette CUFF.1242 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158027;chr10:46158130-46158989 chr10:46148432-46148507;chr10:46158028-46158129 56;1378 N alternative_acceptor CUFF.1265 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 720;195 N jcn_only_AA CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 1061;10 N alternative_first_exon CUFF.1234 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35415719-35416121 chr10:35416353-35416495 2033;418 K cassette CUFF.1251 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 739;146 N alternative_donor CUFF.1309 chr10 + chr10:124151889-124152696;chr10:124134364-124152696 chr10:124134323-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 1155;33 K mutually_exclusive CUFF.1285 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 133;64 K coord_cassette CUFF.1242 chr10 - chr10:46113709-46143741 chr10:46113709-46120030;chr10:46120086-46121398;chr10:46122554-46135263;chr10:46135412-46143741 chr10:46120031-46120085;chr10:46121399-46122553;chr10:46135264-46135411 44;4928 N jcn_only_AD CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 631;15 N alternative_acceptor CUFF.1265 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1308;591 N alternative_acceptor CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 804;34 N alternative_acceptor CUFF.1270 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 590;23 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 71;370 N jcn_only_AA CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96954435-96961197 chr10:96961198-96961741 chr10:96961741-96961742 694;19 N alternative_acceptor CUFF.1265 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 844;945 N alternative_acceptor CUFF.1246 chr10 + chr10:60029065-60036876 chr10:60029065-60035877 chr10:60035878-60036876 chr10:60036876-60036877 92;28 K alternative_first_exon CUFF.1228 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 292;120 N alternative_acceptor CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73862726-73887839 chr10:73862171-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 699;130 N coord_cassette CUFF.1234 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35490378;chr10:35490415-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35490379-35490414 372;1923 N jcn_only_AA CUFF.1270 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 590;17 K cassette CUFF.1280 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 136;1699 K alternative_acceptor CUFF.1251 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 60;221 N alternative_donor CUFF.1309 chr10 + chr10:124151889-124152696;chr10:124134323-124152696 chr10:124134364-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 1136;52 N jcn_only_AA chr10 + chr10:124186548-124189139 chr10:124186548-124187791 83;151 K coord_cassette CUFF.1251 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 53;153 N jcn_only_AD CUFF.1256 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 356;56 N jcn_only_AD CUFF.1257 chr10 - chr10:73956748-73963184;chr10:73956748-73958206 chr10:73956748-73972944 1536;71 K alternative_donor CUFF.1280 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 17;725 N alternative_donor CUFF.1242 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 150;941 K cassette CUFF.1242 chr10 - chr10:46148508-46158989 chr10:46148508-46158027;chr10:46158130-46158989 chr10:46158028-46158129 115;961 K intron_retention CUFF.1258 chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 214;304 N cassette CUFF.1224 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 212;993 N jcn_only_AA CUFF.1265 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 269;71 N jcn_only_AA CUFF.1205 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 57;144 N alternative_donor CUFF.1242 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 282;84 N cassette CUFF.1224 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 142;1135 N alternative_acceptor CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 631;9 K intron_retention CUFF.1306 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 29;72 N coord_cassette CUFF.1224 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 81;1310 N alternative_acceptor CUFF.1265 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1476;423 N jcn_only_AA CUFF.1265 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 373;207 N coord_cassette CUFF.1287 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 41;173 K coord_cassette CUFF.1208 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 9;3513 N coord_cassette CUFF.1234 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35490378;chr10:35490415-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35490379-35490414 116;1392 K alternative_last_exon CUFF.1201 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370573-370959 4;1077 N alternative_donor CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 631;16 N alternative_donor CUFF.1309 chr10 + chr10:124134323-124152696;chr10:124134364-124152696 chr10:124151889-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 85;1103 N jcn_only_AD chr10 - chr10:341565-804067 chr10:341565-804065 171;5 N jcn_only_AD CUFF.1242 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 567;84 K coord_cassette CUFF.1205 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5122937;chr10:5123094-5138601 chr10:5120062-5120169;chr10:5122938-5123093 202;203 K cassette CUFF.1205 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5138601 chr10:5120062-5120169 202;439 K cassette CUFF.1273 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 14;218 N jcn_only_AD CUFF.1220,CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 1061;12 N alternative_donor CUFF.1256 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 356;56 K alternative_first_exon CUFF.1233 chr10 - chr10:35360268-35363119;chr10:35360268-35379357;chr10:35360268-35378823 chr10:35360268-35379106 chr10:35363120-35363305;chr10:35379358-35379660;chr10:35378824-35379058 chr10:35379107-35379354 879;133 N jcn_only_AD CUFF.1309 chr10 + chr10:124151889-124152696;chr10:124134364-124152696 chr10:124134323-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 359;33 N cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 53;1224 N cassette CUFF.1208 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 92;1093 N jcn_only_AA CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 918;398 K intron_retention CUFF.1309 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 33;104 N jcn_only_AD chr10 + chr10:124187833-124189139;chr10:124187937-124189139 chr10:124186548-124189139 146;83 K intron_retention CUFF.1306 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 6;21 N intron_retention chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 6;127 N alternative_donor CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 562;10 K alternative_first_exon CUFF.1222,CUFF.1261 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290405 chr10:76289051-76289201 178;228 N jcn_only_AA CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 562;10 N alternative_donor CUFF.1257 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 1203;156 N alternative_donor CUFF.1265 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 67;2381 N coord_cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27059451;chr10:27059470-27065993;chr10:27066171-27112066 chr10:27059452-27059469;chr10:27065994-27066170 53;551 N alternative_acceptor CUFF.1233 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 416;399 K cassette CUFF.1201 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 6;508 N jcn_only_AA CUFF.1234 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 3709;1151 N mutually_exclusive CUFF.1308 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 125;206 K cassette CUFF.1201 chr10 - chr10:410523-412214 chr10:410523-410754;chr10:410962-412214 chr10:410755-410961 23;90 N jcn_only_AA CUFF.1242 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 582;23 K alternative_first_exon CUFF.1308 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123688409 chr10:123687359-123687623 913;323 N alternative_donor CUFF.1257,CUFF.1265 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 1382;711 N jcn_only_AA CUFF.1220 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 59;31 K cassette CUFF.1251 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 53;821 K alternative_first_exon CUFF.1283 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491946-101492166 111;1986 K intron_retention CUFF.1229 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 34;53 N alternative_acceptor CUFF.1265 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 1180;609 N alternative_acceptor CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 2011;697 N jcn_only_AA CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 631;9 N cassette CUFF.1224 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 49;580 N jcn_only_AD CUFF.1201 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 217;4 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 29;222 N cassette CUFF.1242 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 56;649 K alternative_first_exon CUFF.1312 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 188;294 N cassette CUFF.1308 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 40;267 N cassette CUFF.1208 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 9;1551 N jcn_only_AA chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 31;250 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 202;2352 N alternative_acceptor CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964 chr10:73973110-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 2454;254 K alternative_first_exon CUFF.1233,CUFF.1242 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35378823 chr10:35360268-35379357 chr10:35379107-35379354;chr10:35363120-35363305;chr10:35378824-35379058 chr10:35379358-35379660 733;279 N cassette CUFF.1234 chr10 + chr10:35464634-35477127 chr10:35464634-35468061;chr10:35468205-35477127 chr10:35468062-35468204 650;4803 N jcn_only_AD CUFF.1257,CUFF.1265 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 1382;553 N jcn_only_AD chr10 + chr10:124186548-124189139;chr10:124187937-124189139 chr10:124187833-124189139 166;63 N jcn_only_AA CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 804;34 N alternative_acceptor CUFF.1265 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 269;797 N coord_cassette CUFF.1205 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 119;1330 K mutually_exclusive CUFF.1224 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 273;129 N coord_cassette CUFF.1234 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 116;2679 N jcn_only_AD CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96961279-96961741 chr10:96954435-96961278 chr10:96954434-96954435 694;30 N cassette CUFF.1221 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 24;234 N alternative_acceptor chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 31;1090 N jcn_only_AD chr10 + chr10:124187833-124189139;chr10:124186548-124189139 chr10:124187937-124189139 146;83 N alternative_donor CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73857209-73862607 chr10:73857209-73862091 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 401;238 K intron_retention CUFF.1258 chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 18;425 K jcn_only_AA CUFF.1233 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 54;299 K cassette CUFF.1208 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 11;1957 N jcn_only_AA CUFF.1265 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 273;67 N jcn_only_AD CUFF.1220,CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 804;33 N alternative_acceptor CUFF.1265 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 1554;235 N coord_cassette CUFF.1234 chr10 + chr10:35464634-35477127 chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127 chr10:35467817-35467914;chr10:35468062-35468204 650;6996 K mutually_exclusive CUFF.1265 chr10 - chr10:78729826-78761164,chr10:78761339-78771724 chr10:78729826-78734244,chr10:78734332-78771724 chr10:78761165-78761338 chr10:78734245-78734331 943;299 N alternative_acceptor CUFF.1234 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 3709;5329 K cassette CUFF.1287 chr10 + chr10:106976881-106982873 chr10:106976881-106977601;chr10:106977724-106982873 chr10:106977602-106977723 27;112 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 226;1203 K jcn_only_AA CUFF.1208 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 819;8 N alternative_donor CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124166190-124172435 chr10:124157491-124166189 chr10:124157490-124157491 42;311 N alternative_acceptor CUFF.1205 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 57;296 N jcn_only_AD CUFF.1242,CUFF.1258 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 582;68 N jcn_only_AA CUFF.1270 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 12;903 N cassette CUFF.1308 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 106;1101 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 228;32 K alternative_acceptor CUFF.1251 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 46;334 N jcn_only_AA CUFF.1233 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 416;160 K jcn_only_AD CUFF.1223 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;3 K alternative_first_exon CUFF.1208 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186881-6186976 chr10:6244735-6245299 41;4581 N jcn_only_AD chr10 - chr10:73956748-73972944;chr10:73956748-73958206 chr10:73956748-73963184 385;1222 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 133;94 N alternative_acceptor CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73862171-73887839 chr10:73862726-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 474;355 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 1222;294 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 202;22 N alternative_acceptor CUFF.1265 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 864;202 K alternative_last_exon CUFF.1220 chr10 - chr10:17636383-17645558 chr10:17641411-17645558 chr10:17636204-17636382 chr10:17641265-17641410 47;113 K cassette CUFF.1283 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 978;347 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 492;415 N jcn_only_AA CUFF.1257 chr10 - chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 1147;169 K cassette CUFF.1314 chr10 - chr10:135060555-135061294 chr10:135060555-135061057;chr10:135061206-135061294 chr10:135061058-135061205 34;1695 K alternative_first_exon CUFF.1238 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572428-43572779 chr10:43606655-43606913 273;65 N cassette CUFF.1308 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 56;411 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 99;161 N jcn_only_AA chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 47;113 N jcn_only_AD CUFF.1265,CUFF.1312 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 1024;16 K jcn_only_AD CUFF.1287 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 49;19 K jcn_only_AD CUFF.1280 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 17;693 K alternative_acceptor CUFF.1233 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 54;299 N jcn_only_AA CUFF.1257 chr10 - chr10:73862171-73887839;chr10:73862726-73887839 chr10:73857209-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 436;344 N alternative_acceptor CUFF.1257 chr10 - chr10:73862171-73887839;chr10:73862726-73887839 chr10:73857209-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 485;344 N alternative_acceptor chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 47;113 N jcn_only_AA CUFF.1257 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 1358;71 N cassette CUFF.1308 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 56;494 N alternative_acceptor CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 562;46 N cassette CUFF.1234 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 1159;7802 K jcn_only_AA CUFF.1221 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 26;84 N jcn_only_AA CUFF.1265 chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 51;22 K mutually_exclusive CUFF.1308 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 368;411 N jcn_only_AD CUFF.1265 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 67;51 K cassette CUFF.1251 chr10 + chr10:70661228-70666466 chr10:70661228-70665981;chr10:70666094-70666466 chr10:70665982-70666093 38;678 N intron_retention chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 101;317 N cassette CUFF.1257 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 144;1452 N jcn_only_AD CUFF.1257 chr10 - chr10:73956748-73963184;chr10:73956748-73972944 chr10:73956748-73958206 1293;314 N jcn_only_AA CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73973110-73975964 chr10:73975613-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 1215;101 K jcn_only_AD CUFF.1220 chr10 - chr10:17636383-17645558 chr10:17636383-17641288 38;75 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 351;106 K jcn_only_AA CUFF.1282 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 97;164 N jcn_only_AD CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124166190-124172435 chr10:124157491-124166189 chr10:124157490-124157491 42;311 N jcn_only_AA CUFF.1265 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 736;171 K cassette CUFF.1248 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 534;1352 K alternative_first_exon CUFF.1233 chr10 - chr10:35360268-35379106;chr10:35360268-35379357;chr10:35360268-35378823 chr10:35360268-35363119 chr10:35379107-35379354;chr10:35379358-35379660;chr10:35378824-35379058 chr10:35363120-35363305 635;377 K alternative_first_exon CUFF.1256,CUFF.1257 chr10 - chr10:73515224-73520624 chr10:73515224-73517334 chr10:73520625-73520681 chr10:73517335-73517480 8;77 N alternative_donor CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96961279-96961741 chr10:96954435-96961278 chr10:96954434-96954435 694;30 N alternative_donor CUFF.1257 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 666;1617 N cassette CUFF.1208 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 37;2054 N jcn_only_AA CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 801;515 N alternative_donor CUFF.1242 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 1025;66 N alternative_donor CUFF.1242,CUFF.1258 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 582;605 K cassette CUFF.1246 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 190;1344 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 1274;155 N alternative_donor CUFF.1201 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 217;11 N jcn_only_AD CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73857209-73862607 chr10:73857209-73862091 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 391;196 N alternative_acceptor CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73973110-73975964 chr10:73975613-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 2506;202 K cassette CUFF.1233 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 96;765 N jcn_only_AD CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73857209-73862091 chr10:73857209-73862607 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 540;47 K alternative_donor CUFF.1223 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;12 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 29;372 N jcn_only_AA CUFF.1257 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 1382;243 N alternative_donor CUFF.1308 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 12;1743 N jcn_only_AA CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964 chr10:73973110-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 1183;133 N alternative_donor CUFF.1242 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 1007;84 K alternative_first_exon CUFF.1222 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833374 86;114 K alternative_first_exon CUFF.1201,CUFF.1258 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:428587-428701 chr10:418953-419225 103;71 N jcn_only_AA CUFF.1265 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 427;235 N cassette CUFF.1221 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 24;171 N jcn_only_AD CUFF.1242 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 613;38 K alternative_donor CUFF.1287 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 49;30 N coord_cassette CUFF.1234 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 372;3210 N jcn_only_AA CUFF.1265 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 316;591 N mutually_exclusive CUFF.1208 chr10 + chr10:6265984-6268154,chr10:6268329-6274857 chr10:6265984-6266111,chr10:6266177-6274857 chr10:6268155-6268328 chr10:6266112-6266176 34;262 K intron_retention CUFF.1233 chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 84;29 K alternative_last_exon CUFF.1259 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476873-75476950 chr10:75477773-75477923 43;161 N jcn_only_AA CUFF.1233 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 43;28 N cassette CUFF.1234 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 53;4247 K alternative_donor CUFF.1258,CUFF.1261 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 18;551 N alternative_acceptor CUFF.1308 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 516;450 N alternative_acceptor CUFF.1257 chr10 - chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 1668;1040 N alternative_acceptor CUFF.1257 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 2193;515 N intron_retention chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 21;648 K cassette CUFF.1261 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 134;210 N coord_cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 53;1314 K jcn_only_AA CUFF.1251 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 60;181 K alternative_acceptor CUFF.1221 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 26;84 N alternative_acceptor CUFF.1265 chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 51;22 N jcn_only_AD CUFF.1242 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 122;529 N jcn_only_AD CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 562;10 N cassette CUFF.1234 chr10 + chr10:35485071-35495822;chr10:35484143-35495822;chr10:35485028-35495822;chr10:35477317-35495822;chr10:35468205-35495822 chr10:35468205-35490378,chr10:35485071-35490378,chr10:35477317-35490378,chr10:35485028-35490378,chr10:35484143-35490378;chr10:35490415-35495822 chr10:35490379-35490414 3236;3682 N cassette CUFF.1208 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 144;2158 N mutually_exclusive CUFF.1308 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 195;232 K jcn_only_AA CUFF.1238 chr10 + chr10:43572780-43607546 chr10:43572780-43595906 103;16 K cassette CUFF.1308 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 92;524 N jcn_only_AA CUFF.1265 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 391;271 K jcn_only_AD CUFF.1258,CUFF.1261 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 18;214 K alternative_acceptor CUFF.1208 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 819;13 K cassette CUFF.1248 chr10 - chr10:69583151-69597691 chr10:69583151-69587299;chr10:69587442-69597691 chr10:69587300-69587441 812;298 N alternative_acceptor CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96954435-96961197 chr10:96961198-96961741 chr10:96961741-96961742 694;19 N alternative_acceptor CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 1061;15 N alternative_donor CUFF.1265,CUFF.1312 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 1024;49 N alternative_acceptor CUFF.1265 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1014;885 N jcn_only_AD CUFF.1308 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 12;1305 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 492;87 N jcn_only_AA CUFF.1308 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 516;256 N alternative_acceptor CUFF.1257 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 1382;243 K cassette CUFF.1205 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 232;262 N alternative_acceptor CUFF.1220 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 59;42 K jcn_only_AA CUFF.1251 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 46;109 N alternative_donor CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73857209-73862091 chr10:73857209-73862607 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 582;57 K alternative_acceptor CUFF.1282 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 97;164 K cassette CUFF.1265 chr10 - chr10:78729826-78771724 chr10:78729826-78734244;chr10:78734332-78771724 chr10:78734245-78734331 125;321 N alternative_acceptor CUFF.1270 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 12;3867 N alternative_acceptor CUFF.1233 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 43;193 N jcn_only_AD CUFF.1257 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 1203;154 K alternative_first_exon CUFF.1246 chr10 + chr10:60035973-60036876;chr10:60029065-60036876 chr10:60033245-60036876 chr10:60028724-60029064 chr10:60033098-60033244 292;655 N jcn_only_AA CUFF.1265 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 138;202 N alternative_donor CUFF.1220,CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 1061;16 N intron_retention chr10 + chr10:124134364-124152696 chr10:124134363-124134364;chr10:124152696-124152697 42;236 N alternative_acceptor CUFF.1238,CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124157491-124159858 chr10:124159859-124172435 chr10:124172435-124172436 42;401 N jcn_only_AA CUFF.1246 chr10 + chr10:60029065-60036876 chr10:60029065-60035877 chr10:60035878-60036876 chr10:60036876-60036877 92;28 K jcn_only_AA CUFF.1312 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 47;36 N jcn_only_AD CUFF.1242 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 282;40 N jcn_only_AD CUFF.1309 chr10 + chr10:124134323-124152696;chr10:124134364-124152696 chr10:124151889-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 75;317 N jcn_only_AA CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73862726-73887839 chr10:73862171-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 650;130 N alternative_acceptor CUFF.1265 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 999;67 N cassette CUFF.1234 chr10 + chr10:35416122-35437295;chr10:35416496-35437295;chr10:35416122-35467816 chr10:35416122-35426709,chr10:35416496-35426709;chr10:35426808-35437295,chr10:35426808-35467816 chr10:35426710-35426807 1696;2594 N jcn_only_AD CUFF.1257 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 666;269 N alternative_donor chr10 - chr10:73857209-73862091;chr10:73857209-73862607 chr10:73857209-73887839 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 295;344 N jcn_only_AA CUFF.1238,CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124157491-124159858 chr10:124159859-124172435 chr10:124172435-124172436 42;392 N alternative_acceptor CUFF.1242 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 582;560 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 801;262 K alternative_first_exon CUFF.1240 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274351 chr10:44274030-44274137 83;52 K intron_retention CUFF.1249 chr10 + chr10:69921510-69925458 chr10:69921509-69921510;chr10:69925458-69925459 24;46 N intron_retention chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 169;114 N coord_cassette CUFF.1234 chr10 + chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35490378;chr10:35490415-35495822 chr10:35477128-35477316;chr10:35490379-35490414 864;4960 K cassette CUFF.1221 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 47;69 N coord_cassette CUFF.1308 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 40;602 N jcn_only_AD chr10 - chr10:73857209-73862091;chr10:73857209-73862607 chr10:73857209-73887839 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 243;344 N jcn_only_AA CUFF.1265 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 720;43 K alternative_first_exon CUFF.1278 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833630-94833880 478;116 N jcn_only_AA CUFF.1265 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 506;156 N jcn_only_AA CUFF.1265 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 762;145 N jcn_only_AD chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 130;113 N alternative_donor chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 130;165 K intron_retention CUFF.1257 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 515;673 N jcn_only_AD CUFF.1309 chr10 + chr10:124151889-124152696;chr10:124134323-124152696 chr10:124134364-124152696 chr10:124134323-124134363;chr10:124134364-124151888 chr10:124134322-124134323;chr10:124134363-124134364 350;42 K jcn_only_AD CUFF.1249 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 3;235 K cassette CUFF.1259 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 101;168 N alternative_first_exon chr10 - chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73975965-73976148 chr10:73975540-73975694 855;458 N jcn_only_AA CUFF.1257 chr10 - chr10:73857209-73887839;chr10:73862171-73887839 chr10:73862726-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 474;306 N intron_retention chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 398;130 N jcn_only_AA chr10 - chr10:78737397-78771724 chr10:78755467-78771724 21;30 N jcn_only_AA chr10 - chr10:27048168-27054146 chr10:27052890-27054146 356;65 N alternative_acceptor CUFF.1257 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 1222;1003 N jcn_only_AD chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 193;67 K cassette CUFF.1251 chr10 + chr10:70661228-70666466 chr10:70661228-70666039;chr10:70666094-70666466 chr10:70666040-70666093 38;524 N cassette CUFF.1224 chr10 - chr10:27059275-27065993 chr10:27059275-27059451;chr10:27059470-27065993 chr10:27059452-27059469 49;239 K alternative_first_exon CUFF.1233 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35379357 chr10:35360268-35378823 chr10:35379107-35379354;chr10:35363120-35363305;chr10:35379358-35379660 chr10:35378824-35379058 789;223 N cassette CUFF.1308 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 73;792 K cassette CUFF.1306 chr10 - chr10:119774622-119798482 chr10:119774622-119793492;chr10:119793553-119798482 chr10:119793493-119793552 6;107 K cassette CUFF.1265 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 125;943 N alternative_donor CUFF.1220,CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 804;33 N alternative_acceptor CUFF.1898 chr17 - chr17:15586266-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15584537-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 1371;46 K alternative_donor CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 459;3107 N coord_cassette CUFF.1960 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 39;778 K jcn_only_AD CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 63;217 N jcn_only_AD CUFF.1954 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 32;1308 N jcn_only_AA CUFF.1964 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 289;144 K coord_cassette CUFF.1967 chr17 - chr17:79354385-79358928 chr17:79354385-79355676;chr17:79355741-79358745;chr17:79358833-79358928 chr17:79355677-79355740;chr17:79358746-79358832 70;4110 N jcn_only_AD CUFF.1890 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 423;858 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895403 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1615;58 N jcn_only_AD CUFF.1890 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 739;50 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 171;442 K intron_retention CUFF.1954 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 284;486 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 10;509 N jcn_only_AA CUFF.1889 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 3;98 N jcn_only_AA CUFF.1977 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 1433;20 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 95;391 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 131;2200 N jcn_only_AA CUFF.1889 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 452;119 N alternative_donor CUFF.1944 chr17 + chr17:61905570-61907211 chr17:61906924-61907211 chr17:61905570-61906923 chr17:61905569-61905570 71;8886 K intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 203;30 N jcn_only_AA CUFF.1944 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 1422;108 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 26;699 N jcn_only_AA CUFF.1890 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 858;65 N alternative_acceptor chr17 + chr17:61905570-61907211 chr17:61905570-61906853 chr17:61906854-61907211 chr17:61907211-61907212 71;1252 N jcn_only_AD CUFF.1968 chr17 - chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479489 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 832;25 K intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 227;594 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 108;375 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 96;555 K alternative_last_exon CUFF.1975 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993734-79993939 97;2686 N cassette CUFF.1875 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 86;414 N cassette CUFF.1924 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 63;781 N jcn_only_AD chr17 - chr17:15584268-15584364;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15586349 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 927;557 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 114;41 N jcn_only_AA CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 833;424 N alternative_acceptor CUFF.1968 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 48;1378 K alternative_acceptor CUFF.1899 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 175;351 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895133 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 3010;472 K jcn_only_AD CUFF.1889 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 395;38 K jcn_only_AA CUFF.1908 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 230;408 N cassette CUFF.1960 chr17 - chr17:76994046-77001453;chr17:76994369-77005745;chr17:76994046-77005745 chr17:76994369-76996181,chr17:76994046-76996181;chr17:76996353-77001453,chr17:76996353-77005745 chr17:76996182-76996352 599;4639 N alternative_acceptor CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15586266-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 744;673 K cassette CUFF.1889 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 266;528 N jcn_only_AD CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 833;323 N intron_retention CUFF.1944 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 229;228 N alternative_donor CUFF.1912 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 77;49 N alternative_donor CUFF.1954 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 32;1485 N jcn_only_AA CUFF.1964 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 134;216 N jcn_only_AA CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 177;739 N alternative_first_exon CUFF.1944 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61907972-61908295 152;8087 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 21;554 N cassette CUFF.1972 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 173;1441 K intron_retention CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 879;386 N alternative_donor CUFF.1898 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 140;35 K intron_retention CUFF.1922 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 65;82 N alternative_acceptor CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 1086;202 N alternative_acceptor CUFF.1964 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 134;925 N alternative_acceptor CUFF.1954 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 990;62 N jcn_only_AA CUFF.1898 chr17 - chr17:15586266-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15584537-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 1283;41 N coord_cassette CUFF.1960 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 122;1360 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 304;73 N cassette CUFF.1912 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 39;747 N jcn_only_AD CUFF.1936 chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 118;76 K intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 278;341 K intron_retention CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 323;345 N jcn_only_AA chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 62;829 K alternative_first_exon CUFF.1889 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5407909 chr17:5403351-5404517 3685;3725 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895133 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1291;382 N alternative_donor CUFF.1936 chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 118;236 K intron_retention CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 63;173 N alternative_acceptor CUFF.1907 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 20;7 K intron_retention CUFF.1881 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 751;196 K coord_cassette CUFF.1912 chr17 + chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704;chr17:29584745-29585361 chr17:29579956-29580018;chr17:29584705-29584744 39;1944 N mutually_exclusive CUFF.1967 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 69;223 N alternative_acceptor CUFF.1972 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 90;3747 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 260;1537 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 342;605 K intron_retention CUFF.1975 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 2382;536 N jcn_only_AA CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 980;88 K alternative_first_exon CUFF.1929 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685776 chr17:46710876-46711032 357;71 K intron_retention CUFF.1960 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 445;45 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79895103 chr17:79894738-79894845 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1958;1524 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 93;672 N alternative_donor CUFF.1924 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 325;140 K intron_retention CUFF.1976 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 702;167 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 151;170 N intron_retention chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 4;189 N alternative_acceptor CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 1028;732 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 49;656 N jcn_only_AA chr17 + chr17:29706042-29708890 chr17:29706042-29706123 41;22 N jcn_only_AD chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 162;255 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 91;651 N jcn_only_AA CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15586266-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 710;614 K alternative_donor CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 chr17:46993438-46993549 183;321 N alternative_last_exon CUFF.1899 chr17 - chr17:15492542-15499827 chr17:15498141-15499827,chr17:15498205-15499827 chr17:15491700-15492541 chr17:15498062-15498140 380;410 N intron_retention CUFF.1954 chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 94;135 N alternative_donor CUFF.1942 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 562;525 N jcn_only_AA CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 1086;190 N intron_retention chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 179;379 K intron_retention CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 540;206 K jcn_only_AD CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416394-80417867 chr17:80416385-80416393 chr17:80416384-80416385 161;439 N jcn_only_AA chr17 - chr17:15580592-15580888 chr17:15580595-15580888 74;76 N jcn_only_AD chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 228;716 N jcn_only_AD CUFF.1890 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 921;360 N jcn_only_AA CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 840;228 N jcn_only_AA CUFF.1975 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1975;86 N jcn_only_AD chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 228;149 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 98;494 N alternative_acceptor CUFF.1889 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 3;285 K cassette CUFF.1912 chr17 + chr17:29687722-29701030 chr17:29687722-29694242;chr17:29694297-29701030 chr17:29694243-29694296 454;228 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 55;2131 K cassette CUFF.1921 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 102;839 N jcn_only_AD CUFF.1912 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 53;41 K cassette CUFF.1900 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 49;343 K alternative_acceptor CUFF.1908 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 230;948 N intron_retention chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 162;2460 N jcn_only_AA CUFF.1939 chr17 - chr17:57775340-57784731;chr17:57777238-57784731;chr17:57777551-57784731 chr17:57756906-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 168;917 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 95;319 N jcn_only_AD CUFF.1975 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 1482;429 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 56;122 N intron_retention chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 119;300 K cassette CUFF.1895 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 43;227 N jcn_only_AD chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 489;1422 N intron_retention chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 87;574 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845 chr17:79894738-79895103 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1438;235 K intron_retention CUFF.1881 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 445;201 N jcn_only_AA CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 1077;159 N jcn_only_AD CUFF.1890 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1218;63 K alternative_donor CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416394-80417867 chr17:80416385-80416393 chr17:80416384-80416385 161;464 N jcn_only_AA CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 981;255 N cassette CUFF.1898 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 108;877 N coord_cassette CUFF.1908 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 29;2687 N cassette CUFF.1953 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 18;170 N jcn_only_AD CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640 chr17:79479387-79479631 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 851;6 N jcn_only_AD CUFF.1898 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 690;794 N jcn_only_AA CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 937;131 N alternative_donor CUFF.1942 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 832;255 N alternative_donor CUFF.1929 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 41;81 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 118;221 K cassette CUFF.1878 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 1293;2354 N jcn_only_AA CUFF.1889 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 435;53 K intron_retention CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 1397;139 K intron_retention CUFF.1944 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 1840;160 K intron_retention CUFF.1889 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 98;960 K intron_retention CUFF.1964 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 370;622 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 108;1274 K intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 235;546 N intron_retention chr17 - chr17:5487280-5487612 chr17:5487279-5487280;chr17:5487612-5487613 3;718 N jcn_only_AD CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 97;46 N intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 80;88 N jcn_only_AD CUFF.1899 chr17 - chr17:15562191-15584178 chr17:15562191-15580489 197;98 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 86;813 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 10;2630 N cassette CUFF.1908 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 21;944 N alternative_acceptor CUFF.1944 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 2142;1170 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 233;1645 N alternative_acceptor chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 2433;879 N jcn_only_AA CUFF.1954 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 990;62 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895055 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 3379;103 K intron_retention CUFF.1912 chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 654;34 K cassette CUFF.1942 chr17 + chr17:61562734-61563917 chr17:61562734-61563719;chr17:61563733-61563917 chr17:61563720-61563732 478;421 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 90;578 N cassette CUFF.1921 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 7;187 N intron_retention chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 360;919 N jcn_only_AD chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 32;80 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895068 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1446;227 N cassette CUFF.1942 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 85;2599 N jcn_only_AD chr17 - chr17:36345479-36348510 chr17:36345479-36346437 2;3 N jcn_only_AD CUFF.1881 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 917;8 N jcn_only_AD CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479631 chr17:79479387-79479640 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 813;44 K intron_retention CUFF.1936 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 199;596 N jcn_only_AA CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 1437;93 N alternative_acceptor CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 5358;186 K intron_retention CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 4056;249 K jcn_only_AD CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 chr17:46993438-46993549 183;185 N alternative_acceptor CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15584268-15586349 chr17:15586279-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 1276;141 N alternative_donor CUFF.1912 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 90;36 K intron_retention CUFF.1975 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 2240;325 N alternative_acceptor CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 2565;747 N alternative_donor chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 587;1422 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79895103 chr17:79894738-79894845 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1395;278 N jcn_only_AA CUFF.1954 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 62;162 N jcn_only_AA CUFF.1898 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15562191-15584178 1007;197 N cassette CUFF.1942 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 98;1351 N jcn_only_AA CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57777238-57784731;chr17:57777551-57784731 chr17:57775340-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 1053;32 N jcn_only_AD CUFF.1953 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 13;38 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 40;111 K jcn_only_AD CUFF.1936 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 702;79 N alternative_donor chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 32;1769 N alternative_donor CUFF.1975 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 2558;260 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 378;76 K intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 188;1461 K intron_retention CUFF.1926 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 228;308 N jcn_only_AA CUFF.1964 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 46;238 N alternative_acceptor chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 794;123 N cassette CUFF.1912 chr17 + chr17:29677337-29683477 chr17:29677337-29679274;chr17:29679433-29683477 chr17:29679275-29679432 89;916 K cassette CUFF.1977 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 624;3967 N jcn_only_AA CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 323;54 K coord_cassette CUFF.1960 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 297;1663 K jcn_only_AD CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 459;159 N alternative_donor CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 1086;150 N alternative_donor CUFF.1972 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 2616;48 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 917;122 K intron_retention chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 788;877 N alternative_donor CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 833;323 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 131;3039 N alternative_acceptor CUFF.1889 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 452;198 K jcn_only_AD CUFF.1912 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 96;451 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 62;1172 N cassette CUFF.1977 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 68;1861 N alternative_donor CUFF.1975 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 2496;322 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 25;684 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895137 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1211;462 N alternative_donor CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79481572 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 977;28 N jcn_only_AA CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57775340-57784731;chr17:57777238-57784731 chr17:57777551-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 1003;82 N alternative_acceptor CUFF.1977 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 1586;107 K alternative_first_exon CUFF.1977 chr17 + chr17:80417325-80417867,chr17:80417000-80417867;chr17:80416385-80417867,chr17:80416394-80417867 chr17:80416707-80417867 chr17:80416073-80416384 chr17:80416476-80416706 1827;3274 K intron_retention CUFF.1881 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 453;303 N jcn_only_AA CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15584268-15586349 chr17:15586279-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 1212;112 N jcn_only_AA CUFF.1964 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 135;95 N alternative_donor CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 24;128 N jcn_only_AA CUFF.1977 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 262;917 N alternative_acceptor CUFF.1977 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 262;3510 N cassette CUFF.1967 chr17 - chr17:79354385-79358928;chr17:79355741-79358928 chr17:79355741-79358745,chr17:79354385-79358745;chr17:79358833-79358928 chr17:79358746-79358832 158;2687 N cassette CUFF.1960 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 39;2737 N alternative_first_exon CUFF.1875 chr17 - chr17:653150-655857;chr17:653150-654890 chr17:653150-655372 chr17:655858-656102;chr17:654891-655349 chr17:655373-655501 1289;55 K cassette CUFF.1932 chr17 - chr17:47302494-47304008 chr17:47302494-47303017;chr17:47303140-47304008 chr17:47303018-47303139 165;101 N alternative_acceptor CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57775340-57784731;chr17:57777551-57784731 chr17:57777238-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 3028;1035 K alternative_last_exon CUFF.1899 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491700-15492541 37;791 N alternative_acceptor CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 6103;91 N cassette CUFF.1972 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 176;1967 K coord_cassette CUFF.1972 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 138;2458 N alternative_acceptor CUFF.1936 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 90;847 K jcn_only_AA CUFF.1917 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 220;395 N alternative_acceptor CUFF.1977 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 1504;189 N jcn_only_AD CUFF.1942 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 185;454 N intron_retention chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 26;257 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 17;124 N alternative_last_exon CUFF.1890 chr17 + chr17:6352728-6353681,chr17:6352728-6353347 chr17:6352728-6353023 chr17:6353682-6353826 chr17:6353024-6353290 1096;1628 K cassette CUFF.1902 chr17 + chr17:17380580-17394592 chr17:17380580-17388613;chr17:17388748-17394592 chr17:17388614-17388747 22;173 N alternative_acceptor CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57775340-57784731;chr17:57777238-57784731 chr17:57777551-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 2187;1876 N cassette CUFF.1912 chr17 + chr17:29576138-29584704 chr17:29576138-29579955;chr17:29580019-29584704 chr17:29579956-29580018 54;1304 N jcn_only_AA CUFF.1898 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15546131-15584178 chr17:15557746-15584178 1046;158 N jcn_only_AD CUFF.1977 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 1478;43 K cassette CUFF.1930 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 chr17:46987662-46988242;chr17:46993438-46993549 194;719 N alternative_donor CUFF.1960 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 380;70 K cassette CUFF.1941 chr17 + chr17:60783831-60813446 chr17:60783831-60784792;chr17:60784969-60813446 chr17:60784793-60784968 78;1087 N intron_retention chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 44;8 N alternative_acceptor CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 4056;362 K intron_retention CUFF.1944 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 115;526 N alternative_donor CUFF.1890 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1963;118 K intron_retention CUFF.1912 chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 582;20 N cassette CUFF.1967 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 95;2700 N alternative_acceptor CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 2931;381 N jcn_only_AD chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 117;38 N alternative_first_exon CUFF.1875 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655858-656102;chr17:655373-655501 chr17:654891-655349 293;1051 K cassette CUFF.1930 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 chr17:46987662-46988242;chr17:46993438-46993549 194;876 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 515;64 K coord_cassette CUFF.1924 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 612;1312 K intron_retention CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 459;2048 N alternative_donor chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 73;2433 N alternative_donor CUFF.1890 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1721;360 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 142;357 K intron_retention CUFF.1875 chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 96;410 N jcn_only_AA CUFF.1898 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178 chr17:15546131-15584178 903;301 K intron_retention CUFF.1878 chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 159;499 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 679;532 N jcn_only_AD CUFF.1898 chr17 - chr17:15584268-15586349;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 1447;37 K intron_retention CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 chr17:46993438-46993549 183;320 N jcn_only_AD CUFF.1929 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 41;49 N cassette CUFF.1942 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 64;1801 N alternative_donor CUFF.1881 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 917;320 K intron_retention CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 84;353 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 49;797 N jcn_only_AD CUFF.1881 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 26;719 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 29;512 N coord_cassette CUFF.1960 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76993922-76994045;chr17:76994230-76994368;chr17:76996182-76996352 39;1757 K intron_retention CUFF.1912 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 643;34 K intron_retention CUFF.1908 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 513;22 N alternative_acceptor CUFF.1942,CUFF.1977 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 583;293 N alternative_donor CUFF.1881 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 26;971 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 1753;697 N alternative_donor chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 70;2594 N alternative_acceptor CUFF.1890 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 858;216 N jcn_only_AA CUFF.1964 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 192;38 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 131;91 N alternative_first_exon CUFF.1954 chr17 + chr17:66509112-66511127,chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66507921-66508283 chr17:66508485-66508689 357;32 N jcn_only_AD CUFF.1975 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 976;260 N jcn_only_AA CUFF.1907 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 20;5 K intron_retention CUFF.1900 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 92;71 K jcn_only_AA CUFF.1942 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 307;168 K alternative_donor CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 63;343 N alternative_donor CUFF.1953 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 13;38 K intron_retention CUFF.1905 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 337;289 N jcn_only_AA CUFF.1898 chr17 - chr17:15580997-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15581036-15584178 810;394 K intron_retention CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 1028;339 N alternative_acceptor CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15586279-15586349 chr17:15584268-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 860;557 K alternative_first_exon CUFF.1929 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46711032;chr17:46685591-46685776 chr17:46687881-46688379 292;136 N jcn_only_AD CUFF.1912 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 77;17 N jcn_only_AD CUFF.1898 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 140;35 N intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 155;670 K alternative_first_exon CUFF.1911 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421849-29422387 chr17:29455478-29455525 766;86 N jcn_only_AD CUFF.1977 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 728;762 K alternative_last_exon CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75557027-75559326 chr17:75544053-75544076 588;22 N alternative_acceptor CUFF.1964 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 218;356 N jcn_only_AD CUFF.1881 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 567;94 N jcn_only_AD CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 24;7 N intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 1563;208 N alternative_acceptor chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 62;10898 N alternative_acceptor CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 4171;2023 K intron_retention CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 97;392 N jcn_only_AA CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 1028;69 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 651;879 K jcn_only_AA CUFF.1975 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 788;571 N alternative_acceptor CUFF.1939 chr17 - chr17:57775340-57784731;chr17:57777238-57784731;chr17:57777551-57784731 chr17:57756906-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 3146;917 N alternative_acceptor CUFF.1912 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 41;58 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 108;64 N alternative_donor chr17 - chr17:15584268-15584364;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15586349 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 1000;557 K intron_retention CUFF.1954 chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 273;247 N jcn_only_AA CUFF.1942,CUFF.1977 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 583;136 N jcn_only_AA CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 1145;91 K alternative_donor CUFF.1889 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 395;38 N alternative_donor CUFF.1875,CUFF.1975 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 1909;100 N alternative_first_exon CUFF.1930 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985638-46986182 chr17:46990196-46990327 chr17:46993438-46993549 208;546 N alternative_acceptor CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 5285;909 N cassette CUFF.1977 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 705;1963 N intron_retention chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 25;13 N cassette CUFF.1954 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 426;585 K cassette CUFF.1942 chr17 + chr17:61560051-61560820 chr17:61560051-61560389;chr17:61560535-61560820 chr17:61560390-61560534 151;615 N cassette CUFF.1908 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 249;778 N jcn_only_AA chr17 + chr17:61905570-61907211 chr17:61905570-61906853 chr17:61906854-61907211 chr17:61907211-61907212 71;932 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 120;3199 N alternative_acceptor CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 4845;699 N intron_retention chr17 + chr17:80416707-80417875 chr17:80416706-80416707;chr17:80417875-80417876 97;15 K alternative_first_exon CUFF.1928 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339533 81;458 K cassette CUFF.1900 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 39;309 N alternative_donor CUFF.1975 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 582;2236 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 64;217 K intron_retention CUFF.1968 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 973;19 N jcn_only_AA CUFF.1964 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 133;97 K intron_retention CUFF.1909 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 85;109 K alternative_first_exon CUFF.1929 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46711032 chr17:46685591-46685776 207;221 K alternative_donor CUFF.1912 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 96;647 N alternative_donor CUFF.1912 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 85;41 K cassette CUFF.1889 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 169;542 N jcn_only_AD chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 73;1975 K coord_cassette CUFF.1912 chr17 + chr17:29664899-29667522 chr17:29664899-29665042;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665043-29665157;chr17:29665722-29665823 108;1057 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 71;323 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 222;155 N alternative_donor CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 1397;156 N jcn_only_AA CUFF.1881,CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 161;45 K alternative_acceptor CUFF.1975 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 788;1415 N alternative_acceptor CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57777238-57784731;chr17:57777551-57784731 chr17:57775340-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 3828;235 K intron_retention CUFF.1881 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 30;176 K intron_retention CUFF.1944 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 1448;176 K intron_retention chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 449;68 N jcn_only_AD CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6353393-6353681 177;323 K coord_cassette CUFF.1960 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 297;1360 K cassette CUFF.1908 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 388;1918 N jcn_only_AD CUFF.1960 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 380;66 K cassette CUFF.1900 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 137;82 N jcn_only_AD CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 112;60 N alternative_donor chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479759 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 497;508 N jcn_only_AA CUFF.1889 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 483;5 N mutually_exclusive CUFF.1972 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 85;67 N jcn_only_AA chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 794;49 N alternative_donor CUFF.1972 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 2642;22 K intron_retention CUFF.1975 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 1676;1062 N alternative_acceptor CUFF.1878 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 6075;119 K intron_retention CUFF.1908 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 815;82 N alternative_acceptor CUFF.1878 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 2206;3338 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 587;1065 N alternative_acceptor CUFF.1878 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 876;336 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 149;476 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 515;392 N jcn_only_AD CUFF.1942 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 298;307 N cassette CUFF.1924 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 74;180 K coord_cassette CUFF.1900 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 49;522 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 177;279 N alternative_acceptor CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 5413;131 N jcn_only_AA CUFF.1908 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 578;40 K intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 462;442 N jcn_only_AD CUFF.1942 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 486;119 N jcn_only_AD CUFF.1924 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 325;140 N alternative_donor chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 162;3203 N alternative_donor CUFF.1890 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 739;101 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 44;506 N jcn_only_AD CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895055 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 1642;31 K jcn_only_AA CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 540;30 K cassette CUFF.1926 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 127;675 N alternative_acceptor CUFF.1975 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1975;502 N alternative_donor CUFF.1942 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 2478;305 N cassette CUFF.1898 chr17 - chr17:15546131-15562115;chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15580489,chr17:15555261-15562115 chr17:15554405-15555260 190;1519 N jcn_only_AD CUFF.1972 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 1508;44 N alternative_donor CUFF.1977 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 1478;756 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 73;660 N intron_retention CUFF.1954 chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 14;145 K intron_retention CUFF.1967 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 1676;31 N alternative_donor CUFF.1898 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 740;817 N cassette CUFF.1881 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 169;1277 N cassette CUFF.1911 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 36;431 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 8;106 N alternative_acceptor CUFF.1964 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 479;95 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895137 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 2994;488 N cassette CUFF.1919 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 142;193 N alternative_acceptor CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 3177;135 N alternative_donor CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 879;1725 K intron_retention CUFF.1975 chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 571;342 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 31;580 N jcn_only_AA CUFF.1898 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15586279-15586349 chr17:15584268-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 767;557 N cassette CUFF.1898 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 252;806 N alternative_donor CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640 chr17:79479387-79479631 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 990;15 N jcn_only_AA CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 112;33 N alternative_first_exon CUFF.1932 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496809 113;327 K intron_retention chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 509;48 K intron_retention CUFF.1977 chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 624;336 N intron_retention CUFF.1890 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 54;358 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 15;866 N jcn_only_AD CUFF.1942 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 741;55 N jcn_only_AD CUFF.1942 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 546;93 N jcn_only_AA CUFF.1975 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 847;527 N jcn_only_AD CUFF.1898 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 1388;96 N cassette CUFF.1944 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 151;3250 N jcn_only_AD CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 1086;150 N jcn_only_AA chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 56;1397 N alternative_donor CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79490667 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 700;305 N intron_retention chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 73;874 N alternative_acceptor CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 3142;3052 K alternative_last_exon CUFF.1977 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436676-80436794 chr17:80436447-80436469 817;26 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 46;122 N alternative_acceptor CUFF.1964 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 289;799 N alternative_donor CUFF.1898 chr17 - chr17:15584268-15586349;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 1471;86 N alternative_donor CUFF.1977 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 728;1048 N jcn_only_AD CUFF.1912 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 58;36 N jcn_only_AA chr17 + chr17:18604759-18625549 chr17:18604759-18607931 6;8 N jcn_only_AD CUFF.1944 chr17 + chr17:61905570-61907211 chr17:61906924-61907211 chr17:61905570-61906923 chr17:61905569-61905570 71;1657 N jcn_only_AA CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 906;162 N alternative_donor CUFF.1942 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 780;307 N alternative_donor CUFF.1898 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 1460;97 N intron_retention CUFF.1924 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 140;99 N alternative_acceptor CUFF.1881 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 97;1245 N alternative_donor CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 97;2351 N alternative_acceptor chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 515;227 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895403 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 3424;58 K intron_retention CUFF.1944 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 1657;153 N jcn_only_AD CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 1397;17 N jcn_only_AA CUFF.1912 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 41;26 N intron_retention chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 92;235 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 262;333 K intron_retention CUFF.1944 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 1687;188 K intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 716;856 N intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 932;699 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 21;125 K cassette CUFF.1964 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 247;256 K alternative_acceptor CUFF.1917 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 220;395 N jcn_only_AD chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 66;1486 N jcn_only_AA CUFF.1936 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 90;199 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 49;269 N alternative_acceptor CUFF.1964 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 46;987 N intron_retention chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 69;210 N coord_cassette CUFF.1960 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 180;1429 N alternative_acceptor CUFF.1908 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 578;40 K intron_retention chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 1975;808 N alternative_acceptor CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 323;362 K intron_retention CUFF.1928 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 36;73 K jcn_only_AA CUFF.1899 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 175;235 N cassette CUFF.1960 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 1433;975 N jcn_only_AA CUFF.1878 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 520;716 N jcn_only_AA CUFF.1898 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15580595-15584178 1086;118 N cassette CUFF.1953 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 64;75 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845 chr17:79894738-79895103 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 3124;358 N alternative_donor CUFF.1942 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 2690;93 N alternative_donor CUFF.1942 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 741;2965 K intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 382;458 N jcn_only_AD CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79481572 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 829;28 N alternative_first_exon CUFF.1875 chr17 - chr17:653150-654890;chr17:653150-655372 chr17:653150-655857 chr17:654891-655349;chr17:655373-655501 chr17:655858-656102 1106;238 N intron_retention chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 255;911 N alternative_acceptor CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 112;33 N jcn_only_AA CUFF.1878 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 876;41 N jcn_only_AA CUFF.1975 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 1114;260 N alternative_acceptor CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 177;1614 K intron_retention CUFF.1912 chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 535;11 K cassette CUFF.1900 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 162;1405 N jcn_only_AA CUFF.1939 chr17 - chr17:57756906-57784731;chr17:57775340-57784731;chr17:57777551-57784731 chr17:57777238-57784731 chr17:57756906-57775339;chr17:57775340-57777237;chr17:57777238-57777550 chr17:57756905-57756906;chr17:57775339-57775340;chr17:57777237-57777238 1031;54 N jcn_only_AD CUFF.1942 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 426;179 N alternative_donor CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 112;622 N jcn_only_AA CUFF.1889 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 58;430 N alternative_donor CUFF.1881 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 567;299 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 88;2204 N jcn_only_AA CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 1422;108 N intron_retention chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 17;699 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 41;15 N jcn_only_AD CUFF.1975 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 1048;188 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 79;76 N alternative_acceptor chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 296;1397 K intron_retention CUFF.1895 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 58;163 N alternative_donor chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 228;3664 N jcn_only_AA CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 4056;229 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 829;213 N jcn_only_AD CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79490667 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 552;305 N alternative_donor CUFF.1890 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 478;1603 N jcn_only_AA CUFF.1975 chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 787;587 N jcn_only_AA CUFF.1881 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 97;1239 N jcn_only_AD CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 879;515 K alternative_acceptor CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 540;163 N jcn_only_AD CUFF.1972 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 1530;22 K coord_cassette CUFF.1898 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 252;1351 K intron_retention CUFF.1975 chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 527;1069 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 21;3615 N intron_retention CUFF.1944 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 149;288 N alternative_acceptor CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 833;424 N alternative_donor CUFF.1972 chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895068 chr17:79894846-79895055;chr17:79895056-79895068;chr17:79895069-79895103;chr17:79895104-79895133;chr17:79895134-79895137;chr17:79895138-79895403 chr17:79895055-79895056;chr17:79895068-79895069;chr17:79895103-79895104;chr17:79895133-79895134;chr17:79895137-79895138;chr17:79895403-79895404 3003;479 K intron_retention CUFF.1881 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 1112;527 N jcn_only_AD CUFF.1875,CUFF.1975 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 1851;60 N jcn_only_AA CUFF.1944 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 1188;342 N jcn_only_AD CUFF.1942 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 547;92 N intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 63;506 N alternative_donor CUFF.1968 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479631 chr17:79479387-79479640 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 912;93 N jcn_only_AA CUFF.1878 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 1221;15 N alternative_acceptor CUFF.1878 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 4354;1190 N jcn_only_AA CUFF.1968 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 48;1063 N intron_retention CUFF.1898 chr17 - chr17:15584268-15586174 chr17:15584267-15584268;chr17:15586174-15586175 96;41 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 228;2405 N jcn_only_AA CUFF.1977 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 1417;36 K cassette CUFF.1943 chr17 - chr17:61843555-61850771 chr17:61843555-61850136;chr17:61850224-61850771 chr17:61850137-61850223 190;159 N jcn_only_AA CUFF.1972 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 90;1973 K alternative_donor CUFF.1936 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 702;114 N cassette CUFF.1960 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 1818;1190 N jcn_only_AD CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 84;1563 N alternative_donor CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 84;10941 K intron_retention CUFF.1936 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 405;274 K alternative_acceptor CUFF.1942 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 307;708 N alternative_donor CUFF.1942 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 398;2385 N alternative_acceptor CUFF.1964 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 451;123 N alternative_donor CUFF.1968 chr17 - chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479489 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 949;56 N jcn_only_AA CUFF.1878 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 609;459 N jcn_only_AA CUFF.1898 chr17 - chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15580997-15584178 1168;36 N alternative_acceptor CUFF.1881,CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 161;130 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 108;415 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 64;421 N jcn_only_AD chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479759 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 408;449 K cassette CUFF.1927 chr17 - chr17:42113669-42114779 chr17:42113669-42114229;chr17:42114471-42114779 chr17:42114230-42114470 28;786 N jcn_only_AD CUFF.1975 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 448;788 N alternative_donor CUFF.1975 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 1522;487 K jcn_only_AA CUFF.1815 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 301;757 K cassette CUFF.1784 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 115;729 N alternative_donor CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 738;468 N alternative_donor CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 1073;1291 K intron_retention CUFF.1819 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 435;123 N alternative_acceptor CUFF.1855,CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 420;461 K alternative_acceptor CUFF.1768,CUFF.1783 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 83;2890 K jcn_only_AD CUFF.1819 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 514;71 N jcn_only_AD chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 245;10 N alternative_acceptor CUFF.1866 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 10;2566 K intron_retention CUFF.1836 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 329;221 N intron_retention CUFF.1800 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 302;437 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 12;1322 N cassette CUFF.1783 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 67;3134 N alternative_donor CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4465715 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 3456;2286 N jcn_only_AD CUFF.1861 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 403;86 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 76;1359 N alternative_acceptor CUFF.1800 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 1326;291 K alternative_last_exon CUFF.1768 chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:597559-598287 chr16:596817-597392 1629;393 N alternative_donor CUFF.1783 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 2759;1021 N alternative_donor CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63565209-63566720 chr16:63566721-63651596 chr16:63651596-63651597 426;45 N jcn_only_AD CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4465715 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 1053;587 N alternative_acceptor CUFF.1768 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 11;1055 K intron_retention CUFF.1874 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 1068;399 K intron_retention CUFF.1874 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 997;140 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77776186 chr16:77769725-77770146 797;1932 K intron_retention CUFF.1829 chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 225;145 K intron_retention CUFF.1860 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 53;68 K alternative_acceptor CUFF.1873 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 57;42 N jcn_only_AA chr16 + chr16:21976827-22352970 chr16:21976827-21979948 chr16:21979949-22352970 chr16:22352970-22352971 3;268 K alternative_first_exon CUFF.1819 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695667-21695873 54;666 N jcn_only_AD chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 269;76 N cassette CUFF.1800 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 200;1686 N coord_cassette CUFF.1815 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 88;4270 N intron_retention chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 22;257 N jcn_only_AA CUFF.1860 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 13;157 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 142;703 N alternative_acceptor CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 640;13 K intron_retention CUFF.1861 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 204;212 N intron_retention chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 154;114 N jcn_only_AA CUFF.1815 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 709;184 N mutually_exclusive CUFF.1783 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 77;58 N alternative_donor CUFF.1777 chr16 + chr16:2201611-2201695 chr16:2201612-2201695 chr16:2201611-2201611 chr16:2201610-2201611 2;547 N alternative_acceptor CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 3453;245 N intron_retention chr16 - chr16:57513601-57521042 chr16:57513600-57513601;chr16:57521042-57521043 69;359 N alternative_donor CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766 chr16:4463406-4466785 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 5722;20 K intron_retention CUFF.1836 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 711;295 N jcn_only_AD CUFF.1873 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 153;203 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 605;147 N alternative_acceptor CUFF.1860 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 13;157 N alternative_donor chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 1357;233 K intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 653;345 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 1014;151 N cassette CUFF.1815 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 26;881 N intron_retention CUFF.1861 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 171;7 N alternative_donor CUFF.1768 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 67;13 N alternative_donor CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 640;9 K alternative_acceptor CUFF.1767,CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 174;823 K cassette CUFF.1767 chr16 + chr16:105883-106538 chr16:105883-106320;chr16:106421-106538 chr16:106321-106420 1182;129 N alternative_acceptor CUFF.1841 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 685;132 K intron_retention CUFF.1836 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 1074;68 K alternative_donor CUFF.1874 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 624;426 N alternative_donor chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 477;1113 N jcn_only_AD CUFF.1768 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 67;11 N cassette CUFF.1863 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 92;192 N alternative_donor CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4464307 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 5412;330 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 266;787 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 35;337 K intron_retention CUFF.1773 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 279;350 N jcn_only_AD CUFF.1855 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 107;299 K intron_retention CUFF.1863 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 179;193 N jcn_only_AA CUFF.1841 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 296;72 N mutually_exclusive CUFF.1861 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 327;89 K intron_retention chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 268;43 N jcn_only_AD CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4464307 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 1578;62 N intron_retention CUFF.1838 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 13;82 N intron_retention CUFF.1829 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 403;1037 K intron_retention CUFF.1874 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 650;164 N mutually_exclusive CUFF.1783 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 43;153 N coord_cassette CUFF.1783 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 47;7674 N alternative_acceptor chr16 + chr16:21976827-22352970 chr16:21976827-21979948 chr16:21979949-22352970 chr16:22352970-22352971 3;589 N jcn_only_AA CUFF.1856 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 153;987 K intron_retention CUFF.1767 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 68;376 K alternative_first_exon CUFF.1874 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89787907-89788253 612;1027 K jcn_only_AA CUFF.1768,CUFF.1783 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 83;175 N coord_cassette CUFF.1821 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 64;280 N jcn_only_AD CUFF.1860 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 111;14 K alternative_acceptor CUFF.1855 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 43;1693 N cassette CUFF.1813 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 96;641 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 111;263 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 32;788 K alternative_first_exon CUFF.1801 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4526419-4555484;chr16:4546029-4555484 chr16:4524849-4555484 chr16:4526325-4526418;chr16:4545826-4546028 chr16:4524651-4524848 929;319 N mutually_exclusive CUFF.1855 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 208;94 N alternative_donor CUFF.1829 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1577;1046 N cassette CUFF.1838 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 15;172 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6328435-6400445;chr16:6093174-6400445 chr16:6028174-6400445 843;6 N cassette CUFF.1813 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 28;741 K intron_retention CUFF.1777 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 482;333 K alternative_donor CUFF.1819 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 514;284 K alternative_first_exon CUFF.1833 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523453 chr16:28518102-28518155 143;106 K intron_retention CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 738;1035 N jcn_only_AD chr16 - chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4466459 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 704;936 N alternative_donor CUFF.1819 chr16 + chr16:21716359-21716489;chr16:21712391-21716489 chr16:21712349-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 82;435 N cassette CUFF.1856 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 193;239 K cassette CUFF.1856 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 329;624 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 92;124 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6328435-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6028179-6400445 846;3 N cassette CUFF.1821 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 122;378 N alternative_donor CUFF.1855 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 107;308 K alternative_acceptor CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 190;1172 N jcn_only_AD CUFF.1819 chr16 + chr16:21716359-21716489;chr16:21712391-21716489 chr16:21712349-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 29;435 K cassette CUFF.1866 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 333;126 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 56;206 N jcn_only_AA chr16 + chr16:56226529-56268924;chr16:56226529-56247183 chr16:56226529-56309842 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 333;35 N cassette CUFF.1801 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 41;1473 K intron_retention CUFF.1856 chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 647;160 N jcn_only_AD CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766 chr16:4463406-4466785 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 1620;20 N jcn_only_AD chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 557;1261 N jcn_only_AD chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 22;233 K intron_retention CUFF.1819 chr16 + chr16:21730513-21730707 chr16:21730512-21730513;chr16:21730707-21730708 631;13 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 26;358 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 386;32 K intron_retention CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 42;367 N cassette CUFF.1783 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 79;5438 N jcn_only_AD CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 1073;302 N cassette CUFF.1861 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 211;1042 N jcn_only_AD CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 1275;740 K intron_retention CUFF.1800 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 2095;322 N alternative_donor CUFF.1860 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 249;25 K intron_retention CUFF.1858 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 94;202 N jcn_only_AD CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 738;403 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 214;1830 K jcn_only_AA CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 42;366 N coord_cassette CUFF.1800 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 273;5314 N jcn_only_AD CUFF.1860 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 249;16 N cassette CUFF.1838 chr16 + chr16:31374696-31382404 chr16:31374696-31381301;chr16:31381420-31382404 chr16:31381302-31381419 28;10 K intron_retention chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 25;176 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6328435-6400445;chr16:6028174-6400445 chr16:6093174-6400445 28;821 K jcn_only_AA CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 190;647 N alternative_acceptor CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 207;65 N coord_cassette CUFF.1821 chr16 + chr16:21964778-21974081 chr16:21964778-21968555;chr16:21968640-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968556-21968639;chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 381;4100 N alternative_first_exon chr16 - chr16:4254636-4289634;chr16:4254636-4292007 chr16:4254636-4256727 chr16:4292008-4292076 chr16:4256728-4258105 41;531 N cassette CUFF.1800 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 188;4774 K alternative_first_exon CUFF.1777 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190709-2190950 chr16:2198573-2198979 280;1302 K jcn_only_AD CUFF.1855 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 1361;348 N cassette CUFF.1861 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 40;565 N alternative_donor chr16 - chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4466459 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 2761;2981 N jcn_only_AA CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 3453;47 K intron_retention CUFF.1874 chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 700;41 N jcn_only_AA CUFF.1829 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1503;738 N jcn_only_AA CUFF.1800 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 1326;211 N cassette CUFF.1863 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 31;346 N jcn_only_AD chr16 + chr16:6028179-6400445;chr16:6328435-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6093177-6400445 834;15 N jcn_only_AA CUFF.1865 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170264-76174301 chr16:76170263-76170264 193;1415 K alternative_acceptor CUFF.1815 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 301;757 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 111;339 N jcn_only_AA CUFF.1768 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 11;15 N jcn_only_AA CUFF.1856 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 1493;39 N jcn_only_AD CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4466785 chr16:4463406-4465766 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 1605;35 N jcn_only_AD CUFF.1819 chr16 + chr16:21712349-21716489;chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 442;22 K alternative_first_exon CUFF.1841 chr16 + chr16:56269297-56309842,chr16:56260484-56309842;chr16:56226529-56309842 chr16:56227625-56309842 chr16:56226486-56226528 chr16:56227494-56227624 166;851 K cassette CUFF.1777 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 354;649 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 153;415 K intron_retention CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 190;579 K intron_retention chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 58;734 N jcn_only_AD CUFF.1800 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 10;188 N cassette CUFF.1815 chr16 + chr16:19659205-19663297 chr16:19659205-19661703;chr16:19661782-19663297 chr16:19661704-19661781 155;833 N cassette CUFF.1783 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 89;5397 N jcn_only_AD CUFF.1829 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1106;1342 K intron_retention CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 420;179 N alternative_acceptor CUFF.1815 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 709;743 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 446;245 N jcn_only_AD CUFF.1863 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 139;14 K intron_retention CUFF.1861 chr16 + chr16:70398549-70398919 chr16:70398548-70398549;chr16:70398919-70398920 505;6 N coord_cassette CUFF.1863 chr16 - chr16:75576582-75589701 chr16:75576582-75579249;chr16:75579394-75579723;chr16:75579853-75589701 chr16:75579250-75579393;chr16:75579724-75579852 92;275 N alternative_donor CUFF.1860 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 111;14 N jcn_only_AA CUFF.1855,CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 420;171 N alternative_acceptor chr16 + chr16:56226529-56268924;chr16:56226529-56247183 chr16:56226529-56309842 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 782;35 N coord_cassette CUFF.1815 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 108;1249 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 32;334 N alternative_acceptor CUFF.1800 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 88;5657 N jcn_only_AA CUFF.1866 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 10;514 N jcn_only_AA CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 640;13 N jcn_only_AD CUFF.1829 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 2356;92 K intron_retention CUFF.1768 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 37;327 N alternative_donor CUFF.1800 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4466785 chr16:4463406-4465766 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 5617;125 N alternative_acceptor CUFF.1865 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170264-76174301 chr16:76170263-76170264 193;1415 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 3018;822 N alternative_donor CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 3040;740 N jcn_only_AD CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63565209-63566720 chr16:63566721-63651596 chr16:63651596-63651597 426;36 N mutually_exclusive CUFF.1815 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 210;427 N alternative_donor CUFF.1861 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 403;98 N coord_cassette CUFF.1836 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 154;2047 N alternative_donor chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 557;3648 K alternative_donor CUFF.1829,CUFF.1860 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 100;22 K alternative_first_exon CUFF.1815 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19612986-19613045 chr16:19619037-19619183 754;2134 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 42;106 N jcn_only_AA CUFF.1841 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 107;261 N jcn_only_AA CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63566836-63651596 chr16:63565209-63566835 chr16:63565208-63565209 426;82 N cassette CUFF.1841 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 49;110 K alternative_donor CUFF.1855 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 1361;348 N jcn_only_AA CUFF.1849 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 275;653 N alternative_first_exon chr16 - chr16:4445341-4447318,chr16:4445341-4466785;chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466460-4466665 chr16:4455492-4455568 1111;1326 N cassette CUFF.1849 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 250;4304 N alternative_donor CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 2451;1329 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 624;1182 N jcn_only_AA CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 207;13 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 1260;4327 K intron_retention CUFF.1767 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 1182;333 N cassette CUFF.1855 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 84;4274 N alternative_acceptor CUFF.1841 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 167;650 K intron_retention CUFF.1856 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 156;449 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 38;69 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 559;1000 N alternative_acceptor CUFF.1829 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 3794;257 N jcn_only_AD CUFF.1856 chr16 - chr16:4466963-4475478 chr16:4466963-4470359 102;108 N cassette CUFF.1800 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 87;2775 K intron_retention CUFF.1861 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 381;119 N alternative_acceptor CUFF.1849 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 275;968 K intron_retention CUFF.1800 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 2118;123 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 156;905 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 10;1215 K jcn_only_AA CUFF.1873 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 57;42 N cassette CUFF.1861 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 135;565 K jcn_only_AA CUFF.1815 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 365;259 N alternative_donor CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 3090;690 K intron_retention CUFF.1767 chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 54;454 N jcn_only_AA CUFF.1800 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 88;1535 K cassette CUFF.1853 chr16 + chr16:66613796-66620899 chr16:66613796-66613928;chr16:66614088-66620899 chr16:66613929-66614087 chr16:66613351-66613795;chr16:66620900-66621001 118;1678 N alternative_donor CUFF.1863 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 139;14 K alternative_last_exon CUFF.1821,CUFF.1825 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22470676-22470812 chr16:22466771-22466821 177;3 N jcn_only_AD chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 114;1013 K intron_retention CUFF.1829 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 1347;99 K cassette CUFF.1836 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 377;386 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 100;446 K alternative_donor CUFF.1873 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 108;121 K jcn_only_AA CUFF.1767,CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 174;700 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 740;469 K intron_retention CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 1073;401 K intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 1342;155 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 32;169 K alternative_last_exon CUFF.1832 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097646-25098044;chr16:25111841-25112006 chr16:25096913-25097093 1528;151 K intron_retention CUFF.1800 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 972;268 N jcn_only_AD CUFF.1783 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 1923;92 N alternative_donor CUFF.1800 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 10;335 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 100;746 N jcn_only_AD CUFF.1777 chr16 + chr16:2201611-2201695 chr16:2201612-2201695 chr16:2201611-2201611 chr16:2201610-2201611 2;547 K alternative_last_exon CUFF.1805 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660295-5660675 244;1567 K intron_retention CUFF.1858 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 136;240 N coord_cassette CUFF.1861 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 135;991 K intron_retention CUFF.1821 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 1202;115 N jcn_only_AD chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 243;12 N cassette CUFF.1861 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 133;950 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 76;1485 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 2347;1697 N jcn_only_AD CUFF.1829 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1434;1014 K jcn_only_AD CUFF.1873 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 108;48 N alternative_donor chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 1003;419 K alternative_first_exon CUFF.1801 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4524849-4555484;chr16:4546029-4555484 chr16:4526419-4555484 chr16:4524651-4524848;chr16:4545826-4546028 chr16:4526325-4526418 992;256 N jcn_only_AD CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 640;9 K jcn_only_AA CUFF.1858 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 275;194 N intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 275;341 N jcn_only_AD CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 1391;624 K intron_retention CUFF.1801 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 811;411 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 20;241 N alternative_acceptor CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 1073;692 K alternative_acceptor CUFF.1858 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 275;221 K intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 592;333 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 24;3168 N jcn_only_AD chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 143;275 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 58;317 N jcn_only_AA CUFF.1829 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 2085;156 N alternative_donor CUFF.1829 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 2531;92 K intron_retention CUFF.1777 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 366;184 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 92;1289 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 263;343 N intron_retention chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 24;107 K cassette CUFF.1821 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 942;729 N alternative_donor chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 1390;32 N jcn_only_AD CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 3453;32 N alternative_acceptor CUFF.1829 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 3313;738 N jcn_only_AA CUFF.1829 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 894;1347 K jcn_only_AD CUFF.1829,CUFF.1860 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 100;22 K intron_retention CUFF.1813 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 29;490 K intron_retention CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 174;136 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 2378;153 N coord_cassette CUFF.1821 chr16 + chr16:21964778-21974081 chr16:21964778-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 381;4556 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 32;19 N alternative_donor CUFF.1860 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 63;24 N alternative_donor chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 269;76 K jcn_only_AD CUFF.1874 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 624;426 N cassette CUFF.1783 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 248;3908 N alternative_donor CUFF.1825 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 278;99 K intron_retention chr16 + chr16:19584564-19586419 chr16:19584563-19584564;chr16:19586419-19586420 673;70 N cassette CUFF.1815 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 368;2875 N jcn_only_AD CUFF.1825 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 278;48 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 47;557 N alternative_donor chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 451;971 K alternative_donor CUFF.1774 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 299;898 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 24;4086 N alternative_donor chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 1346;244 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6328435-6400445 845;4 N cassette CUFF.1838 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 11;95 K intron_retention CUFF.1777 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 211;481 K jcn_only_AA CUFF.1855 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 43;1693 K intron_retention CUFF.1861 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 103;108 N alternative_acceptor CUFF.1856 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 1493;42 K intron_retention CUFF.1784 chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 42;152 N alternative_donor CUFF.1829 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1138;1485 K alternative_last_exon CUFF.1832 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097646-25098044;chr16:25096913-25097093 chr16:25111841-25112006 646;1033 N alternative_donor CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 220;92 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 111;578 N alternative_donor CUFF.1819 chr16 + chr16:21716359-21716489;chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 509;8 N intron_retention chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 73;667 N alternative_donor CUFF.1819 chr16 + chr16:21712349-21716489;chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 443;74 N mutually_exclusive CUFF.1783 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 43;153 N alternative_donor chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 114;2325 N jcn_only_AD CUFF.1860 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 63;24 K intron_retention CUFF.1858 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 384;215 N cassette CUFF.1866 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 80;1141 K alternative_first_exon CUFF.1849 chr16 - chr16:57513601-57513756,chr16:57513601-57514206,chr16:57513601-57515373,chr16:57513601-57517869,chr16:57513601-57520216,chr16:57513601-57521007,chr16:57513601-57521042,chr16:57513601-57521157;chr16:57513601-57514241 chr16:57513601-57513772 chr16:57514242-57514398 chr16:57513773-57513906 1932;730 K jcn_only_AD CUFF.1774 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 299;898 K intron_retention CUFF.1800 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 1574;648 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 100;1040 N cassette CUFF.1815 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 119;991 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 42;591 K alternative_last_exon CUFF.1832 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096913-25097093;chr16:25111841-25112006 chr16:25097646-25098044 1184;495 N jcn_only_AD CUFF.1783 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 1456;559 K intron_retention CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 220;84 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 392;162 K intron_retention CUFF.1853 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 1151;422 K intron_retention CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 207;85 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 111;635 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 119;196 K alternative_acceptor CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 42;1024 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 15;32 N alternative_acceptor CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63566836-63651596 chr16:63565209-63566835 chr16:63565208-63565209 426;92 N alternative_donor CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 3453;39 K alternative_first_exon CUFF.1815 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566562-19566642 chr16:19566681-19567068 305;1674 N jcn_only_AD CUFF.1819 chr16 + chr16:21716359-21716489;chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 457;7 K alternative_first_exon CUFF.1801 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4524849-4555484;chr16:4526419-4555484 chr16:4546029-4555484 chr16:4524651-4524848;chr16:4526325-4526418 chr16:4545826-4546028 1041;207 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 307;111 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 233;502 N alternative_acceptor CUFF.1829 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 995;3056 N jcn_only_AD CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 220;79 N jcn_only_AA chr16 - chr16:4466963-4475478 chr16:4470555-4475478 102;105 N jcn_only_AA CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 1073;266 K alternative_first_exon CUFF.1813 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15188002-15188245 chr16:15187809-15187959 363;225 N cassette CUFF.1810 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 88;789 N cassette CUFF.1779 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 66;136 K alternative_last_exon CUFF.1784 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3195669-3195779 chr16:3194985-3195168 46;575 K cassette CUFF.1687 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 652;473 K jcn_only_AD CUFF.1761 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 307;93 N alternative_donor CUFF.1717 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 410;19 K intron_retention CUFF.1735 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 101;391 N jcn_only_AD CUFF.1704 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 2343;102 K intron_retention CUFF.1672 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 81;268 N alternative_donor CUFF.1743 chr15 - chr15:83358206-83378345;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83366608 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 4173;87 N alternative_donor CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 382;25 N cassette CUFF.1737 chr15 - chr15:78487069-78526712 chr15:78487069-78518796;chr15:78518948-78526712 chr15:78518797-78518947 37;619 K alternative_acceptor CUFF.1704 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 34;2585 N alternative_donor CUFF.1704 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 501;2152 K intron_retention chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 689;195 K intron_retention CUFF.1720 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 51;165 N alternative_donor CUFF.1743 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83377523 chr15:83358206-83358514 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 3806;454 N coord_cassette CUFF.1697 chr15 - chr15:55485032-55488550 chr15:55485032-55486350;chr15:55486382-55486493;chr15:55486558-55488550 chr15:55486351-55486381;chr15:55486494-55486557 54;173 N cassette CUFF.1659 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 64;2912 N alternative_donor CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 190;140 N cassette CUFF.1681 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 46;1053 N alternative_acceptor CUFF.1732 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 60;558 N jcn_only_AA CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78807450-78810929 chr15:78810930-78819721 chr15:78819721-78819722 355;47 N cassette CUFF.1737 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 37;388 N alternative_donor CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 398;1249 K cassette CUFF.1686 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 38;248 N cassette CUFF.1758 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 181;92 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 15;37 N alternative_acceptor CUFF.1683 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 1796;477 N cassette CUFF.1697 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 54;91 N jcn_only_AD CUFF.1652 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 131;234 N jcn_only_AA CUFF.1704 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 3595;23 N jcn_only_AD CUFF.1663 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 67;141 N jcn_only_AA CUFF.1683 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 57;477 N cassette CUFF.1681 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 233;973 N coord_cassette CUFF.1721 chr15 - chr15:64658275-64673156 chr15:64658275-64665896;chr15:64665964-64668941;chr15:64669105-64673156 chr15:64665897-64665963;chr15:64668942-64669104 20;135 K cassette CUFF.1764 chr15 - chr15:102194934-102197124 chr15:102194934-102196069;chr15:102196224-102197124 chr15:102196070-102196223 227;155 N cassette CUFF.1734 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577421-77578764 chr15:77577300-77577420 6;1144 K coord_cassette CUFF.1686 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47685518;chr15:47685683-47687757 chr15:47672654-47672792;chr15:47685519-47685682 38;129 N jcn_only_AD CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 190;40 N alternative_donor CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24825478-24832713 chr15:24820151-24825477 chr15:24820150-24820151 96;22 N alternative_donor CUFF.1729 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 458;55 N jcn_only_AA CUFF.1743 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 1258;15 N alternative_donor CUFF.1729 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 121;392 K intron_retention CUFF.1743 chr15 - chr15:83348982-83349223 chr15:83348981-83348982;chr15:83349223-83349224 51;43 N intron_retention chr15 - chr15:84873269-84873351 chr15:84873268-84873269;chr15:84873351-84873352 6;18 N jcn_only_AA CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 190;46 N alternative_acceptor CUFF.1683 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 1788;485 N jcn_only_AD CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 2123;134 N alternative_acceptor chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 71;135 N cassette CUFF.1683 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 85;835 N mutually_exclusive CUFF.1681 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 240;102 N jcn_only_AD CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 170;37 N alternative_acceptor CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 382;39 N jcn_only_AA CUFF.1737 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 156;4 K intron_retention CUFF.1720 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 14;100 N cassette CUFF.1734 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 120;1264 N alternative_donor CUFF.1758 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 62;101 N cassette CUFF.1662 chr15 + chr15:30771397-30776704 chr15:30771397-30772944;chr15:30773111-30776704 chr15:30772945-30773110 21;203 K cassette CUFF.1671 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 446;494 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 22;392 N alternative_donor CUFF.1723 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 1062;137 N alternative_acceptor CUFF.1757 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 85;1454 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 94;37 K jcn_only_AD CUFF.1655 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 159;298 K cassette CUFF.1665 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 84;491 N jcn_only_AD CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 659;61 N jcn_only_AD CUFF.1723 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 1062;36 N jcn_only_AD CUFF.1704 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 3529;262 N cassette CUFF.1659 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 19;1204 N alternative_donor CUFF.1683 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 267;523 N alternative_donor CUFF.1729 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 447;66 K alternative_last_exon CUFF.1757 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408691-90408925 1292;576 N cassette CUFF.1699 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 321;186 N alternative_acceptor CUFF.1737 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 156;4 K alternative_donor CUFF.1735 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 442;2539 K cassette CUFF.1721 chr15 - chr15:64658275-64668941 chr15:64658275-64665896;chr15:64665964-64668941 chr15:64665897-64665963 607;68 K cassette CUFF.1699 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 88;1496 N cassette CUFF.1723 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 206;2327 K cassette CUFF.1704 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 1348;784 K alternative_first_exon CUFF.1667 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780240-40780406 chr15:40800148-40800266 42;201 N jcn_only_AD CUFF.1652 chr15 + chr15:24825478-24869114 chr15:24832883-24869114 chr15:24825478-24832882 chr15:24825477-24825478 15;58 N jcn_only_AD CUFF.1685 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 68;44 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 18;450 N alternative_donor CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 472;2969 K intron_retention CUFF.1665 chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 1210;60 N alternative_acceptor CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 659;120 N jcn_only_AD CUFF.1757 chr15 - chr15:90380955-90395592;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90391824 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1263;46 K intron_retention CUFF.1672 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 74;210 N jcn_only_AD CUFF.1704 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 642;335 N jcn_only_AD chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90381260 chr15:90380955-90414706 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 152;1157 K alternative_last_exon CUFF.1687 chr15 - chr15:50805710-50821993;chr15:50793035-50821993 chr15:50793249-50821993 chr15:50792739-50793034 chr15:50793167-50793248 511;531 K alternative_acceptor CUFF.1743 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 239;344 N jcn_only_AA CUFF.1683 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 281;50 K cassette CUFF.1764 chr15 - chr15:102226266-102241288 chr15:102226266-102239533;chr15:102239639-102241288 chr15:102239534-102239638 42;207 K intron_retention CUFF.1681 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 49;113 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 653;3138 N alternative_donor chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 11;41 N jcn_only_AD CUFF.1737,CUFF.1757 chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90414706 chr15:90380955-90381260 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1246;63 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 18;450 N cassette CUFF.1681 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 149;910 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 158;546 N jcn_only_AA chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 567;3051 N alternative_last_exon CUFF.1734 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544820-77544868 chr15:77576096-77576372 84;1884 N alternative_acceptor CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 190;146 K intron_retention CUFF.1681 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 158;175 K cassette CUFF.1764 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 174;137 K alternative_donor CUFF.1723 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 1229;1358 K jcn_only_AA CUFF.1655 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 135;238 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 609;860 N cassette CUFF.1652 chr15 + chr15:24811948-24814929 chr15:24811948-24813677;chr15:24813711-24814929 chr15:24813678-24813710 49;75 N jcn_only_AD CUFF.1743 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83358514 chr15:83358206-83377523 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 3863;58 N alternative_donor CUFF.1704 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 2343;148 N jcn_only_AD CUFF.1683 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 267;316 N alternative_acceptor CUFF.1743 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 1543;406 N jcn_only_AD CUFF.1697 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 15;1192 K intron_retention CUFF.1761 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 249;191 N alternative_acceptor CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 170;40 K jcn_only_AD CUFF.1683,CUFF.1697 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 51;72 N alternative_donor CUFF.1704 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 693;1902 N jcn_only_AA CUFF.1735,CUFF.1760 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1977;17 N mutually_exclusive CUFF.1721 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 37;269 K cassette CUFF.1655 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 182;2803 N coord_cassette CUFF.1704 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 268;3644 N jcn_only_AD CUFF.1758 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 62;92 N alternative_acceptor CUFF.1704 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 18921;903 N alternative_donor CUFF.1697 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 15;6891 K intron_retention CUFF.1720 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 167;38 N alternative_last_exon CUFF.1699 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722494-55722977 97;175 N intron_retention chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 66;1390 N jcn_only_AA CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 176;30 N cassette CUFF.1665 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 209;1836 K cassette CUFF.1704 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 171;2960 N coord_cassette CUFF.1681 chr15 - chr15:44855500-44859621 chr15:44855500-44856744;chr15:44856897-44858051;chr15:44858208-44858414;chr15:44858504-44859621 chr15:44856745-44856896;chr15:44858052-44858207;chr15:44858415-44858503 189;1942 N jcn_only_AD CUFF.1758 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 19;41 K alternative_last_exon CUFF.1739 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78825617 105;157 N jcn_only_AD CUFF.1704 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 457;1903 N jcn_only_AA CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 659;35 K alternative_first_exon CUFF.1665 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530867-40531336 83;2953 N jcn_only_AA CUFF.1743 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 81;1192 N alternative_donor chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90381260 chr15:90380955-90414706 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1012;1157 N alternative_donor CUFF.1652 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 290;3659 N jcn_only_AD CUFF.1704 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 876;101 K alternative_first_exon CUFF.1732 chr15 - chr15:75762341-75766029 chr15:75762341-75763020 chr15:75766030-75766108 chr15:75763021-75763347 259;686 N coord_cassette CUFF.1758 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 26;2088 N jcn_only_AA CUFF.1734 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 43;218 N cassette CUFF.1665 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 99;1038 N alternative_donor CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 176;193 K alternative_last_exon CUFF.1685 chr15 + chr15:45768751-45789310;chr15:45768751-45804570 chr15:45768751-45769966 chr15:45804571-45804647 chr15:45769967-45771944 189;2439 K alternative_donor CUFF.1683,CUFF.1697 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 51;334 N jcn_only_AA CUFF.1729,CUFF.1735 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 362;61 K cassette CUFF.1720 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 10;160 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 3756;35 K jcn_only_AD CUFF.1735 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 442;1885 N intron_retention chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 15;2483 N jcn_only_AD CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 128;1130 N jcn_only_AD CUFF.1704 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 2481;230 K alternative_first_exon CUFF.1681,CUFF.1757 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44888258-44888605 chr15:44887457-44887657 1530;432 N jcn_only_AD CUFF.1683 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 4;47 N jcn_only_AD CUFF.1717 chr15 + chr15:63047893-63053879 chr15:63050859-63053879 chr15:63047893-63050858 chr15:63047892-63047893 31;42 K alternative_donor CUFF.1723 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 701;1993 N coord_cassette CUFF.1681 chr15 - chr15:44865019-44876011 chr15:44865019-44865744;chr15:44865944-44867099;chr15:44867240-44876011 chr15:44865745-44865943;chr15:44867100-44867239 87;3798 N jcn_only_AA CUFF.1757 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 85;948 N alternative_donor CUFF.1743,CUFF.1757 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 948;20 K intron_retention CUFF.1736 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 222;195 N jcn_only_AD CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1204;54 K intron_retention CUFF.1665 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 78;518 N alternative_donor CUFF.1704 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 2443;152 N alternative_donor CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1519;128 N jcn_only_AA CUFF.1732 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 57;188 K alternative_last_exon CUFF.1685 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45752767 452;81 N alternative_donor CUFF.1681 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 119;74 N alternative_donor CUFF.1663 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 67;292 N cassette CUFF.1757 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 963;1232 N alternative_donor CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 3290;151 N alternative_donor CUFF.1704 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 2054;541 N alternative_acceptor CUFF.1704 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 19801;23 N jcn_only_AA CUFF.1699 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 39;437 K cassette CUFF.1744 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 117;324 N jcn_only_AD CUFF.1735 chr15 + chr15:77740154-77750745;chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 2200;57 K jcn_only_AD CUFF.1761 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 342;58 N jcn_only_AD CUFF.1727 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 4;58 K alternative_first_exon CUFF.1764 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204704 191;224 N jcn_only_AD CUFF.1659 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 828;109 N alternative_acceptor CUFF.1729,CUFF.1735 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 362;67 N jcn_only_AD CUFF.1757 chr15 - chr15:90380955-90391824;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90395592 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1266;43 N alternative_donor chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 27;1335 N jcn_only_AD CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50822127-50824208 chr15:50824209-50830905 chr15:50830905-50830906 659;69 K cassette CUFF.1697 chr15 - chr15:55485032-55486493 chr15:55485032-55486350;chr15:55486382-55486493 chr15:55486351-55486381 40;146 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 1192;1542 N jcn_only_AD CUFF.1704 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 436;541 K intron_retention CUFF.1720 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 10;119 N cassette CUFF.1757 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 708;1706 N alternative_acceptor CUFF.1699 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 39;734 N cassette CUFF.1758 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 31;250 N alternative_donor CUFF.1727 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 4;621 N jcn_only_AD CUFF.1681 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 536;159 N alternative_donor CUFF.1685 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 68;291 N alternative_donor CUFF.1652 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 3696;253 N jcn_only_AA CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 659;57 K coord_cassette CUFF.1757 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 677;1737 K alternative_first_exon CUFF.1734 chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 106;174 K intron_retention CUFF.1729 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 274;418 N alternative_donor CUFF.1757 chr15 - chr15:90380955-90391824;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90395592 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 2010;159 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 110;1903 N jcn_only_AD CUFF.1659 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1214;44 K jcn_only_AA CUFF.1732 chr15 - chr15:75762341-75766029 chr15:75763172-75766029 259;80 K intron_retention CUFF.1664 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 39;104 N jcn_only_AD CUFF.1729 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 387;66 N coord_cassette CUFF.1659 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 19;4000 N jcn_only_AA CUFF.1681 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 268;230 N jcn_only_AD CUFF.1729 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 428;25 N cassette CUFF.1704 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 268;937 K jcn_only_AA CUFF.1704 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 34;2343 N jcn_only_AA CUFF.1683 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 519;15 K cassette CUFF.1744 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 139;255 N jcn_only_AA CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 382;39 N jcn_only_AD CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 176;47 N jcn_only_AA CUFF.1704 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 3074;544 K intron_retention CUFF.1729 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 155;593 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 11;47 N jcn_only_AA chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 71;55 N cassette CUFF.1723 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787240;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787241-66787757 206;2470 N alternative_donor CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77740154-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 3412;29 N jcn_only_AD CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1228;30 N alternative_donor CUFF.1652 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 3912;37 N jcn_only_AD chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 11;41 N coord_cassette CUFF.1681 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 233;1583 N jcn_only_AD CUFF.1652 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 271;94 N jcn_only_AD CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 382;25 N jcn_only_AD CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 280;1977 K intron_retention CUFF.1720 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 176;28 K alternative_donor CUFF.1761 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 568;249 K cassette CUFF.1686 chr15 - chr15:47672793-47687757 chr15:47672793-47685518;chr15:47685683-47687757 chr15:47685519-47685682 79;81 N alternative_last_exon chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24869115-24869252 chr15:24832714-24832932 24;64 K cassette CUFF.1762 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 10;208 K alternative_first_exon CUFF.1725 chr15 - chr15:66645294-66678757,chr15:66645294-66678944;chr15:66645294-66678987 chr15:66645294-66648976 chr15:66678988-66679146 chr15:66648977-66649143 137;238 N jcn_only_AA CUFF.1683 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 492;42 K intron_retention CUFF.1720 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 153;136 K alternative_last_exon CUFF.1725 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645153-66645293 chr15:66671570-66672278 65;1200 K jcn_only_AA CUFF.1743 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 3657;415 N alternative_donor CUFF.1698 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 85;309 N alternative_acceptor CUFF.1681 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 268;230 K jcn_only_AD CUFF.1723 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 701;320 N alternative_acceptor CUFF.1683 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 281;156 N jcn_only_AD CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 126;15 N alternative_donor CUFF.1659 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1407;240 N alternative_donor CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50822127-50824208 chr15:50824209-50830905 chr15:50830905-50830906 659;154 N alternative_acceptor CUFF.1757 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 33;962 N coord_cassette CUFF.1737 chr15 - chr15:78475128-78526712 chr15:78475128-78485847;chr15:78485969-78486273;chr15:78486363-78486847;chr15:78487069-78526712 chr15:78485848-78485968;chr15:78486274-78486362;chr15:78486848-78487068 43;761 N alternative_acceptor CUFF.1743 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 757;1192 K cassette CUFF.1727 chr15 - chr15:67713837-67752029 chr15:67713837-67722658;chr15:67722739-67752029 chr15:67722659-67722738 3;822 N alternative_donor CUFF.1737,CUFF.1757 chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90414706 chr15:90380955-90381260 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1588;581 K alternative_donor CUFF.1761 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 654;163 N jcn_only_AD CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77740154-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 2241;16 K jcn_only_AA CUFF.1743 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 239;186 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 3435;356 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 110;1903 K alternative_first_exon CUFF.1683,CUFF.1732 chr15 - chr15:45470505-45473304,chr15:45470505-45490969;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45492925-45493462 chr15:45479652-45480193 2577;1697 K intron_retention CUFF.1681 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 379;31 K alternative_last_exon CUFF.1728 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587667 chr15:69580747-69580903 386;113 N jcn_only_AD CUFF.1698 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 85;69 K intron_retention CUFF.1754 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 50;234 N alternative_donor CUFF.1659 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 1617;30 N alternative_donor CUFF.1681,CUFF.1725 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 268;202 N alternative_acceptor CUFF.1735,CUFF.1760 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1977;40 N jcn_only_AA CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24820151-24825373 chr15:24825374-24832713 chr15:24832713-24832714 96;33 N jcn_only_AD chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 27;77 N jcn_only_AD CUFF.1743,CUFF.1757 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 948;20 K coord_cassette CUFF.1687 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 39;591 K alternative_first_exon CUFF.1652 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758770-24758884 chr15:24766742-24766977 609;5155 K cassette CUFF.1759 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 176;108 K intron_retention CUFF.1761 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 58;183 K alternative_last_exon CUFF.1704,CUFF.1735 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759525-77759649 chr15:77759437-77759500 1633;563 N jcn_only_AA CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 170;40 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 11;47 N jcn_only_AD CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24825478-24832713 chr15:24820151-24825477 chr15:24820150-24820151 96;19 N alternative_acceptor CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78807450-78810929 chr15:78810930-78819721 chr15:78819721-78819722 355;77 N alternative_donor CUFF.1652 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 88;63 N jcn_only_AD CUFF.1729 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 91;362 N jcn_only_AA CUFF.1743 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 1207;66 N jcn_only_AD chr15 - chr15:83358206-83366608;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83378345 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 264;3657 K alternative_first_exon CUFF.1697 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55488551-55488898 chr15:55487502-55487789 145;203 N alternative_donor CUFF.1704 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 2481;681 N jcn_only_AD CUFF.1681 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 119;46 N cassette CUFF.1659 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 104;238 N cassette CUFF.1721 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 20;1584 N alternative_acceptor CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 176;30 K coord_cassette CUFF.1744 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 139;316 K intron_retention CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 126;48 N jcn_only_AD CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 2184;73 N alternative_acceptor chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 926;18898 K jcn_only_AA CUFF.1760 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 62;59 K jcn_only_AD CUFF.1723 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 1229;258 N alternative_donor CUFF.1758 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 19;97 N alternative_donor CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 659;61 N alternative_donor CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 126;44 N intron_retention chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 218;89 N cassette CUFF.1665 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 3217;496 N alternative_donor CUFF.1735 chr15 + chr15:77740154-77750745;chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 3384;57 N alternative_acceptor CUFF.1743 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 1598;351 N jcn_only_AD CUFF.1704 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 501;1710 K intron_retention CUFF.1720 chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 29;186 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 15;1099 N alternative_last_exon CUFF.1743 chr15 - chr15:83350333-83357909 chr15:83357584-83357909 chr15:83350172-83350332 chr15:83357178-83357583 18;6564 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 47;37 K intron_retention CUFF.1720 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 109;42 N jcn_only_AD CUFF.1681,CUFF.1725 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 268;202 N alternative_donor CUFF.1757 chr15 - chr15:90380955-90395592;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90391824 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 1897;272 N alternative_acceptor CUFF.1732 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 57;414 N jcn_only_AA CUFF.1732 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 60;93 K alternative_first_exon CUFF.1713,CUFF.1741 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007469 chr15:61945388-61945400 817;207 N jcn_only_AD CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78811116-78819721 chr15:78807450-78811115 chr15:78807449-78807450 355;35 K intron_retention CUFF.1743 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 290;281 N alternative_donor CUFF.1659 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 828;205 N jcn_only_AD CUFF.1652 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 88;36 K intron_retention CUFF.1761 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 93;90 N intron_retention chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 196;91 K cassette CUFF.1744 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 94;226 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 116;670 N alternative_donor CUFF.1652 chr15 + chr15:24825478-24869114 chr15:24832883-24869114 chr15:24825478-24832882 chr15:24825477-24825478 15;299 N alternative_acceptor CUFF.1683 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 962;1311 K intron_retention CUFF.1735 chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 1551;447 N alternative_donor CUFF.1717 chr15 + chr15:63047893-63053879 chr15:63050859-63053879 chr15:63047893-63050858 chr15:63047892-63047893 31;52 N jcn_only_AD CUFF.1717 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 410;12 N alternative_acceptor CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24820151-24825373 chr15:24825374-24832713 chr15:24832713-24832714 96;60 N jcn_only_AA CUFF.1666,CUFF.1685 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 22;71 N jcn_only_AD CUFF.1743 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83377523 chr15:83358206-83358514 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 3783;138 K alternative_first_exon CUFF.1685 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742254-45742488 chr15:45752644-45752767 477;56 N jcn_only_AD CUFF.1743 chr15 - chr15:83358206-83378345;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83366608 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 3853;68 N cassette CUFF.1704 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 467;1359 N jcn_only_AD CUFF.1666 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 7;10 N jcn_only_AD CUFF.1659 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 166;21 N alternative_acceptor chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 94;104 N alternative_donor chr15 - chr15:83358206-83366608;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83378345 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 603;3657 N alternative_acceptor CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 659;57 K coord_cassette CUFF.1665 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 3217;1333 N alternative_acceptor CUFF.1666,CUFF.1685 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 22;71 N alternative_donor CUFF.1681 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 536;419 K intron_retention CUFF.1664 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 269;87 N alternative_donor CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78811116-78819721 chr15:78807450-78811115 chr15:78807449-78807450 355;66 K jcn_only_AD CUFF.1761 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 151;249 K alternative_first_exon CUFF.1650 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115345 chr15:23114586-23114716 872;541 N jcn_only_AA CUFF.1757 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 33;561 N alternative_donor CUFF.1743 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83358514 chr15:83358206-83377523 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 4198;62 N jcn_only_AD CUFF.1652 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 328;37 K alternative_first_exon CUFF.1734,CUFF.1737 chr15 - chr15:78500445-78501486;chr15:78500445-78537610 chr15:78500445-78526712 chr15:78537611-78538088 chr15:78526713-78527056 1259;198 K intron_retention CUFF.1743 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 1500;2264 K alternative_first_exon CUFF.1741 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80215794-80216139 chr15:80206930-80207647 190;265 N alternative_acceptor CUFF.1734 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 43;399 K alternative_donor CUFF.1761 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 412;405 N alternative_donor CUFF.1735 chr15 + chr15:77713080-77750745;chr15:77740154-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77740153;chr15:77740154-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437;chr15:77740153-77740154 3206;235 N alternative_donor CUFF.1659 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 166;134 N mutually_exclusive CUFF.1757 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 68;587 N alternative_donor CUFF.1666 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 7;12 K cassette CUFF.1725 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 158;337 N alternative_donor CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 170;37 N alternative_donor CUFF.1589 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 103;215 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 218;29 N jcn_only_AD CUFF.1603 chr14 - chr14:75152364-75179635 chr14:75152364-75158743 28;114 N alternative_acceptor CUFF.1632 chr14 - chr14:92195824-92246919;chr14:92203194-92246919 chr14:92245415-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 716;333 K alternative_acceptor CUFF.1578,CUFF.1619 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 72;3304 N jcn_only_AD chr14 - chr14:75138187-75139533 chr14:75138187-75138671 153;92 N cassette CUFF.1612 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 25;1220 K intron_retention CUFF.1640 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 35;725 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 33;107 N jcn_only_AD CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 938;57 K cassette CUFF.1622 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 7;347 K alternative_acceptor CUFF.1584 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 423;397 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75168478-75179635 chr14:75152364-75179635 390;28 N jcn_only_AA CUFF.1623 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 300;104 K cassette CUFF.1589 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 84;409 N jcn_only_AD CUFF.1589 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 213;77 K intron_retention CUFF.1580 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 20;32 N intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 114;56 N cassette CUFF.1606 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 148;3025 K cassette CUFF.1619 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 59;129 N intron_retention chr14 - chr14:75136830-75137464 chr14:75136829-75136830;chr14:75137464-75137465 68;56 N jcn_only_AD CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 884;111 N alternative_donor CUFF.1577 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 chr14:24464241-24464342;chr14:24459391-24459568 372;188 N cassette CUFF.1578 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 25;2258 N alternative_donor CUFF.1619 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 433;292 N alternative_donor CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 635;759 N jcn_only_AD CUFF.1584 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 681;36 N jcn_only_AD CUFF.1596 chr14 + chr14:58908062-58909423;chr14:58906879-58909423 chr14:58899176-58909423 206;866 N jcn_only_AD chr14 - chr14:75150237-75152302 chr14:75150237-75151156 86;89 K cassette CUFF.1613 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 11;110 N jcn_only_AD CUFF.1640 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 820;374 K alternative_first_exon CUFF.1603,CUFF.1640 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941984 507;2224 N jcn_only_AA chr14 + chr14:58899176-58906787;chr14:58899176-58899829 chr14:58899176-58909423 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 296;866 N cassette CUFF.1577 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 chr14:24470593-24470726;chr14:24475095-24475617 39;201 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 166;86 N alternative_acceptor CUFF.1606 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 1087;72 K alternative_donor CUFF.1613 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 36;30 K cassette CUFF.1585 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 354;10703 N jcn_only_AA CUFF.1632 chr14 - chr14:92203194-92246919;chr14:92245415-92246919 chr14:92195824-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 197;164 N jcn_only_AD CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 449;29 N jcn_only_AA CUFF.1589 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 255;27 N jcn_only_AA CUFF.1641 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 34;94 K alternative_first_exon CUFF.1612,CUFF.1640 chr14 - chr14:69589078-69616147,chr14:69589078-69619130;chr14:69589078-69619660,chr14:69589078-69619481 chr14:69589078-69619205 chr14:69619661-69619843 chr14:69619206-69619371 313;530 N alternative_donor CUFF.1606 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 430;1546 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 93;154 N jcn_only_AA CUFF.1619 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 107;49 N alternative_acceptor chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 412;747 K jcn_only_AA CUFF.1606 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 98;635 K intron_retention CUFF.1590 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 1118;635 N jcn_only_AA chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 46;106 K alternative_first_exon CUFF.1632 chr14 - chr14:92195824-92203037,chr14:92195824-92245318;chr14:92195824-92246919 chr14:92195824-92198273 chr14:92246920-92247147 chr14:92198274-92198529 620;998 N jcn_only_AA chr14 - chr14:104213110-104213269;chr14:104213198-104213269 chr14:104212891-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 115;53 N coord_cassette CUFF.1577 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 chr14:24459391-24459568;chr14:24470593-24470726 901;402 N alternative_donor CUFF.1613 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 36;24 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 39;169 N jcn_only_AD CUFF.1628 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 259;383 N alternative_acceptor chr14 + chr14:58899176-58906787;chr14:58899176-58899829 chr14:58899176-58909423 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 975;866 K alternative_first_exon CUFF.1623 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924213-77924325 chr14:77924330-77924612 19;637 N cassette CUFF.1578 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 505;1636 N alternative_donor CUFF.1640 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1510;210 K cassette CUFF.1640 chr14 - chr14:104251252-104263707 chr14:104251252-104260913;chr14:104261001-104263707 chr14:104260914-104261000 813;2658 N intron_retention chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 42;168 N jcn_only_AD CUFF.1603 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 275;32 N alternative_acceptor chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 43;82 N alternative_acceptor chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 46;106 N alternative_acceptor chr14 + chr14:58899176-58906787;chr14:58899176-58909423 chr14:58899176-58899829 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 1098;743 K alternative_acceptor CUFF.1606 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 98;635 N jcn_only_AA chr14 + chr14:76174051-76184203 chr14:76174051-76175521 11;73 N jcn_only_AA CUFF.1632 chr14 - chr14:92195824-92246919;chr14:92245415-92246919 chr14:92203194-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 238;123 N alternative_donor CUFF.1628 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 299;222 N alternative_donor CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 1235;159 K cassette CUFF.1612 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 401;1025 N alternative_acceptor CUFF.1612 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 756;1448 N alternative_donor CUFF.1606 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 747;371 K intron_retention CUFF.1640 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 26;1135 N cassette CUFF.1576 chr14 + chr14:23390330-23393509 chr14:23390330-23392287;chr14:23392414-23393509 chr14:23392288-23392413 59;564 N coord_cassette CUFF.1606 chr14 + chr14:61518854-61545547 chr14:61518854-61519066;chr14:61519704-61540565;chr14:61540660-61545547 chr14:61519067-61519703;chr14:61540566-61540659 244;2921 N cassette CUFF.1590 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 150;2423 N alternative_donor CUFF.1628 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 259;580 N mutually_exclusive CUFF.1585 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 1090;833 N alternative_acceptor chr14 - chr14:104212891-104213269;chr14:104213110-104213269 chr14:104213198-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 137;79 N alternative_acceptor CUFF.1619 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 132;18 N jcn_only_AA CUFF.1633 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 428;161 N jcn_only_AA CUFF.1632 chr14 - chr14:92195824-92246919;chr14:92203194-92246919 chr14:92245415-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 287;74 N jcn_only_AA CUFF.1595 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 143;24 K intron_retention CUFF.1590 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 905;1297 K cassette CUFF.1613 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 9;40 N jcn_only_AD CUFF.1577 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 chr14:24464241-24464342;chr14:24459391-24459568 372;103 N cassette CUFF.1632 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 178;1378 K intron_retention CUFF.1578 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 487;425 K alternative_first_exon CUFF.1640 chr14 - chr14:104263856-104306415,chr14:104263856-104313111;chr14:104263856-104313635 chr14:104263856-104313344 chr14:104313636-104313998 chr14:104313345-104313447 3891;881 K alternative_acceptor CUFF.1604 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 227;84 N jcn_only_AD CUFF.1619 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 433;156 N jcn_only_AD CUFF.1606 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 927;68 N alternative_donor CUFF.1633 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 147;94 N jcn_only_AD CUFF.1589 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 267;23 N cassette CUFF.1640 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104263707 chr14:104251132-104251251 238;3397 N alternative_last_exon CUFF.1603 chr14 - chr14:59927892-59942586;chr14:59941245-59942586 chr14:59939809-59942586 chr14:59927690-59927891;chr14:59941157-59941244 chr14:59939635-59939808 411;199 N coord_cassette CUFF.1578 chr14 + chr14:24563464-24566100 chr14:24563464-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 367;2953 K intron_retention CUFF.1622 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 140;51 N jcn_only_AD chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 201;43 N jcn_only_AD CUFF.1640 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 231;108 N mutually_exclusive CUFF.1590 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 312;63 N alternative_last_exon CUFF.1603 chr14 - chr14:59939809-59942586;chr14:59941245-59942586 chr14:59927892-59942586 chr14:59939635-59939808;chr14:59941157-59941244 chr14:59927690-59927891 510;100 N alternative_acceptor CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 449;37 N alternative_donor CUFF.1584 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 681;49 N jcn_only_AD chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 145;162 N alternative_last_exon CUFF.1603 chr14 - chr14:59939809-59942586;chr14:59927892-59942586 chr14:59941245-59942586 chr14:59939635-59939808;chr14:59927690-59927891 chr14:59941157-59941244 299;311 K intron_retention CUFF.1578 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 941;285 N mutually_exclusive CUFF.1576 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392287,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392288-23392413 125;172 N cassette CUFF.1577 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 chr14:24459391-24459568;chr14:24473546-24473601 85;762 K alternative_acceptor CUFF.1612 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 201;830 K intron_retention CUFF.1623 chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 434;224 N alternative_donor CUFF.1603,CUFF.1640 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 593;672 N jcn_only_AD CUFF.1596 chr14 + chr14:58899176-58909423;chr14:58906879-58909423 chr14:58908062-58909423 935;137 N alternative_acceptor CUFF.1641 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 34;94 K alternative_last_exon CUFF.1638 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237470-103237910 255;291 N coord_cassette CUFF.1596 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59010600;chr14:59010686-59014498 chr14:59006789-59006854;chr14:59010601-59010685 543;56 N jcn_only_AD CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 236;759 N cassette CUFF.1619 chr14 + chr14:76219299-76230957 chr14:76219299-76224173;chr14:76224213-76230957 chr14:76224174-76224212 58;232 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179556 chr14:75159032-75179635 265;297 N jcn_only_AA chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 43;82 K jcn_only_AA CUFF.1578,CUFF.1619 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 72;1216 N jcn_only_AD CUFF.1628 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 299;88 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75159032-75179635 121;297 N cassette CUFF.1617 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 19;895 N alternative_donor CUFF.1628 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 285;58 N jcn_only_AA chr14 + chr14:76349246-76368484 chr14:76349246-76353042 377;171 N alternative_donor CUFF.1640 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 920;800 K intron_retention CUFF.1623 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 13;54 K jcn_only_AA CUFF.1643 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 132;136 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 244;947 N jcn_only_AD chr14 - chr14:104212891-104212988;chr14:104212891-104213269 chr14:104212891-104216130 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 134;178 K alternative_donor CUFF.1612 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 114;376 K intron_retention CUFF.1617 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 136;862 N alternative_acceptor CUFF.1632 chr14 - chr14:92195824-92246919;chr14:92245415-92246919 chr14:92203194-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 497;552 N alternative_acceptor chr14 - chr14:104212891-104213269;chr14:104213198-104213269 chr14:104213110-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 132;84 N jcn_only_AA chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 342;747 K intron_retention CUFF.1606 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 759;161 N alternative_donor chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1010;710 N alternative_acceptor CUFF.1619 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 107;66 N jcn_only_AD CUFF.1584,CUFF.1632 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 509;345 N jcn_only_AD CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 78;1071 N alternative_donor CUFF.1590 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 849;1027 N jcn_only_AD CUFF.1640 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 259;53 N jcn_only_AD CUFF.1640 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1084;110 K jcn_only_AA CUFF.1598 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 70;228 N alternative_donor CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 449;29 N jcn_only_AD CUFF.1640 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 172;5 K intron_retention CUFF.1593 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 305;97 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213110-104213269 chr14:104213198-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 122;46 K alternative_last_exon CUFF.1628 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81727000-81728275 chr14:81734781-81734841 285;74 N intron_retention chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 36;687 K alternative_last_exon CUFF.1640 chr14 - chr14:104225643-104245081;chr14:104224089-104245081 chr14:104230817-104245081 chr14:104223987-104224088 chr14:104230723-104230816 1179;68 N alternative_first_exon chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204197 123;1230 N alternative_acceptor CUFF.1589 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 255;41 K cassette CUFF.1596 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 588;425 N alternative_donor CUFF.1619 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 94;985 N alternative_donor CUFF.1606 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 1099;295 N cassette CUFF.1619 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 47;74 N alternative_acceptor CUFF.1632 chr14 - chr14:92074748-92076823 chr14:92074749-92076823 chr14:92074748-92074748 chr14:92074747-92074748 3;952 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179635 chr14:75159032-75179556 440;122 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75152364-75179635 chr14:75168478-75179635 375;43 N jcn_only_AA CUFF.1640 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 88;675 N jcn_only_AD CUFF.1606 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 430;281 K alternative_first_exon CUFF.1633 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789881-92790304 7;440 N alternative_donor CUFF.1640 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 327;16 K jcn_only_AD CUFF.1612 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 114;75 N alternative_donor CUFF.1619 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 110;42 N jcn_only_AD CUFF.1603,CUFF.1640 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 231;81 N cassette CUFF.1596 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59014498 chr14:59006789-59006854 543;318 N cassette CUFF.1596 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 8;263 N cassette CUFF.1637 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 64;47 N jcn_only_AA CUFF.1632 chr14 - chr14:92074748-92076823 chr14:92074749-92076823 chr14:92074748-92074748 chr14:92074747-92074748 3;952 N cassette CUFF.1629 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 23;1001 N coord_cassette CUFF.1606 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 30;3717 K intron_retention CUFF.1640 chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 675;81 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 703;1645 K intron_retention CUFF.1590 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 1204;584 K cassette CUFF.1613 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 57;30 N jcn_only_AD CUFF.1606 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 747;290 N jcn_only_AA CUFF.1619 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 132;18 N jcn_only_AD chr14 - chr14:75165560-75179635 chr14:75165560-75168371 50;95 N alternative_donor CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 78;1582 K cassette CUFF.1606 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 910;1131 N jcn_only_AA CUFF.1576 chr14 + chr14:77928586-77934425 chr14:77928586-77928984 33;724 N jcn_only_AD CUFF.1603 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 194;113 N jcn_only_AD CUFF.1633 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 147;77 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 115;137 N jcn_only_AD CUFF.1628 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 119;58 N alternative_acceptor chr14 - chr14:104213110-104213269;chr14:104213198-104213269 chr14:104212891-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 163;53 N intron_retention chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 88;115 N coord_cassette CUFF.1578 chr14 + chr14:24564055-24567411 chr14:24564055-24564351;chr14:24564588-24566100;chr14:24566347-24567411 chr14:24564352-24564587;chr14:24566101-24566346 203;4537 K alternative_first_exon CUFF.1604 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031765-60031993 chr14:60031076-60031271 112;384 K cassette CUFF.1606 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 211;1125 N alternative_donor chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 230;339 N jcn_only_AD CUFF.1628 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 63;114 N jcn_only_AA chr14 - chr14:75138187-75139533 chr14:75138724-75139533 153;110 K jcn_only_AA CUFF.1584 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 423;326 K intron_retention CUFF.1580 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 17;11 N alternative_acceptor CUFF.1606 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 1117;708 N jcn_only_AA chr14 + chr14:58899176-58906787;chr14:58899176-58909423 chr14:58899176-58899829 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 954;208 N jcn_only_AA CUFF.1606 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 1117;558 N jcn_only_AA chr14 - chr14:75152364-75158743 chr14:75157854-75158743 114;314 N alternative_donor CUFF.1603 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 456;113 N jcn_only_AD CUFF.1596 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 866;7 N jcn_only_AD CUFF.1619 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 94;101 N alternative_acceptor CUFF.1606 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 819;340 N jcn_only_AA CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 449;37 N jcn_only_AA CUFF.1606 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 1017;72 N jcn_only_AD CUFF.1596 chr14 + chr14:58894532-58896080;chr14:58895182-58896080 chr14:58894576-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 537;336 K jcn_only_AA CUFF.1640 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 30;688 K intron_retention CUFF.1623 chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 449;92 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213198-104213269 chr14:104213110-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 99;69 N jcn_only_AD CUFF.1604 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 98;198 K intron_retention CUFF.1577 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 chr14:24470072-24470142;chr14:24470242-24470293 139;40 K cassette CUFF.1577 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 chr14:24459391-24459568;chr14:24473546-24473601 16;1646 K intron_retention CUFF.1640 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 30;845 N alternative_acceptor CUFF.1643 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 158;943 N intron_retention CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 71;312 N jcn_only_AD chr14 - chr14:75136830-75138110 chr14:75136830-75137464 21;68 N jcn_only_AA chr14 - chr14:75143456-75149998 chr14:75145033-75149998 65;68 N mutually_exclusive CUFF.1590 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 57;503 N alternative_donor CUFF.1596 chr14 + chr14:58894532-58896080;chr14:58895182-58896080 chr14:58894576-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 565;597 K intron_retention CUFF.1580 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 17;33 N alternative_donor CUFF.1584,CUFF.1632 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 509;950 N jcn_only_AD CUFF.1613 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 36;24 N jcn_only_AD CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 71;1222 N cassette CUFF.1590 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 30;2340 K cassette CUFF.1604 chr14 - chr14:60010173-60018072 chr14:60010173-60011880;chr14:60012018-60018072 chr14:60011881-60012017 199;158 N alternative_donor chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 201;1541 N cassette CUFF.1578 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 203;4187 N jcn_only_AD CUFF.1589 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 100;190 K intron_retention CUFF.1642 chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 345;223 K alternative_first_exon CUFF.1641 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105045937-105046340 chr14:105047405-105047962 459;2057 K coord_cassette CUFF.1598 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 283;2828 N jcn_only_AA chr14 - chr14:75136830-75138110 chr14:75137575-75138110 21;246 N cassette CUFF.1589 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 37;2177 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75149998 chr14:75143456-75151156 137;248 N jcn_only_AD chr14 - chr14:75159032-75179635;chr14:75159032-75179556 chr14:75159032-75165466 419;143 K intron_retention CUFF.1593 chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 116;102 N cassette CUFF.1578 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 27;2086 N jcn_only_AA chr14 - chr14:75150237-75152302 chr14:75151384-75152302 86;322 N alternative_donor CUFF.1589 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 241;77 K cassette CUFF.1622 chr14 - chr14:77275987-77279106 chr14:77275987-77276431;chr14:77276598-77279106 chr14:77276432-77276597 5;521 N alternative_acceptor CUFF.1633 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 428;563 K alternative_first_exon CUFF.1633 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915418-92915560 chr14:92916544-92918990 416;2568 N jcn_only_AD CUFF.1590 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 849;337 N jcn_only_AA chr14 - chr14:75159032-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75165560-75179635 368;50 K intron_retention CUFF.1603 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 331;273 N alternative_donor CUFF.1603 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 452;117 K alternative_first_exon CUFF.1577 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457972-24458284 chr14:24459391-24459568 197;5197 K intron_retention chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 688;61 N alternative_donor chr14 - chr14:104212891-104212988;chr14:104212891-104213269 chr14:104212891-104216130 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 1087;178 N alternative_donor CUFF.1589 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 292;26 N alternative_acceptor CUFF.1595 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 143;30 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 28;88 N cassette CUFF.1623 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 39;698 K alternative_last_exon CUFF.1623 chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935815 chr14:77930941-77931029 1597;434 N cassette CUFF.1578 chr14 + chr14:24564055-24566100 chr14:24564055-24564351;chr14:24564588-24566100 chr14:24564352-24564587 343;2881 N cassette CUFF.1640 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 47;1564 N jcn_only_AA CUFF.1612 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 756;56 N jcn_only_AD chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 223;29 N coord_cassette CUFF.1640 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104260913;chr14:104261001-104263707 chr14:104251132-104251251;chr14:104260914-104261000 238;4201 N alternative_donor CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 71;2344 K jcn_only_AA CUFF.1612 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 201;830 N alternative_acceptor chr14 + chr14:58899176-58899829;chr14:58899176-58909423 chr14:58899176-58906787 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 1609;232 N jcn_only_AD CUFF.1596 chr14 + chr14:58894576-58896080;chr14:58895182-58896080 chr14:58894532-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 343;530 K jcn_only_AA CUFF.1641 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 92;413 N jcn_only_AA CUFF.1606 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 819;270 N jcn_only_AA CUFF.1623 chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 183;64 N coord_cassette CUFF.1578 chr14 + chr14:24563644-24566100 chr14:24563644-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 138;3526 K cassette CUFF.1576 chr14 + chr14:23392414-23395669 chr14:23392414-23393509;chr14:23393651-23395669 chr14:23393510-23393650 42;293 K cassette CUFF.1596 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 224;47 N alternative_donor CUFF.1606 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 1213;181 N jcn_only_AD CUFF.1619 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 110;42 N jcn_only_AA chr14 + chr14:58899176-58899829;chr14:58899176-58909423 chr14:58899176-58906787 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 1074;88 N jcn_only_AD chr14 - chr14:75143456-75151156;chr14:75143456-75149998 chr14:75143456-75144881 313;72 N alternative_donor CUFF.1628 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 74;269 N jcn_only_AD CUFF.1623 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 33;564 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75151156 chr14:75143456-75149998 320;65 N alternative_donor CUFF.1596 chr14 + chr14:58894576-58896080;chr14:58895182-58896080 chr14:58894532-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 632;530 N alternative_acceptor CUFF.1632 chr14 - chr14:92203194-92246919;chr14:92245415-92246919 chr14:92195824-92246919 chr14:92195824-92203193;chr14:92203194-92245414 chr14:92195823-92195824;chr14:92203193-92203194 885;164 K alternative_acceptor CUFF.1641 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 92;605 N jcn_only_AD CUFF.1596 chr14 + chr14:58899176-58909423;chr14:58908062-58909423 chr14:58906879-58909423 1003;69 N alternative_acceptor CUFF.1623 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 300;273 K cassette CUFF.1632 chr14 - chr14:92105595-92136157 chr14:92105595-92126180;chr14:92126326-92136157 chr14:92126181-92126325 79;1233 N mutually_exclusive CUFF.1577 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 chr14:24459391-24459568;chr14:24475095-24475617 26;461 N jcn_only_AA chr14 - chr14:75136830-75137464 chr14:75136846-75137464 68;108 N alternative_donor CUFF.1640 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 850;415 K intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 1222;307 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 484;710 N alternative_donor CUFF.1640 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 231;254 N jcn_only_AA CUFF.1643 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 158;463 K intron_retention CUFF.1578 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 475;1038 K jcn_only_AD CUFF.1613 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 36;11 N alternative_first_exon chr14 - chr14:59939809-59942586 chr14:59939809-59941445,chr14:59939809-59941156 chr14:59942587-59942724 chr14:59941446-59941984 198;2968 K jcn_only_AA CUFF.1604 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 227;84 N cassette CUFF.1590 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 259;2158 N jcn_only_AA chr14 - chr14:75143456-75151156 chr14:75150237-75151156 248;89 N cassette CUFF.1606 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 173;1021 K cassette CUFF.1593 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 116;72 N alternative_last_exon CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59941245-59941445 chr14:59939635-59939808 chr14:59941157-59941244 128;331 N alternative_donor CUFF.1596 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 1127;35 N jcn_only_AD CUFF.2051 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6072015 chr19:6047516-6057172 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 515;44 N jcn_only_AA CUFF.2129 chr19 - chr19:33968996-33978155 chr19:33968997-33978155 chr19:33968996-33968996 chr19:33968995-33968996 3;6735 N alternative_donor CUFF.2104 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 237;1241 N cassette CUFF.2092 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 32;915 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 228;515 K intron_retention CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 2118;206 K alternative_donor CUFF.2069 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 15;342 N alternative_donor CUFF.2186 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 94;43 N alternative_donor CUFF.2181 chr19 + chr19:52266771-52271897;chr19:52264484-52271897;chr19:52265789-52271897 chr19:52271786-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 595;444 K jcn_only_AA CUFF.2072 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 126;238 N alternative_acceptor CUFF.2155 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 110;998 K cassette CUFF.2074 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 200;456 K intron_retention CUFF.2093 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 41;59 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 111;253 K cassette CUFF.2051 chr19 - chr19:5897009-5903622 chr19:5897009-5901345;chr19:5901466-5903622 chr19:5901346-5901465 95;1643 N alternative_acceptor CUFF.2129 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 864;104 N alternative_acceptor CUFF.2112 chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 225;79 N jcn_only_AD CUFF.2129,CUFF.2177 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 1163;59 K intron_retention CUFF.2104 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 689;1378 N cassette CUFF.2104 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17448474-17448816 chr19:17447629-17448473 35;4284 N alternative_donor chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 2154;19155 N jcn_only_AA CUFF.2104 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1184;272 N cassette CUFF.2051 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 506;1646 N alternative_acceptor CUFF.2048,CUFF.2155 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 119;1042 N jcn_only_AD CUFF.2093 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 442;196 K cassette CUFF.2187 chr19 + chr19:55084903-55085542 chr19:55084903-55085164;chr19:55085380-55085542 chr19:55085165-55085379 185;901 K jcn_only_AA CUFF.2141 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 48;318 N jcn_only_AA CUFF.2186 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 258;34 K alternative_first_exon CUFF.2074,CUFF.2169 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546692 chr19:11545594-11546028 219;1009 N alternative_donor CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52266771-52271897;chr19:52264484-52271897 chr19:52265789-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 956;83 K cassette CUFF.2187 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 88;509 K cassette CUFF.2064 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 55;2296 K jcn_only_AD CUFF.2182 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 942;210 N jcn_only_AD CUFF.2052 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6216747-6217964 chr19:6217964-6217965 463;152 N jcn_only_AA CUFF.2103 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 178;135 N jcn_only_AA CUFF.2182 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 17;42 N jcn_only_AA CUFF.2129 chr19 - chr19:33904549-33953900 chr19:33904550-33953900 chr19:33904549-33904549 chr19:33904548-33904549 3;13588 N jcn_only_AA CUFF.2104 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1228;228 N intron_retention chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 23;263 K intron_retention CUFF.2093 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 180;410 K coord_cassette CUFF.2175 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 48;1285 K alternative_donor CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 227;1775 N alternative_donor CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 579;2522 N jcn_only_AD CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52264484-52271897;chr19:52265789-52271897 chr19:52266771-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 555;43 K intron_retention CUFF.2155 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 116;137 N alternative_acceptor CUFF.2072,CUFF.2103 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 144;327 N jcn_only_AD chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6110403 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 205;354 N jcn_only_AD CUFF.2104 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 237;272 K intron_retention CUFF.2163 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 220;55 N jcn_only_AA CUFF.2112 chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 149;26 N intron_retention chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 229;279 N alternative_acceptor CUFF.2186 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 331;42 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 152;61 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448079-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 2188;390 K intron_retention CUFF.2167 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 1911;54 N intron_retention CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 579;1538 K cassette CUFF.2187 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 88;226 N alternative_acceptor chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1050;956 K jcn_only_AA CUFF.2114 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 671;187 K intron_retention CUFF.2167 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 2125;90 K intron_retention CUFF.2142 chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 6;12 N alternative_acceptor chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 194;401 N jcn_only_AA chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 500;956 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448386-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 2157;421 K cassette CUFF.2074 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 164;562 N jcn_only_AA chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 50;462 K intron_retention CUFF.2139 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 2261;164 N alternative_donor CUFF.2092 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 623;106 K cassette CUFF.2178 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 229;570 N jcn_only_AD CUFF.2048 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 494;69 N alternative_donor CUFF.2129 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 20193;1116 N jcn_only_AD CUFF.2167 chr19 + chr19:50285227-50296292 chr19:50285228-50296292 chr19:50285227-50285227 chr19:50285226-50285227 2;898 K intron_retention CUFF.2098 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 412;37 K intron_retention CUFF.2139 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 40;193 N cassette CUFF.2187 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 22;1183 K intron_retention CUFF.2104 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 2868;837 K intron_retention CUFF.2106 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 354;211 N alternative_acceptor chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 88;196 N coord_cassette CUFF.2092 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 32;756 N jcn_only_AD CUFF.2129 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 6938;1116 N cassette CUFF.2064 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 134;4586 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816 chr19:17447967-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 8690;66 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 136;31 K intron_retention CUFF.2167 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 107;102 K intron_retention CUFF.2167 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 2274;93 N jcn_only_AA CUFF.2048 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1092;52 K intron_retention CUFF.2081 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 7537;118 N jcn_only_AA CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 72;579 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 59;420 K intron_retention CUFF.2093 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 843;138 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 53;595 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448079-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 7575;1181 K intron_retention CUFF.2051 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 1088;43 N alternative_donor CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 36;4810 K intron_retention CUFF.2056 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 110;301 N cassette CUFF.2093 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 234;2208 N jcn_only_AA CUFF.2155 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 110;222 N jcn_only_AD CUFF.2104 chr19 + chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445921-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 2519;59 N alternative_donor CUFF.2148 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 2420;47 N jcn_only_AA CUFF.2072,CUFF.2103 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 144;184 K cassette CUFF.2178 chr19 - chr19:51485171-51487106 chr19:51485171-51485582;chr19:51485714-51487106 chr19:51485583-51485713 126;633 N alternative_donor CUFF.2129 chr19 - chr19:33954969-33967985;chr19:33954969-33968951 chr19:33954969-33968952 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 8495;2 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17447967-17448816 chr19:17448474-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 1622;956 K alternative_donor CUFF.2139,CUFF.2177 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 121;512 K intron_retention CUFF.2167 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 313;136 K alternative_first_exon CUFF.2112,CUFF.2191 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 476;478 N jcn_only_AD CUFF.2155 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 220;210 K jcn_only_AA CUFF.2112 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 25;206 N cassette CUFF.2146 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 35;445 K intron_retention CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 20;21 K jcn_only_AA CUFF.2074 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 252;49 K jcn_only_AD CUFF.2130 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 615;618 N alternative_acceptor CUFF.2155 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 674;498 N alternative_acceptor CUFF.2044 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 3892;1306 K intron_retention CUFF.2148 chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 573;33 N cassette CUFF.2092 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 139;837 K intron_retention CUFF.2081 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 12661;75 K alternative_donor CUFF.2182 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1021;532 K alternative_first_exon CUFF.2175 chr19 - chr19:51528923-51529011;chr19:51528923-51530712;chr19:51528923-51529793 chr19:51528923-51531199 chr19:51530713-51531026;chr19:51529794-51529858 chr19:51531200-51531394 686;144 K jcn_only_AA CUFF.2104 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 204;1005 N jcn_only_AD CUFF.2044 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 191;1344 K alternative_first_exon CUFF.2112 chr19 - chr19:20243397-20349096;chr19:20243397-20261169 chr19:20243397-20351308 chr19:20349097-20349324;chr19:20261170-20261357 chr19:20351309-20351446 203;38 N jcn_only_AA CUFF.2114 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 21;138 N alternative_donor CUFF.2103 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 147;118 N coord_cassette CUFF.2092 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866657-14867049 chr19:14865766-14865939;chr19:14866466-14866656 82;1844 N mutually_exclusive CUFF.2051 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 473;43 N jcn_only_AD CUFF.2155 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 407;23 N cassette CUFF.2051 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 23;1832 K intron_retention CUFF.2106 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 387;252 N jcn_only_AA CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2578;53 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 97;218 K intron_retention CUFF.2146 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 23;81 N jcn_only_AA CUFF.2186 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 142;150 N alternative_donor chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 525;1942 K cassette CUFF.2196 chr19 + chr19:58963072-58965062 chr19:58963072-58963494;chr19:58964150-58965062 chr19:58963495-58964149 266;14983 K intron_retention CUFF.2141 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 303;557 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448457-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 2538;40 K alternative_donor CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 428;569 N cassette CUFF.2092 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 313;1233 K alternative_first_exon CUFF.2131 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139500-36139810 226;907 K intron_retention CUFF.2114 chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 138;498 K jcn_only_AD CUFF.2047 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 70;23 K alternative_last_exon CUFF.2051 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894661-5894865 657;2012 N jcn_only_AA CUFF.2129 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 864;98 K jcn_only_AA CUFF.2179 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 127;112 N alternative_acceptor CUFF.2093,CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 128;446 N jcn_only_AA CUFF.2092 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 497;115 N jcn_only_AD CUFF.2186 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 94;43 N jcn_only_AD CUFF.2139 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 217;2261 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 181;599 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 90;774 K intron_retention CUFF.2179 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 209;86 N jcn_only_AD chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 130;864 N alternative_acceptor chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 1056;116 K cassette CUFF.2177 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 706;1308 K jcn_only_AD CUFF.2191 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 278;76 N alternative_acceptor chr19 + chr19:1438892-1439714;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1440017 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2908;2290 N alternative_acceptor CUFF.2117,CUFF.2181 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 45;437 N alternative_acceptor CUFF.2186 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 254;30 N jcn_only_AD CUFF.2155 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 233;197 N alternative_acceptor CUFF.2181 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 471;521 K intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 237;460 N jcn_only_AA CUFF.2181 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 424;126 K cassette CUFF.2177 chr19 - chr19:51534178-51537235 chr19:51534178-51535035;chr19:51535392-51537235 chr19:51535036-51535391 706;1725 K jcn_only_AD CUFF.2146 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 24;291 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 153;38 N cassette CUFF.2051 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 155;80 N cassette CUFF.2104 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 26;1571 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17447844-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 7297;1459 N mutually_exclusive CUFF.2187 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 369;26 N jcn_only_AD chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 139;20 K intron_retention CUFF.2151 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 37;513 N alternative_acceptor CUFF.2182 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 17;42 N intron_retention CUFF.2186 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 26;33 N alternative_acceptor CUFF.2048 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1094;67 N jcn_only_AD CUFF.2148 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 2273;47 K intron_retention CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 428;877 N alternative_donor CUFF.2093 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 442;211 K intron_retention CUFF.2163 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 537;528 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-34001933 chr19:33984244-33991843 231;643 N cassette CUFF.2051 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 647;832 N jcn_only_AD chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 418;1902 K cassette CUFF.2163 chr19 - chr19:49298722-49299684 chr19:49298722-49299403;chr19:49299587-49299684 chr19:49299404-49299586 363;423 N jcn_only_AA chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 54;196 N intron_retention CUFF.2182 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 29;16 K alternative_acceptor CUFF.2112 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 25;296 N alternative_acceptor CUFF.2186 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 313;171 N jcn_only_AD CUFF.2129 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 917;77 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 390;545 N alternative_donor CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52264484-52271897;chr19:52265789-52271897 chr19:52266771-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 921;118 N jcn_only_AA CUFF.2175 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 102;448 N jcn_only_AA CUFF.2142 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 6;30 K jcn_only_AD CUFF.2069 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 15;183 N jcn_only_AD chr19 - chr19:33954969-33968952;chr19:33954969-33967985 chr19:33954969-33968951 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 45;8362 K intron_retention CUFF.2093 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 305;239 N jcn_only_AA CUFF.2186 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 184;108 K intron_retention CUFF.2104 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 218;254 N jcn_only_AD CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 579;732 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 129;38 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 23;758 N intron_retention chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 65;240 K jcn_only_AA CUFF.2191 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 355;112 N cassette CUFF.2092 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866657-14867049 chr19:14866466-14866656 313;1094 K cassette CUFF.2148 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 1238;2413 K alternative_acceptor CUFF.2141 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 48;823 K cassette CUFF.2182 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 20;2468 K alternative_first_exon CUFF.2153 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725097 71;96 N jcn_only_AA CUFF.2186 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 30;66 K intron_retention CUFF.2167 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 2277;158 K intron_retention CUFF.2057 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 45;228 N cassette CUFF.2092 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 61;1612 N alternative_acceptor CUFF.2175 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 256;49 N alternative_acceptor CUFF.2155 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 614;558 N alternative_donor CUFF.2044 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 191;1589 N alternative_acceptor chr19 + chr19:52264484-52265669;chr19:52264484-52266614 chr19:52264484-52271897 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 598;394 K mutually_exclusive CUFF.2178 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 620;371 K alternative_acceptor CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 2118;453 N jcn_only_AA CUFF.2104 chr19 + chr19:12917894-12918020 chr19:12917894-12918019 chr19:12918020-12918020 chr19:12918020-12918021 2;8385 N jcn_only_AD CUFF.2051 chr19 - chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6148241 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 503;56 K cassette CUFF.2165 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 84;203 N alternative_acceptor chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 50;665 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 110;946 N coord_cassette CUFF.2092 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 38;2221 N cassette CUFF.2064 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 72;1384 K intron_retention CUFF.2104 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 555;761 N intron_retention CUFF.2177 chr19 - chr19:51537897-51538050 chr19:51537896-51537897;chr19:51538050-51538051 56;33 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 54;170 N alternative_donor CUFF.2051 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172 chr19:6047516-6072015 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 2410;558 K intron_retention CUFF.2048 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 382;442 K intron_retention CUFF.2104 chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 70;1229 N intron_retention CUFF.2104 chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 272;85 N alternative_acceptor CUFF.2114 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 21;777 N cassette CUFF.2092 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 97;1873 N jcn_only_AA CUFF.2155 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 255;45 K cassette CUFF.2131 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 394;1422 N alternative_acceptor CUFF.2186 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 265;108 N alternative_donor chr19 - chr19:33954969-33968952;chr19:33954969-33967985 chr19:33954969-33968951 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 135;8362 K mutually_exclusive CUFF.2187 chr19 + chr19:55087577-55098476,chr19:55098528-55098667 chr19:55087577-55088931,chr19:55089191-55098667 chr19:55098477-55098527 chr19:55088932-55089190 226;509 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-33991843 chr19:33984244-34001933 796;78 K alternative_first_exon CUFF.2090 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 65;132 N jcn_only_AD CUFF.2129 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 941;53 N jcn_only_AA CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2541;90 N jcn_only_AD CUFF.2191 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 43;31 N intron_retention chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 261;238 N alternative_acceptor CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 5027;171 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816 chr19:17447967-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 2555;23 N alternative_acceptor CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 20;47 K intron_retention CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 72;1540 K jcn_only_AD CUFF.2182 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 432;720 N cassette CUFF.2103 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17615263 chr19:17611521-17611685 40;684 N alternative_donor chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 136;864 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 40;682 K intron_retention CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 36;7779 N jcn_only_AD CUFF.2071 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 189;198 N alternative_donor CUFF.2048 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 776;39 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 1907;722 N alternative_donor CUFF.2148,CUFF.2175 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 1989;478 K intron_retention CUFF.2164 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 161;276 N jcn_only_AA CUFF.2186 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 222;28 N jcn_only_AD CUFF.2048 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 776;39 N coord_cassette CUFF.2163 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 169;1871 N alternative_donor CUFF.2051 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6072015 chr19:6047516-6057172 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 2641;327 N jcn_only_AA chr19 - chr19:33984244-34001933 chr19:33991908-34001933 78;774 K alternative_acceptor CUFF.2179 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 127;2360 N jcn_only_AA CUFF.2072 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 276;56 K intron_retention CUFF.2167 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 1843;53 K intron_retention CUFF.2167 chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 1566;65 K alternative_donor CUFF.2146 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 24;299 N jcn_only_AD CUFF.2044 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1907;279 N alternative_acceptor CUFF.2112 chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 263;41 N alternative_donor CUFF.2051,CUFF.2163 chr19 - chr19:6047516-6148241;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6049146 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 2871;97 N jcn_only_AD CUFF.2048 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 194;369 N cassette CUFF.2182 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 43;127 N alternative_donor CUFF.2104 chr19 + chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445921-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 8697;59 N intron_retention chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 55;262 N intron_retention chr19 + chr19:50306636-50308711 chr19:50306635-50306636;chr19:50308711-50308712 3;117 K alternative_acceptor CUFF.2072 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 126;305 N cassette CUFF.2051 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 383;1204 K cassette CUFF.2148 chr19 - chr19:41938314-41939441 chr19:41938314-41939176;chr19:41939340-41939441 chr19:41939177-41939339 419;2691 N jcn_only_AA CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2266;365 N alternative_acceptor CUFF.2186 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 30;1604 N jcn_only_AA chr19 + chr19:52264484-52265669;chr19:52264484-52266614 chr19:52264484-52271897 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 156;394 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 124;178 K intron_retention CUFF.2186 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 196;16 N jcn_only_AA chr19 + chr19:17597767-17597982 chr19:17597767-17597908 97;54 N jcn_only_AA CUFF.2093,CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 128;37 N cassette CUFF.2148 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 426;2416 K intron_retention CUFF.2106 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 331;342 K jcn_only_AD CUFF.2177 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 598;312 K alternative_donor CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 58;108 N alternative_acceptor CUFF.2186 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 226;58 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448386-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 7344;1412 N jcn_only_AD CUFF.2181 chr19 + chr19:52266771-52271897;chr19:52264484-52271897;chr19:52265789-52271897 chr19:52271786-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 512;86 N cassette CUFF.2186 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 61;549 N jcn_only_AA CUFF.2186 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 224;26 N alternative_acceptor CUFF.2112 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 120;184 K alternative_donor CUFF.2099 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 38;348 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 698;457 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 24;7894 N alternative_donor CUFF.2155 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 663;341 K intron_retention CUFF.2175 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 410;69 N jcn_only_AD chr19 - chr19:33984244-33991843;chr19:33984244-34001933 chr19:33984244-34003498 721;153 N jcn_only_AA CUFF.2103,CUFF.2104 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 282;31 N intron_retention chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 20;139 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 1009;146 N intron_retention CUFF.2139 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 177;168 N jcn_only_AD CUFF.2048 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 438;125 K intron_retention CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 58;41 K intron_retention CUFF.2104 chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 738;1326 N alternative_donor CUFF.2044 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1907;3218 N alternative_acceptor CUFF.2186 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 150;223 N alternative_acceptor CUFF.2142 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 6;98 N mutually_exclusive CUFF.2187 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085164,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085165-55085379 369;41 N jcn_only_AD CUFF.2157 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 358;44 N jcn_only_AA chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 111;221 K intron_retention CUFF.2072 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 57;246 K intron_retention CUFF.2106 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 293;252 K intron_retention CUFF.2044 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 732;652 K alternative_first_exon CUFF.2163 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314385 chr19:49314066-49314236 243;94 N alternative_donor CUFF.2117 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 45;13 N jcn_only_AA CUFF.2146 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 20;70 N jcn_only_AD CUFF.2129,CUFF.2139 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2438;40 N alternative_donor CUFF.2139 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2344;204 N alternative_donor CUFF.2048 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 985;125 N jcn_only_AA CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 20;29 K alternative_acceptor CUFF.2092 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 198;324 N jcn_only_AA chr19 + chr19:1438892-1439714;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1440017 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 724;1907 N alternative_donor CUFF.2155 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 981;23 N alternative_donor CUFF.2129 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 947;53 N jcn_only_AA CUFF.2048,CUFF.2155 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 119;1025 N jcn_only_AD CUFF.2129 chr19 - chr19:33954969-33967985;chr19:33954969-33968951 chr19:33954969-33968952 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 8405;2 K intron_retention CUFF.2167 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 2247;156 N alternative_acceptor CUFF.2072 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 539;56 K cassette CUFF.2182 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 648;388 K alternative_first_exon CUFF.2112 chr19 - chr19:20243397-20261169;chr19:20243397-20351308 chr19:20243397-20349096 chr19:20261170-20261357;chr19:20351309-20351446 chr19:20349097-20349324 95;146 K cassette CUFF.2191 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 272;128 K intron_retention CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 227;353 N cassette CUFF.2165 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 34;249 N alternative_acceptor CUFF.2044,CUFF.2104 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 4558;640 N alternative_donor CUFF.2071 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 189;629 N coord_cassette CUFF.2129 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 563;35270 N jcn_only_AD CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 938;56 N cassette CUFF.2163 chr19 - chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311569-49314240 chr19:49311013-49311568 111;1883 N jcn_only_AA CUFF.2112 chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 96;79 K alternative_donor CUFF.2191 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 278;388 K cassette CUFF.2103 chr19 + chr19:17598339-17599816 chr19:17598339-17599656;chr19:17599749-17599816 chr19:17599657-17599748 72;827 N jcn_only_AD CUFF.2092 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 623;33 K intron_retention CUFF.2130 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 692;390 N jcn_only_AA CUFF.2048 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1077;67 N jcn_only_AD CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52266771-52271897;chr19:52264484-52271897 chr19:52265789-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 523;75 N jcn_only_AA CUFF.2165 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 111;47 K alternative_first_exon CUFF.2103 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 chr19:17581211-17581516 chr19:17597372-17598144 384;1515 N alternative_acceptor CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 5108;90 K alternative_first_exon CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45252304-45254483 chr19:45250878-45251385 chr19:45251752-45252303 665;711 N alternative_donor CUFF.2157 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 358;191 K alternative_first_exon CUFF.2112 chr19 - chr19:20243397-20349096;chr19:20243397-20351308 chr19:20243397-20261169 chr19:20349097-20349324;chr19:20351309-20351446 chr19:20261170-20261357 184;57 K intron_retention CUFF.2167 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 2384;119 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 117;153 N cassette CUFF.2106 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 45;7291 N alternative_donor CUFF.2155 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 364;640 N alternative_donor chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6110403 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 1038;1930 N intron_retention chr19 + chr19:50285227-50296292 chr19:50285226-50285227;chr19:50296292-50296293 2;24 N intron_retention chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 191;372 K jcn_only_AA CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 2118;313 K alternative_donor CUFF.2130 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 615;635 N jcn_only_AA CUFF.2103 chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 166;147 N intron_retention CUFF.2104 chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 228;142 N jcn_only_AA CUFF.2044,CUFF.2104 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2596;35 N alternative_acceptor CUFF.2044 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 4497;701 K cassette CUFF.2167 chr19 + chr19:50305399-50306205 chr19:50305399-50305790;chr19:50305857-50306205 chr19:50305791-50305856 1911;377 K intron_retention CUFF.2139 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 802;3145 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 69;98 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 57;545 K cassette CUFF.2187 chr19 + chr19:55084903-55085542 chr19:55084903-55085297;chr19:55085380-55085542 chr19:55085298-55085379 185;566 N jcn_only_AD CUFF.2051,CUFF.2163 chr19 - chr19:6047516-6148241;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6049146 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 547;12 N alternative_donor CUFF.2048 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 266;844 K alternative_donor CUFF.2177 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 598;654 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17447967-17448816 chr19:17448474-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 4353;4403 K alternative_first_exon CUFF.2169 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 176;164 N alternative_acceptor CUFF.2104 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1388;618 N alternative_donor CUFF.2051 chr19 - chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6148241 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 2912;56 K jcn_only_AD CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 58;94 N jcn_only_AD CUFF.2051 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172 chr19:6047516-6072015 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 466;93 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 35;551 N jcn_only_AA CUFF.2175 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 256;49 K intron_retention CUFF.2104 chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 956;451 N jcn_only_AD CUFF.2093 chr19 + chr19:16191253-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16187508-16192722 1020;135 N jcn_only_AD chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 1319;6735 N alternative_acceptor CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 72;1126 N alternative_donor CUFF.2129 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 20271;1038 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 23;826 N jcn_only_AA CUFF.2164 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 32;207 N jcn_only_AD CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52266771-52271897;chr19:52265789-52271897 chr19:52264484-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 204;394 N alternative_donor chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 139;59 N alternative_acceptor CUFF.2165 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 111;47 N cassette CUFF.2104 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17447844-17448816 chr19:17447629-17447843 35;2233 N alternative_donor CUFF.2129 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 917;83 N alternative_donor CUFF.2181 chr19 + chr19:52271786-52271897;chr19:52266771-52271897;chr19:52265789-52271897 chr19:52264484-52271897 chr19:52264484-52265788;chr19:52265789-52266770;chr19:52266771-52271785 chr19:52264483-52264484;chr19:52265788-52265789;chr19:52266770-52266771 645;394 N coord_cassette CUFF.2051 chr19 - chr19:6026249-6110403 chr19:6026249-6039990;chr19:6040253-6042054;chr19:6042135-6047417;chr19:6047516-6110403 chr19:6039991-6040252;chr19:6042055-6042134;chr19:6047418-6047515 510;1021 N alternative_first_exon CUFF.2104 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445729-17445931 chr19:17447421-17447536 145;77 K jcn_only_AD CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 227;1612 N alternative_donor CUFF.2052 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6216747-6217964 chr19:6217964-6217965 463;424 K jcn_only_AD CUFF.2099 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 38;128 N alternative_donor CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448457-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 8580;176 N jcn_only_AD CUFF.2104 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17447844-17448816 chr19:17445921-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 1889;689 N alternative_acceptor CUFF.2146 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 20;70 K intron_retention chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 8385;52 N alternative_donor CUFF.2139 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 287;2261 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 37;927 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 227;43 K cassette CUFF.2092 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 249;440 N alternative_acceptor CUFF.2129 chr19 - chr19:33904549-33953900 chr19:33904550-33953900 chr19:33904549-33904549 chr19:33904548-33904549 3;13588 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 196;74 N jcn_only_AA CUFF.2072 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 277;55 K alternative_donor CUFF.2047 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 70;33 K intron_retention CUFF.2196 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 392;352 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 23;237 K intron_retention CUFF.2093 chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 417;386 K alternative_donor CUFF.2182 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 833;720 K cassette CUFF.2099 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 24;150 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 26;423 N jcn_only_AD CUFF.2117 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 45;13 K intron_retention chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 27;149 K alternative_last_exon CUFF.2114 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627014-21627225 chr19:21634843-21636579 189;2689 N jcn_only_AA CUFF.2112 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 105;70 N intron_retention chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 45;433 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 1016;180 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 32;92 K intron_retention CUFF.2167 chr19 + chr19:50285228-50296292 chr19:50285227-50285228;chr19:50296292-50296293 898;26 N alternative_acceptor CUFF.2164 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 32;1346 N jcn_only_AA CUFF.2181 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 520;30 K jcn_only_AD CUFF.2139,CUFF.2177 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 121;282 N alternative_acceptor CUFF.2072 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 457;138 N alternative_acceptor CUFF.2175 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 102;577 N jcn_only_AD CUFF.2139 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2301;177 K alternative_first_exon CUFF.2093 chr19 + chr19:16178773-16186856;chr19:16178549-16186856 chr19:16186520-16186856 chr19:16178344-16178548 chr19:16186438-16186519 955;231 K cassette CUFF.2191 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 107;606 N jcn_only_AA CUFF.2186 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 313;131 K intron_retention CUFF.2157 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 91;864 K jcn_only_AA CUFF.2092 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 198;241 K intron_retention CUFF.2114 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 429;33 N cassette CUFF.2092 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 38;1876 K alternative_first_exon CUFF.2175 chr19 - chr19:51528923-51529011;chr19:51528923-51529793;chr19:51528923-51531199 chr19:51528923-51530712 chr19:51529794-51529858;chr19:51531200-51531394 chr19:51530713-51531026 517;313 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 365;605 N alternative_donor CUFF.2069,CUFF.2129 chr19 - chr19:33954969-33968952;chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 8364;133 K intron_retention CUFF.2167 chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 1459;99 K intron_retention CUFF.2167 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 270;56 K intron_retention CUFF.2167 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 2424;213 K intron_retention CUFF.2139 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 1612;234 N alternative_donor CUFF.2048 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 969;141 N jcn_only_AA chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 55;23 N jcn_only_AA chr19 - chr19:33984244-34003498 chr19:34002062-34003498 153;681 N alternative_donor CUFF.2167 chr19 + chr19:50285227-50296292 chr19:50285228-50296292 chr19:50285227-50285227 chr19:50285226-50285227 2;914 N jcn_only_AD CUFF.2103 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 297;47 K intron_retention CUFF.2048 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 282;314 K intron_retention CUFF.2114 chr19 - chr19:21637275-21639262 chr19:21637274-21637275;chr19:21639262-21639263 671;22 K intron_retention CUFF.2177 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 566;897 N alternative_donor CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 938;66 N alternative_acceptor CUFF.2104 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1574;432 N intron_retention chr19 + chr19:12917894-12918020 chr19:12917893-12917894;chr19:12918020-12918021 2;51 N coord_cassette CUFF.2092 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 82;1978 K intron_retention CUFF.2106 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 169;314 N intron_retention chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 421;1383 N jcn_only_AD CUFF.2148,CUFF.2175 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 1949;371 K intron_retention CUFF.2141 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 477;160 N cassette CUFF.2051 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 274;2452 K alternative_first_exon CUFF.2175 chr19 - chr19:51528923-51529011;chr19:51528923-51530712;chr19:51528923-51531199 chr19:51528923-51529793 chr19:51530713-51531026;chr19:51531200-51531394 chr19:51529794-51529858 574;256 K intron_retention CUFF.2114 chr19 - chr19:21638407-21639262 chr19:21638406-21638407;chr19:21639262-21639263 187;8 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 738;417 N alternative_acceptor CUFF.2048 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1109;52 K alternative_acceptor CUFF.2104 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 204;1295 N alternative_acceptor CUFF.2181 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 915;77 N alternative_acceptor CUFF.2092 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 497;941 K jcn_only_AD CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 428;91 K alternative_donor CUFF.2182 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1252;301 N alternative_donor CUFF.2103 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 297;5357 N jcn_only_AD CUFF.2069,CUFF.2129 chr19 - chr19:33954969-33968952;chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951;chr19:33968952-33968952 chr19:33968951-33968952;chr19:33968952-33968953 8364;43 N alternative_acceptor CUFF.2104 chr19 + chr19:12917894-12918020 chr19:12917894-12918019 chr19:12918020-12918020 chr19:12918020-12918021 2;8408 N jcn_only_AA CUFF.2155 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 161;139 N alternative_donor CUFF.2129,CUFF.2139 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2465;83 K alternative_last_exon CUFF.2093 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206238 2177;237 N coord_cassette CUFF.2051 chr19 - chr19:6016283-6110403 chr19:6016283-6039990;chr19:6040253-6042054;chr19:6042135-6047417;chr19:6047516-6110403 chr19:6039991-6040252;chr19:6042055-6042134;chr19:6047418-6047515 366;183 K cassette CUFF.2077 chr19 + chr19:11888553-11889144 chr19:11888553-11888930;chr19:11888995-11889144 chr19:11888931-11888994 38;235 N alternative_acceptor chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 55;32 N intron_retention chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 23;134 K intron_retention CUFF.2163 chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 89;709 N jcn_only_AA CUFF.2044 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2450;181 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 34;118 K intron_retention CUFF.2044 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 1344;296 N jcn_only_AA CUFF.2117,CUFF.2181 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 45;13 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 279;780 N alternative_donor CUFF.2129,CUFF.2177 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 1163;76 K intron_retention CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 938;36 N jcn_only_AA chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 184;116 N jcn_only_AD CUFF.2103 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 147;40 K intron_retention CUFF.2155 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 210;171 N alternative_acceptor CUFF.2129 chr19 - chr19:33968996-33978155 chr19:33968997-33978155 chr19:33968996-33968996 chr19:33968995-33968996 3;6744 N jcn_only_AD CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 36;24 K jcn_only_AD CUFF.2182 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 930;222 N jcn_only_AD CUFF.2129 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 7851;203 N jcn_only_AA CUFF.2032 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 80;173 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55758860-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 889;31 K alternative_donor CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 67;372 K cassette CUFF.1980 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 249;680 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713021-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3950;243 N jcn_only_AD CUFF.2021 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 39;455 N alternative_donor CUFF.2041 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 53;403 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55714743-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 776;144 K alternative_donor CUFF.2002 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 70;138 K jcn_only_AA CUFF.2032 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 102;258 K intron_retention CUFF.1980 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 441;431 N jcn_only_AA CUFF.1989 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 375;72 N jcn_only_AA CUFF.1986 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1475;57 N cassette CUFF.1980 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-180235 chr18:166787-166819 134;560 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55758860-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3919;274 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 3;91 K alternative_first_exon CUFF.2032 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67623991-67624490 chr18:67623850-67623979 891;148 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55712848-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 4041;152 N jcn_only_AA CUFF.2027 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 428;51 N jcn_only_AA CUFF.2032 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 37;401 N jcn_only_AD CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 343;62 N coord_cassette CUFF.2003 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 18;2565 N alternative_first_exon CUFF.1999 chr18 - chr18:44486279-44500021;chr18:44486279-44497964 chr18:44486279-44497284 chr18:44497965-44498101 chr18:44497285-44497548 330;661 K jcn_only_AD CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 67;97 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713251-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3962;231 K intron_retention CUFF.1997 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 chr18:44268738-44268882;chr18:44272132-44272218 139;425 N jcn_only_AA CUFF.1986 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 1037;56 N jcn_only_AA chr18 + chr18:77441518-77455224 chr18:77441518-77443042 86;117 N alternative_acceptor chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 479;157 K alternative_last_exon CUFF.1999 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398373-44398410 128;143 K intron_retention CUFF.1986 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 823;1154 K intron_retention CUFF.2025 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 411;145 N alternative_last_exon chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391127 chr18:61378569-61378628 449;611 K cassette CUFF.2007 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 142;62 N mutually_exclusive CUFF.1999 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 675;45 N jcn_only_AD CUFF.2035 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 640;59 N alternative_acceptor chr18 + chr18:12014373-12021700;chr18:12014373-12017612 chr18:12014373-12028041 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 617;1353 N alternative_donor CUFF.2039 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 42;261 N jcn_only_AD CUFF.2003 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 1013;48 K jcn_only_AA CUFF.1989 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 97;129 N alternative_donor CUFF.2003 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 488;313 N alternative_acceptor CUFF.1986 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1817;153 N cassette CUFF.2003 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895140-55912658 chr18:55895062-55895139 590;534 N jcn_only_AD chr18 - chr18:76737430-76738785;chr18:76737430-76737554 chr18:76737430-76738462 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 111;15 K jcn_only_AD CUFF.2002 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 70;26 N jcn_only_AA chr18 + chr18:12014373-12021700;chr18:12014373-12017612 chr18:12014373-12028041 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 179;1353 K jcn_only_AD CUFF.1986 chr18 + chr18:12012215-12014263 chr18:12012349-12014263 chr18:12012215-12012348 chr18:12012214-12012215 741;180 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 chr18:44268738-44268830;chr18:44272132-44272218 33;689 N cassette CUFF.2040 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 9;133 N alternative_acceptor CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 600;102 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55712848-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 784;136 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55711941-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 848;72 N alternative_donor CUFF.2003 chr18 + chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55816802-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3432;761 K cassette CUFF.1986 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 340;1925 N alternative_donor CUFF.2003 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1005;188 N jcn_only_AA CUFF.1997 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 chr18:44272132-44272218;chr18:44268738-44268830 33;139 K mutually_exclusive CUFF.1980 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 482;560 N cassette CUFF.1980 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 134;482 N alternative_acceptor CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 343;44 N jcn_only_AD CUFF.1986 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 1037;52 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55711941-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 4121;72 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 26;150 N jcn_only_AD CUFF.2003 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1005;44 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019 chr18:55722109-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3866;327 K intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 488;329 N jcn_only_AA CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 343;42 N jcn_only_AA CUFF.2032 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 188;65 N jcn_only_AD CUFF.2035 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 609;90 K alternative_first_exon CUFF.2027 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417488-63417616 chr18:63417792-63418386 17;2026 N coord_cassette CUFF.1997 chr18 - chr18:44284628-44338957 chr18:44284628-44301324;chr18:44301433-44310168;chr18:44310325-44311643;chr18:44311807-44338957 chr18:44301325-44301432;chr18:44310169-44310324;chr18:44311644-44311806 chr18:44284535-44284627 28;1677 N cassette CUFF.2040 chr18 + chr18:77489070-77513651 chr18:77489070-77496354;chr18:77496522-77513651 chr18:77496355-77496521 23;249 N cassette CUFF.2003 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 17;1094 N coord_cassette CUFF.2003 chr18 + chr18:56001125-56010137 chr18:56001125-56008269;chr18:56008402-56008909;chr18:56009030-56010137 chr18:56008270-56008401;chr18:56008910-56009029 17;2339 N alternative_donor chr18 - chr18:76737430-76738785;chr18:76737430-76737554 chr18:76737430-76738462 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 277;26 N alternative_donor CUFF.1991 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728514-14796414 chr18:14728513-14728514 5;7427 N alternative_first_exon CUFF.1980 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158383-158714 chr18:158860-159021 299;311 N alternative_donor CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 343;64 N jcn_only_AD CUFF.2035 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 149;550 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 3;1918 N alternative_donor CUFF.2035 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 831;90 K cassette CUFF.1997 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 chr18:44284535-44284627;chr18:44336341-44337132 20;466 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55722109-55833019 chr18:55816792-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 800;120 N cassette CUFF.2021 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 32;1060 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55714743-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 3319;874 N cassette CUFF.1999 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 11;3629 N jcn_only_AD CUFF.1991 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728514-14796414 chr18:14728513-14728514 5;53 N alternative_acceptor CUFF.2027 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 428;339 N jcn_only_AD CUFF.2003 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 874;106 N alternative_donor CUFF.2003 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 874;123 K alternative_first_exon CUFF.2002 chr18 - chr18:47329224-47337765,chr18:47329224-47340051,chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47339838 chr18:47329224-47339094 chr18:47340102-47340330 chr18:47339095-47339458 386;1271 N cassette CUFF.2003 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 18;1721 N jcn_only_AD CUFF.2003 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 488;26 N cassette CUFF.1999 chr18 - chr18:44483597-44500021 chr18:44483597-44486189;chr18:44486279-44500021 chr18:44486190-44486278 147;88 N alternative_donor CUFF.2003 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 1013;59 N alternative_acceptor CUFF.1986 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1506;464 K alternative_first_exon CUFF.1986 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981024-11981204 chr18:11981390-11981764 192;1720 K jcn_only_AA CUFF.2031 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 99;47 N coord_cassette CUFF.1999 chr18 - chr18:44483597-44500021 chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44484065-44484169;chr18:44486190-44486278 147;368 N alternative_donor CUFF.2039 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 287;16 N alternative_first_exon CUFF.2040 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441398-77441517 138;90 N alternative_donor CUFF.1986 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 1037;154 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 45;297 N intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 39;316 N jcn_only_AD CUFF.1991 chr18 + chr18:14784363-14784461 chr18:14784364-14784461 chr18:14784363-14784363 chr18:14784362-14784363 2;932 K cassette CUFF.1986 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012349-12014263 chr18:12012169-12012348 340;1501 N cassette CUFF.2003 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 33;1652 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713021-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 763;157 N jcn_only_AA chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 479;157 N alternative_donor CUFF.1986 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 1353;585 K alternative_first_exon CUFF.2032 chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624490 chr18:67613970-67614305 347;873 N alternative_acceptor CUFF.1997 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 chr18:44272132-44272218;chr18:44268738-44268830 33;665 K alternative_first_exon CUFF.2041 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867526-77867905 163;1017 N cassette CUFF.1999 chr18 - chr18:44483597-44486189 chr18:44483597-44484064;chr18:44484170-44486189 chr18:44484065-44484169 39;464 N jcn_only_AD CUFF.2039 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 110;16 K cassette CUFF.2018 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 548;211 K intron_retention CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 67;160 N alternative_donor CUFF.2035 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 723;198 N cassette CUFF.1999 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 112;746 N alternative_donor CUFF.1991 chr18 + chr18:14784363-14784461 chr18:14784364-14784461 chr18:14784363-14784363 chr18:14784362-14784363 2;932 K alternative_donor CUFF.1986 chr18 + chr18:12012215-12014263 chr18:12012349-12014263 chr18:12012215-12012348 chr18:12012214-12012215 741;317 N coord_cassette CUFF.1999 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44497284 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 180;1189 N jcn_only_AA CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 600;89 N cassette CUFF.1997 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 chr18:44272132-44272218;chr18:44336341-44337132 55;330 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713251-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 780;140 N jcn_only_AA CUFF.1983 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775123-4807994 chr18:4775122-4775123 115;50 K cassette CUFF.2018 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 477;151 N alternative_acceptor CUFF.1986 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 1037;392 N coord_cassette CUFF.1997 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 chr18:44272132-44272218;chr18:44336341-44337132 55;663 K alternative_acceptor CUFF.1989 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 97;146 N coord_cassette CUFF.1999 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 112;775 N jcn_only_AA CUFF.2032 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 109;35 N alternative_acceptor CUFF.2032 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 37;1399 N alternative_acceptor CUFF.2032 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 109;35 N jcn_only_AD CUFF.1986 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 1353;141 K alternative_first_exon CUFF.2003 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024426-56024484 chr18:56027104-56027290 901;348 K alternative_acceptor CUFF.2031 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 99;53 N jcn_only_AA CUFF.1986 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1410;122 N jcn_only_AD CUFF.2003 chr18 + chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55816802-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 848;72 N alternative_first_exon CUFF.2003 chr18 + chr18:55888990-55895061;chr18:55833094-55895061 chr18:55862966-55895061 chr18:55833020-55833093 chr18:55862652-55862965 343;122 N jcn_only_AD CUFF.2039 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 31;95 N alternative_acceptor CUFF.1983 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775123-4807994 chr18:4775122-4775123 115;50 N jcn_only_AA CUFF.2032 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 238;15 K intron_retention CUFF.1999 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 543;595 K intron_retention CUFF.2003 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 1402;163 K cassette CUFF.2003 chr18 + chr18:56001125-56008909 chr18:56001125-56008269;chr18:56008402-56008909 chr18:56008270-56008401 43;1368 N cassette CUFF.1980 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 310;919 N alternative_donor CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55722109-55833019 chr18:55816792-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 2934;1259 N intron_retention chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 39;536 K intron_retention CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060782-61060783;chr18:61064266-61064267 600;82 N alternative_first_exon CUFF.2003 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 1132;1554 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 45;295 N cassette CUFF.1999 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 67;1356 N alternative_donor CUFF.2035 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 288;633 N jcn_only_AD CUFF.2003 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019 chr18:55722109-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 872;48 N jcn_only_AD CUFF.2041 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 53;295 N coord_cassette CUFF.2003 chr18 + chr18:56001125-56016768 chr18:56001125-56008269;chr18:56008402-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008270-56008401;chr18:56008910-56009029;chr18:56010138-56010335 18;4060 N mutually_exclusive CUFF.2040 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 59;56 K jcn_only_AD CUFF.2021 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 44;683 N jcn_only_AD CUFF.2379 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 72;65 N jcn_only_AD CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 66;18 K cassette CUFF.2343 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 64;279 K jcn_only_AD CUFF.2340 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 104;26 K intron_retention CUFF.2328 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 755;38 K intron_retention CUFF.2308 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 127;87 N jcn_only_AD CUFF.2379 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 103;34 N alternative_donor CUFF.2383 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 159;86 K intron_retention CUFF.2319 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 235;107 K intron_retention CUFF.2332 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 194;75 N alternative_acceptor CUFF.2356 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 119;73 N jcn_only_AD CUFF.2328 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 149;35 K intron_retention CUFF.2343 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 91;18 K intron_retention CUFF.2313 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 400;582 N jcn_only_AD CUFF.2383 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 184;61 K cassette CUFF.2346 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 105;244 N alternative_donor CUFF.2328,CUFF.2329 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 215;138 N alternative_donor CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 185;173 N jcn_only_AD CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 185;96 N alternative_donor CUFF.2309,CUFF.2313 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 1313;409 K jcn_only_AA CUFF.2347 chrX - chrX:85219058-85302487 chrX:85282562-85302487 153;50 K jcn_only_AD CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 27;181 N jcn_only_AA CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119377887-119378618;chrX:119271100-119378618 chrX:119374209-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 164;22 N alternative_acceptor CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119377887-119378618;chrX:119374209-119378618 chrX:119271100-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 720;34 K cassette CUFF.2340 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 44;20 K intron_retention CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 27;313 N alternative_acceptor CUFF.2308 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 55;409 K cassette CUFF.2340 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 79;111 N alternative_donor CUFF.2347 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 50;31 N alternative_donor chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 171;29 K alternative_first_exon CUFF.2321 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693902-15706783;chrX:15699311-15706783 chrX:15693092-15706783 chrX:15693813-15693901;chrX:15699124-15699310 chrX:15692964-15693091 410;70 N alternative_donor CUFF.2379 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 106;38 N cassette CUFF.2319 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 235;362 K intron_retention CUFF.2384 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 1253;64 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 65;21 N jcn_only_AD CUFF.2329,CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 97;47 K intron_retention CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 66;163 N cassette CUFF.2355 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 91;551 N jcn_only_AA CUFF.2328 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 92;149 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 21;197 N jcn_only_AA CUFF.2363 chrX - chrX:119312412-119378618;chrX:119377887-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119355498-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 159;27 N jcn_only_AA CUFF.2329 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 43;135 N jcn_only_AD chrX - chrX:53652220-53654360 chrX:53652220-53652746 19;25 K jcn_only_AD CUFF.2337 chrX + chrX:45129987-45184737 chrX:45184464-45184737 49;265 N jcn_only_AD CUFF.2373 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 56;74 N jcn_only_AD CUFF.2355 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 239;27 N jcn_only_AD CUFF.2384 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 88;196 K intron_retention CUFF.2308 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 155;73 N alternative_donor CUFF.2384 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 88;251 K alternative_last_exon CUFF.2354 chrX - chrX:106235661-106236459;chrX:106059017-106236459 chrX:106229431-106236459 chrX:106057053-106059016 chrX:106229213-106229430 687;64 N cassette CUFF.2313 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 158;261 N jcn_only_AD CUFF.2354 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 4;29 N intron_retention chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 47;246 N alternative_donor CUFF.2373 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 56;115 N intron_retention chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 14;12 N jcn_only_AD CUFF.2379 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 99;38 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 65;21 N jcn_only_AA CUFF.2309 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 18;109 N jcn_only_AD CUFF.2308 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 61;23 N alternative_acceptor CUFF.2329 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 54;81 N jcn_only_AA chrX + chrX:47035986-47040613 chrX:47035986-47038501 18;55 N jcn_only_AD CUFF.2309,CUFF.2313 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 1313;272 K alternative_acceptor CUFF.2337 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 80;134 K cassette CUFF.2328 chrX - chrX:19935453-19947902 chrX:19935453-19941275;chrX:19941526-19947902 chrX:19941276-19941525 95;675 K alternative_last_exon CUFF.2370 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654529 chrX:133634060-133634698 214;241 K alternative_last_exon CUFF.2321 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715888 chrX:15720905-15721847 780;1484 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 88;88 N alternative_donor CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 66;110 N alternative_acceptor CUFF.2329 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 120;39 N alternative_acceptor CUFF.2328 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 92;242 K alternative_last_exon CUFF.2321 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721847;chrX:15713794-15713856 chrX:15715363-15715888 1680;584 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 38;223 N alternative_donor CUFF.2355 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 309;119 N alternative_donor CUFF.2308 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 58;111 N jcn_only_AD CUFF.2308 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 52;32 N alternative_first_exon CUFF.2346 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003120-78003531 chrX:78006707-78006808 164;50 N alternative_donor CUFF.2328 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 149;40 K alternative_acceptor CUFF.2340,CUFF.2376 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 193;640 N jcn_only_AD chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 50;26 K intron_retention CUFF.2347 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 16;38 N jcn_only_AD CUFF.2383 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 159;86 K jcn_only_AD CUFF.2308,CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 282;44 N jcn_only_AD CUFF.2340 chrX + chrX:47035986-47040613 chrX:47039906-47040613 18;162 K intron_retention CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 282;261 N jcn_only_AD CUFF.2355 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 309;25 N jcn_only_AD CUFF.2383 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 147;98 N jcn_only_AA CUFF.2329 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 120;37 N alternative_donor CUFF.2329,CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 97;59 N cassette CUFF.2357 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 58;21 K cassette CUFF.2352 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 107;233 K intron_retention CUFF.2328 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 417;458 N alternative_donor CUFF.2354 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 4;94 N alternative_donor CUFF.2383 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 147;98 K alternative_donor CUFF.2340 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 104;26 K alternative_first_exon CUFF.2309 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645779 chrX:10588330-10588689 179;410 N alternative_acceptor CUFF.2363 chrX - chrX:119355498-119378618;chrX:119377887-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119312412-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 673;81 K jcn_only_AA CUFF.2340,CUFF.2376 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 193;640 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 55;460 K alternative_last_exon CUFF.2321 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721847;chrX:15715363-15715888 chrX:15713794-15713856 2068;196 N jcn_only_AD CUFF.2313 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 60;143 K mutually_exclusive CUFF.2308 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 339;105 N jcn_only_AA CUFF.2347 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 17;16 N jcn_only_AA CUFF.2329 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 54;62 N alternative_donor chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 50;39 N alternative_donor CUFF.2313 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 60;143 N cassette CUFF.2319 chrX - chrX:15344169-15353622 chrX:15344169-15349711;chrX:15350115-15353622 chrX:15349712-15350114 37;1446 K intron_retention CUFF.2384 chrX + chrX:153607927-153608049 chrX:153607926-153607927;chrX:153608049-153608050 196;38 N jcn_only_AA CUFF.2356 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 119;68 N alternative_donor CUFF.2308 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 105;95 K alternative_first_exon CUFF.2329 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20285157-20285599 chrX:20258687-20258735 252;91 N alternative_acceptor CUFF.2309 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 18;212 N cassette CUFF.2319 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 83;1758 K intron_retention CUFF.2328 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 253;61 K mutually_exclusive CUFF.2319 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 1382;104 K cassette CUFF.2339 chrX - chrX:46360771-46387769 chrX:46360771-46382371;chrX:46382561-46387769 chrX:46382372-46382560 11;431 K alternative_donor CUFF.2308,CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 282;101 N alternative_donor CUFF.2313 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 1603;128 N cassette CUFF.2355 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 46;496 N intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 49;328 N jcn_only_AA CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119377887-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 164;22 N jcn_only_AD chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 55;29 K alternative_first_exon CUFF.2382 chrX - chrX:152988744-152988962,chrX:152988744-152989470,chrX:152988744-152989788,chrX:152988744-152989941;chrX:152988744-152989655 chrX:152988744-152989409 chrX:152989656-152989838 chrX:152989410-152989612 413;2058 K intron_retention CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 185;114 N alternative_acceptor CUFF.2329 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 43;221 N alternative_acceptor CUFF.2347 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 17;3355 N intron_retention CUFF.2354 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 18;139 N alternative_donor CUFF.2379 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 103;41 K intron_retention CUFF.2328 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 222;258 K alternative_first_exon CUFF.2321 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693092-15706783;chrX:15699311-15706783 chrX:15693902-15706783 chrX:15692964-15693091;chrX:15699124-15699310 chrX:15693813-15693901 343;137 K alternative_first_exon CUFF.2329 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237168 160;725 N jcn_only_AD CUFF.2313 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 1603;46 K intron_retention CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 97;15 N alternative_donor CUFF.2356 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 119;99 N alternative_acceptor CUFF.2363 chrX - chrX:119312412-119378618;chrX:119377887-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119355498-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 718;36 K cassette CUFF.2346 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 26;191 K alternative_acceptor CUFF.2313 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 400;11014 K jcn_only_AA CUFF.2337 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 80;48 N intron_retention chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 17;79 N jcn_only_AA chrX - chrX:53652220-53654360 chrX:53652990-53654360 19;36 N jcn_only_AD CUFF.2347 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 50;26 K alternative_donor CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 27;561 N coord_cassette CUFF.2355 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 42;1036 K alternative_first_exon CUFF.2337 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042409-45042589 chrX:45182792-45182892 153;223 N intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 33;582 N jcn_only_AD CUFF.2328,CUFF.2329 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 215;45 N alternative_donor CUFF.2308 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 124;76 K intron_retention CUFF.2384 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 1628;30 N jcn_only_AA CUFF.2308 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 55;24 K intron_retention CUFF.2339 chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 44;246 K cassette CUFF.2384 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 1162;619 N jcn_only_AD CUFF.2356 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 119;95 K alternative_first_exon CUFF.2321 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699311-15706783 chrX:15692964-15693091;chrX:15693813-15693901 chrX:15699124-15699310 286;194 N jcn_only_AD CUFF.2308 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 58;40 N alternative_donor CUFF.2379 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 79;65 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 44;1252 K jcn_only_AA CUFF.2313 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 400;1075 N jcn_only_AA CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119377887-119378618;chrX:119374209-119378618 chrX:119271100-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 152;34 N alternative_acceptor CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119377887-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 194;560 N alternative_acceptor CUFF.2363 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119377887-119378618;chrX:119271100-119378618 chrX:119374209-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 711;43 N jcn_only_AA CUFF.2363 chrX - chrX:119355498-119378618;chrX:119377887-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119312412-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208;chrX:119374209-119377886 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498;chrX:119374208-119374209 105;81 K alternative_last_exon CUFF.2321 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15711086-15711181 chrX:15709261-15709370 523;195 N alternative_donor CUFF.2383 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 184;61 N alternative_donor CUFF.2355 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 239;126 K intron_retention CUFF.2282 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 60;171 K intron_retention chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 77;22 N alternative_acceptor CUFF.2266 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 214;29 N alternative_donor CUFF.2292 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 311;40 K alternative_first_exon CUFF.2284 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731278-31731402 91;85 K intron_retention CUFF.2278 chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 chr22:29684595-29684775;chr22:29687551-29687588 140;55 N jcn_only_AA CUFF.2274 chr22 + chr22:25855483-25856833;chr22:25855483-25905149 chr22:25855483-25915889 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 98;31 N alternative_acceptor chr22 + chr22:47188474-47188564;chr22:47188474-47189398 chr22:47188474-47189397 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 362;1128 N jcn_only_AD CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 140;29 N mutually_exclusive CUFF.2292 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 34;29 K jcn_only_AA CUFF.2260,CUFF.2292 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 357;21 K intron_retention CUFF.2255 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 191;362 K jcn_only_AD CUFF.2270 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 148;175 K alternative_first_exon CUFF.2282 chr22 - chr22:30738869-30748939 chr22:30738869-30740921 chr22:30748940-30749061 chr22:30740922-30741203 1294;1510 N jcn_only_AA CUFF.2255 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 690;37 K intron_retention CUFF.2282 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 99;63 N jcn_only_AA CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 140;6 N alternative_donor CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 180;21 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 68;81 K alternative_acceptor CUFF.2278 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 chr22:29668205-29668241;chr22:29668375-29668420 119;1293 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 257;243 K intron_retention chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 78;94 N alternative_donor CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 522;154 N alternative_acceptor CUFF.2277 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 91;285 N alternative_donor CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 419;335 K alternative_first_exon CUFF.2270 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700333-24700420 634;102 N mutually_exclusive CUFF.2295 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 1233;111 K intron_retention CUFF.2263 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 15;139 N alternative_acceptor CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 180;9 N alternative_acceptor CUFF.2292 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 290;51 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 340;77 K intron_retention CUFF.2303 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 750;253 N jcn_only_AD CUFF.2303 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 461;39 N jcn_only_AA CUFF.2274 chr22 + chr22:25855483-25856833;chr22:25855483-25915889 chr22:25855483-25905149 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 109;20 K intron_retention CUFF.2282 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 153;337 N jcn_only_AA CUFF.2295 chr22 + chr22:47188474-47188564;chr22:47188474-47189397 chr22:47188474-47189398 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 1417;2 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29668375-29668420 882;118 N jcn_only_AA CUFF.2266 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 21;52 N jcn_only_AD CUFF.2288 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 184;88 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 47;350 K cassette CUFF.2270 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 175;67 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 15;240 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 188;367 K alternative_donor CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 28;599 N cassette CUFF.2295 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 39;1179 N jcn_only_AD CUFF.2292 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 311;35 K intron_retention CUFF.2278 chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 chr22:29684595-29684775;chr22:29686402-29687545 372;117 K intron_retention CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 947;136 N cassette CUFF.2278 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 chr22:29674120-29674205;chr22:29682912-29683123 107;2334 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 188;2464 N jcn_only_AA CUFF.2292 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 290;34 K intron_retention CUFF.2303 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 839;365 N coord_cassette CUFF.2295 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 136;810 N alternative_donor CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 102;100 N jcn_only_AA CUFF.2282 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 40;734 N jcn_only_AD CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 102;83 N jcn_only_AA CUFF.2266 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 151;23 N alternative_acceptor CUFF.2288 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 419;326 K intron_retention CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 28;108 N jcn_only_AD CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 1105;135 N jcn_only_AA CUFF.2295 chr22 + chr22:47188474-47189397;chr22:47188474-47189398 chr22:47188474-47188564 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 1130;289 N jcn_only_AD CUFF.2282 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 64;726 N jcn_only_AD CUFF.2303 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 68;340 N cassette CUFF.2303 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 70;1021 K jcn_only_AA CUFF.2272 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 70;283 N jcn_only_AA CUFF.2288 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 340;134 K cassette CUFF.2288 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 175;275 N jcn_only_AD CUFF.2303 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 282;218 K jcn_only_AA CUFF.2278 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 chr22:29668205-29668241;chr22:29668375-29668420 119;1293 K jcn_only_AA CUFF.2278 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 chr22:29694723-29694885;chr22:29695224-29695270 421;284 N alternative_acceptor CUFF.2266 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 151;42 K intron_retention CUFF.2278 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 chr22:29695224-29695321;chr22:29695589-29695841 466;148 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 16;64 N alternative_first_exon CUFF.2295 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158430-47158745 chr22:47159128-47159228 121;307 N alternative_donor CUFF.2303 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 523;132 K cassette CUFF.2278 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 chr22:29669730-29669853;chr22:29674019-29674205 847;658 K cassette CUFF.2292 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 671;630 N intron_retention chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 31;67 N alternative_donor chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 412;243 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 142;527 N jcn_only_AA CUFF.2288 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 51;78 K intron_retention CUFF.2278 chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 chr22:29684595-29684775;chr22:29687554-29687588 134;53 N cassette CUFF.2260 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 22;188 K cassette CUFF.2295 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 596;802 N jcn_only_AA CUFF.2277 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 91;74 K intron_retention CUFF.2266 chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 59;34 N alternative_acceptor chr22 + chr22:37695348-37696193;chr22:37695348-37696110 chr22:37695348-37696947 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 456;289 K cassette CUFF.2272 chr22 - chr22:25155957-25158364 chr22:25155957-25157845;chr22:25157929-25158364 chr22:25157846-25157928 146;51 N jcn_only_AD CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 522;67 N jcn_only_AA chr22 + chr22:47188474-47188564;chr22:47188474-47189398 chr22:47188474-47189397 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 291;1128 N coord_cassette CUFF.2303 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 269;4703 N jcn_only_AD CUFF.2278 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 chr22:29668205-29668241;chr22:29663905-29664338 1461;48 N cassette CUFF.2263 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 87;637 N cassette CUFF.2255 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 37;1006 N intron_retention chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 35;136 N intron_retention CUFF.2303 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 135;583 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 chr22:29684595-29684744;chr22:29688489-29688595 27;291 N jcn_only_AA CUFF.2266 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 214;18 K intron_retention CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 419;488 N alternative_acceptor CUFF.2274 chr22 + chr22:25855483-25856833;chr22:25855483-25905149 chr22:25855483-25915889 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 2683;31 N intron_retention CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 27;485 N intron_retention CUFF.2303 chr22 - chr22:51016364-51016512 chr22:51016363-51016364;chr22:51016512-51016513 39;135 K intron_retention CUFF.2303 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 1558;406 N intron_retention CUFF.2260 chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 7;241 N jcn_only_AA CUFF.2288 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 423;51 N jcn_only_AA CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 27;1558 N jcn_only_AD CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 180;20 N alternative_acceptor CUFF.2274 chr22 + chr22:25855483-25856833;chr22:25855483-25915889 chr22:25855483-25905149 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 2495;219 K alternative_acceptor CUFF.2277 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 327;368 N jcn_only_AD CUFF.2263 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 37;69 N alternative_donor CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 1105;762 N alternative_donor CUFF.2303 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 375;280 K intron_retention CUFF.2303 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 1089;1751 N jcn_only_AD CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 520;140 N intron_retention CUFF.2292 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 46;113 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 168;938 N jcn_only_AA CUFF.2278,CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 102;91 N alternative_acceptor CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 520;150 K alternative_acceptor CUFF.2278 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 chr22:29694723-29694885;chr22:29695224-29695270 421;388 N alternative_donor CUFF.2295 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 27;928 N alternative_acceptor CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 140;259 N alternative_acceptor CUFF.2295 chr22 + chr22:47188474-47188564;chr22:47188474-47189397 chr22:47188474-47189398 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 1488;2 N jcn_only_AD CUFF.2295 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 27;790 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 21;34 N jcn_only_AA chr22 + chr22:29683124-29688125 chr22:29683124-29684594 chr22:29682912-29683123 9;784 N alternative_donor CUFF.2277 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 38;68 K jcn_only_AD CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 28;77 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 367;1988 K jcn_only_AD CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 947;15 N alternative_donor CUFF.2282 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 64;931 N alternative_acceptor CUFF.2295 chr22 + chr22:47188474-47189397;chr22:47188474-47189398 chr22:47188474-47188564 chr22:47188565-47189397;chr22:47189398-47189398 chr22:47189397-47189398;chr22:47189398-47189399 1130;360 N intron_retention chr22 - chr22:51009963-51010434 chr22:51009962-51009963;chr22:51010434-51010435 95;253 K intron_retention chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 124;90 K intron_retention CUFF.2278 chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 chr22:29695224-29695270;chr22:29695589-29695841 382;150 K intron_retention CUFF.2303 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 401;396 N alternative_acceptor CUFF.2266 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 57;174 K intron_retention CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 522;89 K intron_retention CUFF.2292 chr22 + chr22:45148508-45182336 chr22:45148507-45148508;chr22:45182336-45182337 642;21 K alternative_acceptor CUFF.2272 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 70;361 N intron_retention chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 22;57 N alternative_donor CUFF.2278 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 chr22:29668205-29668241;chr22:29663905-29664338 1461;335 K cassette CUFF.2292 chr22 + chr22:45148508-45182336 chr22:45148508-45173041;chr22:45173110-45182336 chr22:45173042-45173109 642;601 N alternative_acceptor CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 27;1738 N jcn_only_AA CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 180;8 K intron_retention CUFF.2263 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 410;220 N jcn_only_AA CUFF.2295 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 804;167 K intron_retention CUFF.2278 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 chr22:29687554-29687588;chr22:29688126-29688158 302;24 N alternative_donor CUFF.2303 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 68;498 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 269;549 K alternative_last_exon CUFF.2278 chr22 + chr22:29684776-29687553,chr22:29684776-29687550 chr22:29684776-29686401 chr22:29687554-29687588 chr22:29686402-29687545 chr22:29684595-29684775 274;1843 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 21;245 N jcn_only_AD CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 419;27 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29668375-29668420 776;224 N alternative_donor CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 140;30 N alternative_acceptor CUFF.2266 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 21;185 N alternative_donor CUFF.2288 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 184;113 N cassette CUFF.2255 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 64;649 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 15;77 K alternative_donor CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 947;147 N alternative_acceptor CUFF.2288 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 250;2464 N alternative_last_exon CUFF.2278 chr22 + chr22:20755049-20759666 chr22:20755049-20755566 chr22:20759667-20762746 chr22:20755567-20755662 651;124 N cassette CUFF.2295 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 462;523 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29668375-29668420 342;658 N alternative_donor chr22 - chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868423-21871613 chr22:21871613-21871614 27;79 N alternative_acceptor CUFF.2295 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 804;172 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 796;226 K alternative_donor CUFF.2270 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 148;2786 N jcn_only_AA chr22 + chr22:37695348-37696193;chr22:37695348-37696110 chr22:37695348-37696947 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 185;289 N cassette CUFF.2292 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 58;1760 K cassette CUFF.2263 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 148;440 K alternative_acceptor CUFF.2278 chr22 + chr22:29684776-29687553 chr22:29684776-29687550 chr22:29687551-29687553 chr22:29687553-29687554 chr22:29684595-29684775;chr22:29687554-29687588 134;158 N alternative_acceptor CUFF.2288 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 615;130 K intron_retention CUFF.2278 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 chr22:29694723-29694885;chr22:29695224-29695270 421;242 K jcn_only_AA CUFF.2277 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 327;132 K alternative_donor CUFF.2278 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 chr22:29695589-29695841;chr22:29695224-29695270 382;542 K cassette CUFF.2292 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 15;2603 N alternative_acceptor CUFF.2303 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 95;820 K intron_retention CUFF.2288 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 178;151 N jcn_only_AD CUFF.2277 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 38;68 N cassette CUFF.2295 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 136;1590 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 240;79 N jcn_only_AD chr22 - chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868423-21871613 chr22:21871613-21871614 27;71 N alternative_acceptor CUFF.2255 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 690;37 K alternative_last_exon CUFF.2282 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 chr22:30738534-30738868 chr22:30742301-30742508 1828;293 N jcn_only_AA CUFF.2266 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 57;151 K intron_retention CUFF.2278 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 chr22:29694723-29694885;chr22:29695185-29695270 284;275 N alternative_acceptor CUFF.2278,CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 102;105 N jcn_only_AD chr22 + chr22:21823352-21823562 chr22:21823484-21823562 3;2 N alternative_acceptor CUFF.2282 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 40;3390 N alternative_donor CUFF.2263 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 37;184 N cassette CUFF.2260 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 83;116 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 64;25 K jcn_only_AA CUFF.2278 chr22 + chr22:29684776-29687553 chr22:29684776-29687550 chr22:29687551-29687553 chr22:29687553-29687554 chr22:29684595-29684775;chr22:29687554-29687588 134;140 K jcn_only_AD CUFF.2278 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 chr22:29695589-29695841;chr22:29695224-29695270 382;466 N cassette CUFF.2292 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 15;2634 N jcn_only_AA CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 520;117 K intron_retention CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 1105;553 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 21;175 N jcn_only_AA CUFF.2303 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 95;785 N intron_retention chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 29;241 N alternative_donor CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 520;172 K intron_retention CUFF.2303 chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 90;1173 N jcn_only_AD CUFF.2278 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 chr22:29688126-29688158 9;302 K alternative_donor CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 92;383 N cassette CUFF.2211 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 56;90 K intron_retention CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 1445;490 N alternative_acceptor CUFF.2210,CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 1445;613 N cassette CUFF.2210 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 129;1403 K alternative_last_exon CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33123391 chr20:33117656-33119025 4469;1789 K jcn_only_AA CUFF.2227 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 152;52 K jcn_only_AD CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 92;77 N cassette CUFF.2211 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 34;204 N jcn_only_AD CUFF.2201 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 54;4 N alternative_acceptor CUFF.2232 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 118;2416 K coord_cassette CUFF.2210 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 129;3792 K cassette CUFF.2235 chr20 - chr20:61982380-61987326 chr20:61982380-61986847;chr20:61986948-61987326 chr20:61986848-61986947 4;413 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 118;79 K jcn_only_AD CUFF.2212 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 94;329 N jcn_only_AA CUFF.2214 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 204;414 K alternative_last_exon CUFF.2204 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303594-14308204 chr20:14309518-14309973 4144;651 K alternative_last_exon CUFF.2214 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052583-31052920 880;1402 K intron_retention CUFF.2200 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 182;527 K alternative_first_exon CUFF.2204,CUFF.2227 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14318050-14318352 chr20:14309780-14309973 61;202 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 183;2551 N alternative_donor CUFF.2221 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 206;145 K intron_retention CUFF.2200 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 174;118 K alternative_last_exon CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170969-3171465 chr20:3171836-3171884 431;28 N jcn_only_AA CUFF.2214 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 182;24 N alternative_donor CUFF.2210 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 565;1038 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 118;1234 N alternative_donor CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 536;486 N coord_cassette CUFF.2210 chr20 + chr20:30115386-30132749 chr20:30115386-30115724;chr20:30115854-30125981;chr20:30126065-30132749 chr20:30115725-30115853;chr20:30125982-30126064 103;2033 N cassette CUFF.2208 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 13;121 N alternative_donor CUFF.2208 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 17;62 K intron_retention CUFF.2221 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 561;2643 N jcn_only_AA CUFF.2214 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 578;40 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 118;54 N jcn_only_AD CUFF.2208 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 17;53 K jcn_only_AD CUFF.2227 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 52;59 N alternative_acceptor CUFF.2199 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 65;524 K coord_cassette CUFF.2200 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 45;126 K alternative_last_exon CUFF.2220,CUFF.2232 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570178 52;394 K cassette CUFF.2210 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 837;3055 N coord_cassette CUFF.2211 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 34;159 K alternative_first_exon CUFF.2214 chr20 - chr20:31115717-31120119;chr20:31115717-31172371 chr20:31115717-31123243 chr20:31172372-31172961 chr20:31123244-31123617 742;606 K intron_retention CUFF.2210 chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 1567;92 N alternative_acceptor CUFF.2214 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 182;33 N jcn_only_AA CUFF.2214 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 194;68 N alternative_acceptor chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 33;2235 N jcn_only_AA chr20 + chr20:2842351-2843710 chr20:2842351-2842450 44;291 N jcn_only_AD CUFF.2210 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 565;183 N cassette CUFF.2210 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 155;3277 K alternative_donor CUFF.2227 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 52;82 N alternative_donor CUFF.2199 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 548;1295 K cassette CUFF.2210 chr20 + chr20:30115386-30125981 chr20:30115386-30115724;chr20:30115854-30125981 chr20:30115725-30115853 431;1783 N alternative_donor CUFF.2221 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 2567;278 K alternative_donor CUFF.2220 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 588;1040 K alternative_acceptor CUFF.2227 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 152;52 N alternative_donor CUFF.2201 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 54;4 K jcn_only_AD CUFF.2220 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 588;193 N jcn_only_AD CUFF.2221 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 2567;214 N jcn_only_AA CUFF.2214 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 454;164 N jcn_only_AA CUFF.2210,CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 1445;389 N jcn_only_AD CUFF.2199 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 548;65 K intron_retention CUFF.2221 chr20 + chr20:33588962-33589047 chr20:33588961-33588962;chr20:33589047-33589048 18;1254 N alternative_acceptor CUFF.2214 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 194;561 K alternative_donor CUFF.2212 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 94;341 N jcn_only_AD CUFF.2221 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 206;26 N jcn_only_AA chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 33;101 N jcn_only_AA CUFF.2232 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 118;287 K alternative_first_exon CUFF.2214 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071474 449;638 N alternative_first_exon CUFF.2200 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 chr20:2842261-2842350 chr20:2843111-2843580 44;511 N jcn_only_AD CUFF.2212 chr20 - chr20:32816000-33142152 chr20:32816000-33087067 18;20 N cassette CUFF.2210 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 103;841 K cassette CUFF.2210 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 1357;534 N cassette CUFF.2210 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 838;3313 K alternative_first_exon CUFF.2204,CUFF.2212 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011765 193;477 N jcn_only_AD CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 536;24 N jcn_only_AA CUFF.2199 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 65;524 K intron_retention CUFF.2201 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 28;49 N intron_retention CUFF.2221 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 389;456 N jcn_only_AD CUFF.2254 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 437;212 N cassette CUFF.2237 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 26;587 N cassette CUFF.2254 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 196;1142 K jcn_only_AD CUFF.2244 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 466;448 N alternative_acceptor CUFF.2239 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 445;113 N jcn_only_AA CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 133;18 N jcn_only_AA CUFF.2254 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 395;40 K jcn_only_AA CUFF.2254 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 802;421 K alternative_acceptor CUFF.2247 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 172;568 K alternative_last_exon CUFF.2237 chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 116;792 N jcn_only_AA CUFF.2237 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 106;209 K alternative_first_exon CUFF.2237 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646055-15646478 21;2210 K alternative_last_exon CUFF.2245 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39471371-39471432;chr21:39325124-39325308 chr21:39426309-39427075 364;1286 N alternative_donor CUFF.2237 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 27;129 K jcn_only_AD CUFF.2254 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 493;29 K intron_retention CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 304;58 N jcn_only_AD CUFF.2244,CUFF.2254 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 524;32 K jcn_only_AA CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 304;570 N jcn_only_AD CUFF.2247,CUFF.2254 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 273;376 N jcn_only_AD CUFF.2237 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 27;121 N alternative_donor CUFF.2247,CUFF.2254 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 385;1902 K intron_retention CUFF.2237 chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 570;58 N alternative_acceptor CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 133;20 N alternative_acceptor CUFF.2237 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 106;4148 N jcn_only_AD CUFF.2250 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 360;21 N alternative_donor CUFF.2250 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 360;42 K alternative_acceptor CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 304;795 K jcn_only_AA CUFF.2247 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 172;103 K cassette CUFF.2246 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 24;321 N alternative_donor CUFF.2254 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 2114;173 K alternative_last_exon CUFF.2245 chr21 - chr21:39471433-39492400;chr21:39427076-39492400 chr21:39325309-39492400 chr21:39471371-39471432;chr21:39426309-39427075 chr21:39325124-39325308 1382;268 N alternative_acceptor CUFF.2244 chr21 - chr21:30934170-30949283 chr21:30934171-30949283 chr21:30934170-30934170 chr21:30934169-30934170 3;1515 N alternative_donor chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 106;3956 N jcn_only_AD CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 133;17 K cassette CUFF.2244 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 360;1367 N jcn_only_AA CUFF.2239 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 445;34 N alternative_acceptor CUFF.2254 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 395;48 K alternative_first_exon CUFF.2247,CUFF.2254 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 35;239 K alternative_first_exon CUFF.2237 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646055-15646478 chr21:15651917-15651978 228;854 K alternative_last_exon CUFF.2247 chr21 - chr21:40969917-40981509 chr21:40977930-40981509,chr21:40978275-40981509 chr21:40969048-40969916 chr21:40977512-40977929 336;1288 K intron_retention CUFF.2237 chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 66;289 N jcn_only_AD chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 106;15 N alternative_donor CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 133;19 K alternative_acceptor CUFF.2254 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 802;466 N jcn_only_AD CUFF.2254 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 588;61 N cassette CUFF.2244 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 119;166 K alternative_last_exon CUFF.2245 chr21 - chr21:39427076-39492400;chr21:39325309-39492400 chr21:39471433-39492400 chr21:39426309-39427075;chr21:39325124-39325308 chr21:39471371-39471432 1554;96 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 28;294 N intron_retention chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 34;259 N jcn_only_AA CUFF.2244 chr21 - chr21:30934170-30949283 chr21:30934171-30949283 chr21:30934170-30934170 chr21:30934169-30934170 3;1515 N alternative_donor CUFF.2254 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 2075;212 N alternative_donor CUFF.2244,CUFF.2254 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 524;83 K alternative_acceptor CUFF.940 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 53;32 N cassette CUFF.970 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 7;1557 N jcn_only_AA chr7 - chr7:156589187-156619298 chr7:156616618-156619298 930;24 N jcn_only_AD CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 49;31 N alternative_donor CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098254-73100965 chr7:73098135-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 3859;1022 N jcn_only_AD CUFF.1027 chr7 + chr7:136554166-136699566 chr7:136677012-136699566 chr7:136554166-136677011 chr7:136554165-136554166 285;58 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 241;251 N jcn_only_AA chr7 + chr7:73106977-73107658;chr7:73106977-73277202 chr7:73106977-73111934 1024;269 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 69;113 K jcn_only_AA CUFF.939 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 96;305 N cassette CUFF.1033 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 12;1296 N jcn_only_AA chr7 + chr7:73101426-73277202;chr7:73101426-73105245 chr7:73101426-73106925 485;149 N jcn_only_AD chr7 - chr7:111201980-111202519 chr7:111201980-111202499 349;31 N jcn_only_AD CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 65;105 N cassette CUFF.942 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 144;400 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 59;162 N alternative_acceptor CUFF.1019 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 561;208 N alternative_donor CUFF.988 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 1871;191 K alternative_first_exon CUFF.952 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54614313-54614432;chr7:54612315-54612481 chr7:54613814-54613909 1124;144 N alternative_acceptor CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 65;98 N jcn_only_AA chr7 + chr7:73101426-73277202;chr7:73101426-73106925 chr7:73101426-73105245 154;480 K cassette CUFF.988 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 224;1746 N jcn_only_AD chr7 + chr7:73098135-73105245;chr7:73101231-73105245 chr7:73101426-73105245 488;480 N jcn_only_AA chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 530;35 N intron_retention chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 102;82 N alternative_donor chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 31;3565 N jcn_only_AD CUFF.988 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 109;191 N jcn_only_AA chr7 + chr7:73106977-73277202;chr7:73106977-73111934 chr7:73106977-73107658 271;1022 K intron_retention CUFF.988 chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 64;133 N alternative_acceptor CUFF.1043 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 231;980 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 47;466 N jcn_only_AA CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 42;553 K coord_cassette CUFF.956 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 431;497 K alternative_last_exon CUFF.988 chr7 + chr7:107253878-107254098,chr7:107253878-107256705,chr7:107253878-107269266;chr7:107253878-107262074,chr7:107253878-107258772 chr7:107253878-107255690 chr7:107262075-107262315 chr7:107255691-107255985 1149;865 N alternative_acceptor CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136635749;chr7:136554166-136676933 chr7:136554166-136554551 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 333;3789 N alternative_donor CUFF.948 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 421;45 N jcn_only_AD chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 496;64 N jcn_only_AD CUFF.988 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 254;46 K intron_retention CUFF.1043 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 25;179 N jcn_only_AA CUFF.926,CUFF.964 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 105;22 N alternative_donor CUFF.983 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 30;12 N jcn_only_AD CUFF.988 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 1137;367 N jcn_only_AD CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098135-73100965 chr7:73098254-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 1184;2241 N alternative_donor chr7 - chr7:156619439-156626432;chr7:156619439-156685621 chr7:156619439-156626446 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 2792;821 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 42;39 N alternative_donor CUFF.1033 chr7 + chr7:150815720-150817073;chr7:150816342-150817073 chr7:150815719-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 3453;3 K intron_retention CUFF.988 chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 1367;407 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 125;180 N alternative_donor CUFF.995 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 3524;332 K intron_retention CUFF.926 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 38;353 N jcn_only_AA CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156627290-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 6948;9 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 59;460 N alternative_acceptor CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136676933;chr7:136554166-136554551 chr7:136554166-136635749 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 4105;17 N alternative_donor CUFF.944 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 986;804 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 52;99 N alternative_donor CUFF.987 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 287;3973 N alternative_donor chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 193;101 N cassette CUFF.926 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 94;2064 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 531;29 K intron_retention CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 3936;227 K cassette CUFF.988 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 158;3465 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 31;275 K jcn_only_AD CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 318;55 N coord_cassette CUFF.964 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75043917;chr7:75044077-75044162 chr7:75040938-75041042;chr7:75042067-75042210;chr7:75043918-75044076 42;947 K jcn_only_AA CUFF.984 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 180;399 K alternative_donor CUFF.974 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 54;248 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73108381-73111934;chr7:73111847-73111934 chr7:73106977-73111934 518;269 N alternative_acceptor CUFF.920,CUFF.932 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 155;685 N jcn_only_AD chr7 + chr7:73105343-73106925;chr7:73101231-73106925 chr7:73101426-73106925 1130;149 N alternative_donor CUFF.1033 chr7 + chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784160-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 4135;309 K jcn_only_AA CUFF.972 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 203;129 N cassette CUFF.944 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 66;237 N jcn_only_AD CUFF.987 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 238;3973 N alternative_last_exon chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 304;374 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 81;469 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 216;436 N alternative_first_exon CUFF.1020 chr7 + chr7:128991503-129019478;chr7:129015768-129019478;chr7:129008393-129019478 chr7:128865281-129019478 chr7:129015497-129015767;chr7:129007893-129008392 chr7:128864864-128865280 641;16 N jcn_only_AD CUFF.1033 chr7 + chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784160-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 764;185 N alternative_donor CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098135-73100965 chr7:73098254-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 1624;3257 K alternative_last_exon CUFF.938 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152660-19152763 133;527 N jcn_only_AA CUFF.963 chr7 - chr7:74981241-74982815 chr7:74982650-74982815 9;3 K jcn_only_AD CUFF.1027 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 287;320 N cassette CUFF.984 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 132;421 N alternative_donor CUFF.995 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 3409;447 N jcn_only_AD chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 31;11 K alternative_acceptor CUFF.972 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 203;329 N intron_retention chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 120;48 K intron_retention CUFF.987 chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 4688;227 K alternative_donor CUFF.1027 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 287;440 N alternative_donor CUFF.959 chr7 + chr7:73098232-73100965;chr7:73098331-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73097714-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 4863;18 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784292-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 4361;83 K intron_retention chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 561;114 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 11;229 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150809332-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 702;247 N jcn_only_AD CUFF.1046 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647568-157650240 chr7:157647567-157647568 116;22 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150783148-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 896;53 N alternative_donor CUFF.953,CUFF.970 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 160;134 N jcn_only_AD CUFF.983 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 30;12 N jcn_only_AA CUFF.995 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 3077;55 N jcn_only_AD CUFF.920 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 13;59 N intron_retention CUFF.950 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 121;286 K alternative_first_exon CUFF.1027 chr7 + chr7:136553740-136554007 chr7:136553865-136554007,chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553744-136553864 147;652 N jcn_only_AD chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 3;174 N jcn_only_AA CUFF.988 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 1137;317 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 81;190 N jcn_only_AA CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136676933;chr7:136554166-136554551 chr7:136554166-136635749 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 564;17 N alternative_acceptor CUFF.983 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 162;4 N cassette CUFF.995 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 141;6359 N alternative_donor CUFF.948 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 395;71 N jcn_only_AD CUFF.948 chr7 - chr7:38766589-38768141 chr7:38766589-38767940 chr7:38767941-38768141 chr7:38768141-38768142 138;146 N alternative_donor CUFF.964 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 11;38 K alternative_first_exon CUFF.984 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715383 chr7:102714693-102715015 782;489 K jcn_only_AA CUFF.1019 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 477;190 N jcn_only_AD chr7 - chr7:110603622-111030626;chr7:110603622-111031893 chr7:110603622-111127293 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 236;3077 N alternative_acceptor CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 3936;381 N jcn_only_AD CUFF.959 chr7 + chr7:73098232-73100965;chr7:73098331-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73097714-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 3407;18 K jcn_only_AD CUFF.1024 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 41;182 N jcn_only_AA CUFF.944 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 228;95 N cassette CUFF.970 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 7;561 N jcn_only_AD CUFF.987 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 4131;80 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 11;59 N jcn_only_AA chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328 775;2040 N cassette CUFF.926 chr7 + chr7:6641772-6647590 chr7:6641772-6647167;chr7:6647229-6647590 chr7:6647168-6647228 168;1136 N alternative_acceptor CUFF.939 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 286;680 N alternative_donor CUFF.987 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 4059;201 N intron_retention chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 67;4062 K intron_retention CUFF.1043 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 42;148 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 187;50 K alternative_last_exon CUFF.942 chr7 + chr7:34888276-34888934;chr7:34888276-34917687 chr7:34888276-34889176 chr7:34917688-34917946 chr7:34889177-34889264 747;229 N jcn_only_AD CUFF.983 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 23;19 K alternative_donor CUFF.1024 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 41;659 N intron_retention chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 35;90 N alternative_donor CUFF.944 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 1328;462 N alternative_donor CUFF.950 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 437;1785 K cassette CUFF.1021 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 49;53 N alternative_acceptor CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 36;983 N alternative_acceptor CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156627290-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 20952;30 N jcn_only_AA chr7 + chr7:73101426-73105245;chr7:73101426-73106925 chr7:73101426-73277202 629;5 N cassette CUFF.950 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 154;508 N jcn_only_AA chr7 - chr7:107576102-107577537 chr7:107576819-107577537 622;119 K jcn_only_AA CUFF.940 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 53;32 N jcn_only_AD CUFF.950 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 437;77 N alternative_donor CUFF.920 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 13;80 N alternative_acceptor CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156627270-156629506 chr7:156626487-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 915;20067 N jcn_only_AD CUFF.944 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 688;162 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150783148-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 4390;54 N alternative_donor CUFF.956 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 1243;343 K jcn_only_AD CUFF.974 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 54;67 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 75;422 K cassette CUFF.956 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 431;580 K alternative_first_exon CUFF.935 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604053 485;2195 N jcn_only_AD chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73105343-73106925 467;812 N alternative_acceptor CUFF.1033,CUFF.977 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 1593;377 N jcn_only_AA CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 36;178 N alternative_first_exon CUFF.1020 chr7 + chr7:129017465-129019481;chr7:129008393-129019481;chr7:128865281-129019481 chr7:129015768-129019481 chr7:129007893-129008392;chr7:128864864-128865280 chr7:129015497-129015767 3242;301 N jcn_only_AD chr7 - chr7:156619439-156626432;chr7:156619439-156685621 chr7:156619439-156626446 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 749;821 N cassette CUFF.964 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 70;680 N cassette CUFF.1030 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 306;172 N alternative_donor chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 212;244 K jcn_only_AA CUFF.926 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 48;54 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 117;290 N alternative_acceptor CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 42;1333 N alternative_acceptor chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 137;38 K intron_retention CUFF.964 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 313;44 N cassette CUFF.944 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 49;1129 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 80;80 N alternative_donor CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 721;262 N jcn_only_AA CUFF.1033,CUFF.977 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 1593;247 N jcn_only_AA chr7 + chr7:73101231-73101328;chr7:73101231-73105245 chr7:73101231-73106925 2497;318 N jcn_only_AD CUFF.1043 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 7548;192 N jcn_only_AA CUFF.938 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 622;46 N jcn_only_AD CUFF.972 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 52;113 N jcn_only_AD CUFF.1020 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 959;47 N alternative_donor CUFF.935 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 21;266 N jcn_only_AA CUFF.1043 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 176;45 N alternative_acceptor CUFF.1020 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 562;80 N alternative_donor CUFF.939 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 71;1806 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150787635-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 4397;47 N alternative_acceptor chr7 + chr7:136554166-136635749;chr7:136554166-136676933;chr7:136554166-136554551 chr7:136554166-136699566 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 3837;285 K intron_retention CUFF.1019 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 358;287 K intron_retention CUFF.974 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 92;25 N alternative_first_exon CUFF.1020 chr7 + chr7:128991503-129019478;chr7:129015768-129019478;chr7:128865281-129019478 chr7:129008393-129019478 chr7:129015497-129015767;chr7:128864864-128865280 chr7:129007893-129008392 198;459 N jcn_only_AD CUFF.984 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 45;131 N jcn_only_AD CUFF.1001,CUFF.935 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 862;151 N alternative_acceptor CUFF.988 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 1137;317 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150813738-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 3058;1386 N cassette CUFF.1019 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 22;1188 N alternative_donor CUFF.1001,CUFF.935 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 862;183 K alternative_acceptor CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 58;1614 N alternative_donor CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73098331-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 4668;213 K alternative_first_exon CUFF.952 chr7 + chr7:54614433-54614639;chr7:54613910-54614639 chr7:54612482-54614639 chr7:54614313-54614432;chr7:54613814-54613909 chr7:54612315-54612481 539;729 N jcn_only_AA chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 31;771 K jcn_only_AA CUFF.948 chr7 - chr7:38766589-38768141 chr7:38768035-38768141 138;132 N jcn_only_AA CUFF.987 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 3973;93 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150812729-150813879 chr7:150783097-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 919;30 N jcn_only_AD CUFF.944 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 228;63 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 13;158 N coord_cassette CUFF.972 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 7;199 N cassette CUFF.942 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 144;584 K alternative_first_exon CUFF.988 chr7 + chr7:107221023-107221203,chr7:107221091-107221203;chr7:107220747-107221203 chr7:107220812-107221203 chr7:107220422-107220746 chr7:107220774-107220811 1113;64 N alternative_donor chr7 - chr7:36934623-37025527;chr7:36934623-37024519 chr7:36934623-37052903 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 1266;524 N alternative_donor CUFF.987 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 4174;86 K cassette CUFF.952 chr7 + chr7:54617864-54636823 chr7:54617864-54621559;chr7:54621767-54636823 chr7:54621560-54621766 360;283 K intron_retention CUFF.1033 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 2158;1039 N jcn_only_AD CUFF.956 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 866;30 K intron_retention CUFF.972 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 51;57 N alternative_donor chr7 - chr7:156619439-156626432;chr7:156619439-156626446 chr7:156619439-156685621 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 3058;555 N alternative_donor chr7 - chr7:110603622-111030626;chr7:110603622-111031893 chr7:110603622-111127293 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 779;3077 K intron_retention CUFF.964 chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 31;131 N alternative_donor CUFF.984 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 45;131 N jcn_only_AA CUFF.983 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 162;4 N jcn_only_AA CUFF.1030 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 123;48 N jcn_only_AA CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 11;3 N jcn_only_AA CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156627270-156629506 chr7:156626487-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 515;6442 N alternative_acceptor CUFF.987 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 3701;230 K alternative_donor CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 318;197 K intron_retention CUFF.952 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 360;437 N alternative_donor CUFF.939 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 404;148 N jcn_only_AD chr7 + chr7:73101426-73277202 chr7:73106977-73277202 5;2 N cassette CUFF.1033 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 96;5269 N coord_cassette CUFF.1030 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 45;1363 K cassette CUFF.944 chr7 - chr7:37053041-37136223 chr7:37053041-37072951;chr7:37073018-37136223 chr7:37072952-37073017 255;508 N alternative_acceptor chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 31;806 N intron_retention chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 82;809 N jcn_only_AA CUFF.942 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 406;113 K intron_retention CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 58;412 N alternative_donor CUFF.988 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 1137;367 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 498;67 N jcn_only_AA chr7 - chr7:156526952-156549086 chr7:156529310-156549086 467;17 N jcn_only_AD CUFF.995 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 3168;145 N jcn_only_AD chr7 + chr7:73106977-73111934;chr7:73108381-73111934;chr7:73111847-73111934 chr7:73108000-73111934 758;29 K intron_retention CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 318;74 K jcn_only_AD CUFF.944 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 323;73 N jcn_only_AD CUFF.1033 chr7 + chr7:150815720-150817073;chr7:150815719-150817073 chr7:150816342-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 2980;404 N jcn_only_AD CUFF.944,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 500;85 N alternative_donor CUFF.956 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 412;1174 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 75;422 N cassette CUFF.964 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 151;346 N alternative_acceptor CUFF.942 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 842;113 N jcn_only_AA CUFF.987 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 3701;34 N alternative_donor CUFF.1046 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647568-157650240 chr7:157647567-157647568 116;488 N jcn_only_AA CUFF.1033 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 1109;99 K cassette CUFF.982 chr7 - chr7:100818093-100823322 chr7:100818093-100822377;chr7:100822418-100823322 chr7:100822378-100822417 63;1510 N alternative_acceptor CUFF.938 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 622;355 N jcn_only_AD CUFF.942 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 229;33 N alternative_acceptor CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 11;3 K alternative_first_exon CUFF.987 chr7 + chr7:107204693-107205032,chr7:107204505-107205032;chr7:107204192-107205032 chr7:107204655-107205032 chr7:107203929-107204191 chr7:107204337-107204654 659;13182 N alternative_acceptor CUFF.987 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 3973;194 N alternative_donor CUFF.944,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 500;431 K alternative_last_exon CUFF.939 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206688-22206766 chr7:22231033-22231260 71;597 N alternative_donor CUFF.983 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 23;19 N alternative_donor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 49;31 N cassette CUFF.984 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 31;1540 N jcn_only_AD CUFF.995 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 210;224 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150809332-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 3934;510 N jcn_only_AD chr7 + chr7:73101426-73106925;chr7:73105343-73106925 chr7:73101231-73106925 961;318 K cassette CUFF.940 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 45;243 N alternative_donor CUFF.1043 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 7548;380 N cassette CUFF.942 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 64;716 K alternative_acceptor CUFF.926 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 48;91 N jcn_only_AD CUFF.984 chr7 - chr7:107642179-107643293 chr7:107642179-107642571 74;51 N alternative_acceptor CUFF.926,CUFF.964 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 105;22 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 102;463 K jcn_only_AA CUFF.1032,CUFF.956 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 218;523 N alternative_donor CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 65;106 K intron_retention CUFF.1033 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 101;71 K intron_retention CUFF.988 chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 224;74 K alternative_acceptor CUFF.988 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 291;2041 N alternative_donor CUFF.1020 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 959;421 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 216;37 N jcn_only_AD chr7 + chr7:73101426-73105245;chr7:73098135-73105245 chr7:73101231-73105245 511;457 N jcn_only_AA CUFF.920,CUFF.932 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 155;300 N jcn_only_AA chr7 + chr7:73101231-73101328;chr7:73101231-73106925 chr7:73101231-73105245 2358;457 K alternative_last_exon CUFF.920 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197577 58;4859 N cassette CUFF.1001 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 55;89 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 290;564 N intron_retention CUFF.988 chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 57;56 K cassette CUFF.984 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 244;602 N alternative_acceptor CUFF.1043 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 1005;206 K cassette CUFF.948 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 26;914 K cassette CUFF.956 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 147;295 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 35;805 K cassette CUFF.948 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 112;596 N jcn_only_AD CUFF.987 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 4053;158 N alternative_donor chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 31;11 N jcn_only_AD CUFF.970 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 622;63 N jcn_only_AA chr7 + chr7:136554166-136635749;chr7:136554166-136676933;chr7:136554166-136554551 chr7:136554166-136699566 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 296;285 N jcn_only_AD CUFF.956 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 373;523 N cassette CUFF.948 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 35;725 N alternative_acceptor chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 6;3 N intron_retention chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 77;92 N cassette CUFF.1043 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 390;13990 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 117;1044 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150787635-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 926;23 N jcn_only_AD chr7 + chr7:73101426-73105245;chr7:73101231-73105245 chr7:73098135-73105245 937;31 N jcn_only_AD CUFF.959 chr7 + chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73098232-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 3159;266 N alternative_donor CUFF.944 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 228;63 K alternative_first_exon CUFF.956 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610430-65610487 chr7:65615608-65615935 1135;1269 K cassette CUFF.1021 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 31;636 N jcn_only_AD chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 100;101 N alternative_donor CUFF.948 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 92;543 N jcn_only_AA CUFF.1019 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 561;69 N alternative_acceptor CUFF.939 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 5;106 N jcn_only_AA CUFF.1020 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 562;80 N alternative_donor CUFF.1001 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 336;120 N alternative_acceptor CUFF.944 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 228;149 K cassette CUFF.1046 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 239;129 N alternative_donor CUFF.1027 chr7 + chr7:136554166-136699566 chr7:136677012-136699566 chr7:136554166-136677011 chr7:136554165-136554166 285;3609 N jcn_only_AA chr7 - chr7:107642179-107643293 chr7:107642830-107643293 74;51 K alternative_donor CUFF.944 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 323;475 K alternative_acceptor CUFF.1019 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 477;625 N alternative_donor CUFF.988 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 2016;46 K alternative_first_exon CUFF.936 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815292-16815509 70;1014 N jcn_only_AA chr7 - chr7:156556490-156589082 chr7:156572427-156589082 970;35 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 93;467 N coord_cassette CUFF.1033 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 43;1414 N alternative_acceptor CUFF.1020 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 82;8842 N jcn_only_AD CUFF.948 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 491;48 N mutually_exclusive CUFF.983 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 203;138 K alternative_first_exon CUFF.952 chr7 + chr7:54612482-54614639;chr7:54613910-54614639 chr7:54614433-54614639 chr7:54612315-54612481;chr7:54613814-54613909 chr7:54614313-54614432 873;395 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150812729-150813879 chr7:150783097-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 4414;30 N alternative_acceptor CUFF.1033 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 1109;212 N jcn_only_AA CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136635749;chr7:136554166-136554551 chr7:136554166-136676933 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 550;31 N jcn_only_AA CUFF.942 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 400;119 N alternative_donor CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879 chr7:150812729-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 2419;2025 N jcn_only_AA CUFF.1043 chr7 - chr7:156627290-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156556490-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 6629;328 N jcn_only_AA chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 137;38 K jcn_only_AD CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117424509-117431181 chr7:117431182-117431344 chr7:117431344-117431345 11;10 N alternative_donor CUFF.970 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 235;59 N alternative_donor CUFF.988 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 237;1825 K cassette CUFF.966 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 151;495 N cassette CUFF.963 chr7 - chr7:74981241-74984789 chr7:74981241-74982815;chr7:74982903-74984789 chr7:74982816-74982902 17;38 N jcn_only_AA CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 3936;255 N alternative_acceptor CUFF.995 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 3077;629 K intron_retention CUFF.950 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 437;304 N jcn_only_AD CUFF.970 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 157;44 N alternative_acceptor CUFF.1043 chr7 - chr7:156627290-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156556490-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 20654;328 K alternative_acceptor CUFF.923 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 69;997 N cassette CUFF.1033 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 43;157 N alternative_acceptor CUFF.1043 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 1186;25 N jcn_only_AD CUFF.948 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 92;77 N jcn_only_AA CUFF.1020 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 82;1662 K intron_retention CUFF.988 chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 924;125 N jcn_only_AA CUFF.1043 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 70;151 N jcn_only_AD CUFF.987 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 3701;47 N jcn_only_AD chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 114;297 N jcn_only_AA CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 49;31 K intron_retention CUFF.1001 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 130;328 N alternative_first_exon CUFF.1020 chr7 + chr7:129017465-129019481;chr7:129015768-129019481;chr7:129008393-129019481 chr7:128865281-129019481 chr7:129015497-129015767;chr7:129007893-129008392 chr7:128864864-128865280 3514;29 N alternative_donor CUFF.942 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 229;35 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 31;200 N alternative_donor CUFF.939,CUFF.944 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 96;857 N alternative_donor chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 3;219 K cassette CUFF.970 chr7 - chr7:86539318-86541387 chr7:86539318-86540937;chr7:86541012-86541387 chr7:86540938-86541011 139;474 K jcn_only_AA CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 58;1367 N jcn_only_AA chr7 + chr7:73106977-73107658;chr7:73106977-73111934 chr7:73106977-73277202 1291;2 K alternative_donor CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117424509-117431181 chr7:117431182-117431344 chr7:117431344-117431345 11;16 N jcn_only_AA CUFF.942 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 232;287 K intron_retention CUFF.964 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 118;236 N jcn_only_AD CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098254-73100965 chr7:73098135-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 2654;771 N alternative_acceptor CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156626487-156629506 chr7:156627270-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 20425;557 N jcn_only_AD CUFF.964 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 11;19 N jcn_only_AD CUFF.939 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 404;51 K alternative_last_exon CUFF.977 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640426 chr7:93629609-93629684 43;57 K alternative_first_exon CUFF.946 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956532 139;351 N jcn_only_AA CUFF.939 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 286;82 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 41;63 K intron_retention CUFF.1033 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 1593;252 K cassette CUFF.978 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 154;155 N jcn_only_AA CUFF.972 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 121;628 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 81;657 N jcn_only_AD CUFF.995 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 3222;91 K alternative_first_exon CUFF.944 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 1036;47 N alternative_acceptor CUFF.942 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 650;305 N jcn_only_AA CUFF.1043 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156626487-156629506 chr7:156627270-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 6779;178 N intron_retention CUFF.952 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 84;172 N cassette CUFF.972 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 94;46 N alternative_donor CUFF.1001 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 140;112 N jcn_only_AD CUFF.948 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 368;43 N jcn_only_AA chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 6;3 K jcn_only_AA CUFF.988 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 291;191 N intron_retention chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 1022;22 N alternative_donor CUFF.1033 chr7 + chr7:150815720-150817073;chr7:150815719-150817073 chr7:150816342-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 2980;476 N jcn_only_AA CUFF.1043 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 196;25 N alternative_donor CUFF.1033 chr7 + chr7:150816342-150817073;chr7:150815719-150817073 chr7:150815720-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 479;2977 N intron_retention CUFF.950 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 164;523 K intron_retention CUFF.1043 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 26;144 N jcn_only_AD CUFF.1033 chr7 + chr7:150815720-150817073;chr7:150816342-150817073 chr7:150815719-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 3381;3 N jcn_only_AA chr7 + chr7:73108000-73111934 chr7:73108000-73108321 29;1043 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73106977-73111934;chr7:73108381-73111934 chr7:73111847-73111934 761;26 N jcn_only_AD CUFF.953,CUFF.970 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 145;56 N mutually_exclusive CUFF.970 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 20;28 N jcn_only_AD chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 142;244 N jcn_only_AD CUFF.1001 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 140;44 N jcn_only_AD chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 31;14 N jcn_only_AD CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 512;51 N jcn_only_AD CUFF.1033 chr7 + chr7:150816342-150817073;chr7:150815719-150817073 chr7:150815720-150817073 chr7:150815719-150815719;chr7:150815720-150816341 chr7:150815718-150815719;chr7:150815719-150815720 407;2977 N jcn_only_AD chr7 - chr7:156619439-156626432;chr7:156619439-156626446 chr7:156619439-156685621 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 1015;555 N cassette CUFF.950 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 45;1004 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 31;238 N jcn_only_AA CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 65;97 N alternative_acceptor CUFF.1030 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 123;94 N jcn_only_AA CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136635749;chr7:136554166-136676933 chr7:136554166-136554551 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 333;248 N alternative_acceptor CUFF.1027 chr7 + chr7:136554166-136699566;chr7:136554166-136635749;chr7:136554166-136554551 chr7:136554166-136676933 chr7:136554552-136635749;chr7:136635750-136676933;chr7:136676934-136699566 chr7:136635749-136635750;chr7:136676933-136676934;chr7:136699566-136699567 4091;31 K mutually_exclusive CUFF.978 chr7 - chr7:99032892-99057708,chr7:99057817-99063751 chr7:99032892-99045574,chr7:99045812-99063751 chr7:99057709-99057816 chr7:99045575-99045811 418;445 N jcn_only_AD CUFF.935 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 21;63 N alternative_donor chr7 - chr7:156619439-156685621;chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 1376;2237 N alternative_donor CUFF.959 chr7 + chr7:73097714-73100965;chr7:73098331-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73098232-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 4510;371 N jcn_only_AD CUFF.948 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 340;71 N coord_cassette CUFF.1033 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 96;11257 N alternative_acceptor CUFF.942 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 418;537 N alternative_donor CUFF.987 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 3701;50 K alternative_last_exon CUFF.1032 chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150389403-150390593 chr7:150386577-150386816 1029;961 N jcn_only_AD chr7 - chr7:156619439-156685621;chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 1376;194 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73106977-73111934;chr7:73111847-73111934 chr7:73108381-73111934 324;463 N jcn_only_AA CUFF.995 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 210;235 K coord_cassette CUFF.926 chr7 + chr7:6641772-6647590 chr7:6641772-6642294;chr7:6642384-6647167;chr7:6647229-6647590 chr7:6642295-6642383;chr7:6647168-6647228 168;3032 N intron_retention CUFF.1033 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 247;188 N alternative_first_exon CUFF.1020 chr7 + chr7:129017465-129019481;chr7:129015768-129019481;chr7:128865281-129019481 chr7:129008393-129019481 chr7:129015497-129015767;chr7:128864864-128865280 chr7:129007893-129008392 350;3193 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879 chr7:150812729-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 703;246 K coord_cassette CUFF.950 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 154;1462 N alternative_donor CUFF.956 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 1517;69 N jcn_only_AD CUFF.1001 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 321;65 N cassette CUFF.1001 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 136;217 N cassette CUFF.983 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 45;53 N jcn_only_AD CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 721;160 K alternative_first_exon CUFF.956 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579500-65579957 chr7:65599267-65599361 686;806 N alternative_acceptor CUFF.995 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 210;1597 N alternative_donor CUFF.948 chr7 - chr7:38766589-38768141 chr7:38766589-38767940 chr7:38767941-38768141 chr7:38768141-38768142 138;146 N jcn_only_AD CUFF.939 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 71;72 N alternative_first_exon CUFF.1020 chr7 + chr7:128991503-129019478;chr7:128865281-129019478;chr7:129008393-129019478 chr7:129015768-129019478 chr7:128864864-128865280;chr7:129007893-129008392 chr7:129015497-129015767 573;84 N alternative_donor CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 512;69 K jcn_only_AA CUFF.923 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 69;235 N jcn_only_AD chr7 - chr7:36934623-37025527;chr7:36934623-37024519 chr7:36934623-37052903 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 326;524 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 44;139 K alternative_first_exon CUFF.932 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222137-7222451 154;490 N jcn_only_AD CUFF.1001 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 309;77 N coord_cassette CUFF.964 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 42;144 N cassette CUFF.1033 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 468;7113 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784292-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 903;46 N alternative_donor CUFF.995 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 210;224 N alternative_donor CUFF.948 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 491;115 N jcn_only_AD CUFF.959 chr7 + chr7:73098232-73100965;chr7:73097714-73100965;chr7:73098254-73100965;chr7:73098135-73100965 chr7:73098331-73100965 chr7:73097714-73098134;chr7:73098135-73098231;chr7:73098232-73098253;chr7:73098254-73098330 chr7:73097713-73097714;chr7:73098134-73098135;chr7:73098231-73098232;chr7:73098253-73098254 3296;129 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 241;393 N alternative_donor chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 116;350 N jcn_only_AD CUFF.1033 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150813738-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 830;119 N jcn_only_AD CUFF.939,CUFF.944 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 96;95 N jcn_only_AD CUFF.956 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 553;343 N alternative_donor CUFF.1001 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 364;92 N cassette CUFF.984 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 56;1091 N cassette CUFF.944 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 127;726 N jcn_only_AD CUFF.944 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 686;164 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 45;246 N alternative_acceptor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 49;31 N jcn_only_AA CUFF.939 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 5;38 N jcn_only_AD CUFF.988 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 237;63 N alternative_acceptor CUFF.890 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1890;137 N alternative_first_exon CUFF.914 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 132;1419 N alternative_donor CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 215;423 K cassette CUFF.886 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 648;693 N jcn_only_AA CUFF.790 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 40;78 N coord_cassette CUFF.890 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 37;4225 N cassette CUFF.822 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 17;850 N alternative_acceptor CUFF.796 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 2249;155 N alternative_donor CUFF.860 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 1515;808 N alternative_donor CUFF.886 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 63;77 K cassette CUFF.882 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 27;191 K intron_retention CUFF.814 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 1025;173 N jcn_only_AD CUFF.886 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 269;560 N alternative_donor CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112604370-112627530 chr6:112558118-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 640;73 N jcn_only_AA chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 76;560 N alternative_acceptor CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464 chr6:43483785-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 11348;340 K alternative_first_exon CUFF.904 chr6 + chr6:144898425-144999541;chr6:144904737-144999541 chr6:144981412-144999541 chr6:144904254-144904736 chr6:144980919-144981411 391;434 N alternative_acceptor CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483785-43484464 chr6:43483926-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 1308;10380 N intron_retention chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 27;425 N jcn_only_AA CUFF.823 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 688;92 N alternative_donor CUFF.810 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 72;10 N jcn_only_AA CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483785-43484464 chr6:43483926-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 643;2061 K jcn_only_AD CUFF.907 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 30;79 K intron_retention CUFF.916 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 391;184 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 95;45 N jcn_only_AD CUFF.875 chr6 + chr6:112666362-112668493;chr6:112664981-112668493 chr6:112558118-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 304;336 N jcn_only_AD chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 352;63 K intron_retention CUFF.845 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 2163;3330 N jcn_only_AA CUFF.890 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1016;166 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 266;79 N alternative_donor CUFF.849 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 135;93 N jcn_only_AA CUFF.890 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 271;911 K jcn_only_AD CUFF.807 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 29;505 K cassette CUFF.831 chr6 - chr6:39859156-39864972 chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859399-39859539 169;132 N jcn_only_AA CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464 chr6:43483785-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 2364;340 K intron_retention CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 215;340 N alternative_donor CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 191;84 N alternative_acceptor CUFF.890 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1170;561 N jcn_only_AA CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 2312;43 N alternative_donor chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 1117;911 N intron_retention chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 28;242 N jcn_only_AD CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 338;439 N jcn_only_AD CUFF.800,CUFF.881 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 410;161 K alternative_acceptor CUFF.849 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 596;1112 K alternative_first_exon CUFF.800 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486492;chr6:13486870-13487991 chr6:13472213-13472370 763;87 N jcn_only_AA chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 66;77 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 323;655 N jcn_only_AA CUFF.796 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 497;42 N cassette CUFF.865 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 10;431 K coord_cassette CUFF.827 chr6 - chr6:35477090-35479424 chr6:35477090-35477410;chr6:35477528-35477603;chr6:35477706-35478637;chr6:35478788-35479424 chr6:35477411-35477527;chr6:35477604-35477705;chr6:35478638-35478787 93;526 N jcn_only_AA CUFF.881 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 373;178 N intron_retention CUFF.881 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 162;216 N alternative_acceptor chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 151;223 N alternative_donor CUFF.890 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 1199;829 N jcn_only_AA chr6 + chr6:32130400-32132355;chr6:32130400-32130583 chr6:32130400-32133914 265;23 N jcn_only_AA CUFF.796 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 516;23 K alternative_first_exon CUFF.813,CUFF.858 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994740 chr6:75977357-75977464 140;69 N jcn_only_AD CUFF.865 chr6 + chr6:90326377-90331640 chr6:90327751-90331640 77;166 N jcn_only_AA chr6 - chr6:124937643-124962672 chr6:124937645-124962672 4;23 N jcn_only_AA CUFF.875 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 24;375 K intron_retention CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 2312;174 N jcn_only_AA CUFF.845 chr6 - chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483929-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 2675;29 N alternative_acceptor CUFF.914 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 100;12 N cassette CUFF.860 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 30;2757 N alternative_donor CUFF.890 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 1682;216 K intron_retention CUFF.881 chr6 - chr6:114270252-114270331 chr6:114270251-114270252;chr6:114270331-114270332 292;22 N jcn_only_AD CUFF.875 chr6 + chr6:112664981-112668493;chr6:112558118-112668493 chr6:112666362-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 501;139 N alternative_donor CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112558118-112627530 chr6:112604370-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 452;261 N alternative_donor chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 295;147 N jcn_only_AD CUFF.865 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 379;389 K alternative_first_exon CUFF.822 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821930-32822066;chr6:32811823-32812051 chr6:32812587-32812647 323;125 N jcn_only_AD CUFF.874 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 337;41 N jcn_only_AA CUFF.890 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 308;1597 N jcn_only_AA CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483834-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 2521;183 K jcn_only_AA CUFF.918 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 109;93 N jcn_only_AD CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112558118-112627530 chr6:112604370-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 209;165 K cassette CUFF.904 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 144;504 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 43;173 K cassette CUFF.914 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 405;235 N jcn_only_AA CUFF.874 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 249;54 N mutually_exclusive CUFF.865 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 523;113 N alternative_donor CUFF.886 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 634;560 N jcn_only_AD CUFF.890 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 1682;173 N alternative_acceptor CUFF.813 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 174;263 N intron_retention chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 531;14 N jcn_only_AD CUFF.860 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 1515;404 N alternative_donor CUFF.890 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 163;279 K intron_retention CUFF.914 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 93;124 K alternative_acceptor CUFF.823 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 329;762 N jcn_only_AA chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 165;79 K cassette CUFF.914 chr6 + chr6:161455482-161469647 chr6:161455482-161469277;chr6:161469324-161469647 chr6:161469278-161469323 27;972 N jcn_only_AD chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 124;291 N alternative_acceptor CUFF.815,CUFF.865 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 379;373 N alternative_acceptor CUFF.796 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 1992;412 N intron_retention CUFF.865 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 166;67 K cassette CUFF.874 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 334;522 N alternative_acceptor CUFF.890 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 1320;370 N cassette CUFF.894 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 406;1449 N jcn_only_AD CUFF.890 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 1049;398 K jcn_only_AA CUFF.849 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 596;188 K cassette CUFF.849 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 337;1330 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 29;224 N cassette CUFF.865 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 81;957 K cassette CUFF.914 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 186;609 K intron_retention CUFF.845 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 1908;3741 N alternative_donor CUFF.865 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 178;61 N jcn_only_AD CUFF.865 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 180;256 K cassette CUFF.910 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 224;5427 N alternative_donor chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 325;2847 N jcn_only_AD chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939097-31939705 chr6:31939705-31939706 15;364 N cassette CUFF.872 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 7;1880 N jcn_only_AD CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 215;393 N intron_retention chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 287;2864 K alternative_last_exon CUFF.875 chr6 + chr6:112558118-112598381,chr6:112558118-112600322,chr6:112558118-112604255,chr6:112558118-112613285,chr6:112558118-112664599,chr6:112558118-112666314;chr6:112558118-112668493 chr6:112558118-112627530 chr6:112668494-112668609 chr6:112627531-112627885 1152;233 N alternative_acceptor CUFF.823 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 688;142 N alternative_donor CUFF.836,CUFF.890 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 1710;234 N alternative_acceptor CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 275;1752 N alternative_donor CUFF.875 chr6 + chr6:112666362-112668493;chr6:112558118-112668493 chr6:112664981-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 588;275 N alternative_donor CUFF.914 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 139;99 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 499;137 K alternative_acceptor CUFF.894 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 421;814 N jcn_only_AD CUFF.849 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 135;87 K alternative_first_exon CUFF.914 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443167-161443259 26;48 K intron_retention CUFF.823 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 658;40 N jcn_only_AD CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112604370-112627530 chr6:112558118-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 301;73 K intron_retention CUFF.845 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 1569;391 N alternative_donor CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 377;337 N jcn_only_AA CUFF.814,CUFF.886 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 57;33 K intron_retention CUFF.845 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 1938;2237 N alternative_acceptor CUFF.813 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 24;364 K intron_retention CUFF.849 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 338;686 N jcn_only_AD CUFF.914 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 139;99 K jcn_only_AA CUFF.823 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 329;652 N alternative_acceptor CUFF.890 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1640;91 N jcn_only_AA CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 377;17 N cassette CUFF.815 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 548;777 K alternative_first_exon CUFF.800 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472370;chr6:13486870-13487991 chr6:13486243-13486492 691;159 N alternative_acceptor CUFF.814,CUFF.823 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 335;54 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 499;655 K alternative_donor CUFF.910 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 397;1131 K intron_retention CUFF.894 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 136;357 N jcn_only_AD CUFF.865 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 726;51 N jcn_only_AA chr6 - chr6:31939459-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 128;15 K intron_retention CUFF.814 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 314;25 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 110;171 N jcn_only_AA CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1832;20 N jcn_only_AD CUFF.890 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 1309;138 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 29;502 N alternative_donor CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 440;1253 N jcn_only_AA CUFF.813 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 24;364 K intron_retention CUFF.881 chr6 - chr6:114267313-114270142 chr6:114267312-114267313;chr6:114270142-114270143 424;87 K cassette CUFF.918 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 17;321 N jcn_only_AD CUFF.823 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 688;136 K jcn_only_AA CUFF.882 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 34;56 N alternative_acceptor CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 377;428 N alternative_acceptor CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 2007;20 N jcn_only_AA chr6 + chr6:32130400-32133914;chr6:32130400-32130583 chr6:32130400-32132355 160;128 K cassette CUFF.814 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 34;202 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 27;111 K alternative_first_exon CUFF.825 chr6 + chr6:34452922-34494019;chr6:34434048-34494019 chr6:34482846-34494019 chr6:34433838-34434047 chr6:34482599-34482845 133;321 N jcn_only_AD chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 295;147 K intron_retention CUFF.881 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 536;666 N intron_retention chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 174;200 N jcn_only_AD CUFF.810 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 72;10 K cassette CUFF.886 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 256;374 N alternative_donor CUFF.886 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 671;523 N cassette CUFF.894 chr6 - chr6:133047978-133055391;chr6:133046119-133055391;chr6:133048152-133055391 chr6:133047978-133049879,chr6:133048152-133049879,chr6:133046119-133049879;chr6:133050073-133055391 chr6:133049880-133050072 420;1771 N alternative_donor CUFF.875 chr6 + chr6:112604395-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604730-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 413;300 N alternative_acceptor CUFF.890 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 147;282 N alternative_donor CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 1659;34 N alternative_donor CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 1449;244 N coord_cassette CUFF.849 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 80;2365 N jcn_only_AD CUFF.858 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 85;6 N alternative_last_exon CUFF.796 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5102827-5109725 chr6:5216851-5216971 1086;704 N alternative_acceptor CUFF.796 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 2188;216 N jcn_only_AD chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 383;32 N alternative_donor CUFF.814 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 27;1544 N alternative_donor chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 2952;220 N alternative_donor CUFF.875 chr6 + chr6:112664981-112668493;chr6:112558118-112668493 chr6:112666362-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 611;252 N alternative_acceptor CUFF.890 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 820;911 N jcn_only_AD CUFF.890 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 426;16 N jcn_only_AA CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1815;37 K jcn_only_AD CUFF.910 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 397;271 N coord_cassette CUFF.831 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859082-39859155;chr6:39859399-39859539 72;228 K intron_retention CUFF.845 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 517;3512 N alternative_acceptor chr6 - chr6:31939459-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 359;15 K alternative_first_exon CUFF.822 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812587-32812647;chr6:32821930-32822066 chr6:32811823-32812051 220;228 K intron_retention CUFF.814 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 151;9 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 45;838 K jcn_only_AA CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 54;2163 K alternative_first_exon CUFF.822 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812587-32812647;chr6:32811823-32812051 chr6:32821930-32822066 353;95 N cassette CUFF.780 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 778;2528 N alternative_donor CUFF.823 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 688;169 N jcn_only_AD CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 743;34 K cassette CUFF.865 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 99;1649 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 97;1121 N jcn_only_AD CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 742;35 N jcn_only_AA CUFF.845 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 1569;52 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 45;106 N alternative_acceptor CUFF.814,CUFF.886 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 57;33 N alternative_donor CUFF.858 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 85;39 K cassette CUFF.890 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 160;3691 N jcn_only_AA CUFF.890 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1809;43 N jcn_only_AD CUFF.814 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 27;1427 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 125;48 N alternative_acceptor CUFF.881 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 373;222 N alternative_acceptor CUFF.890 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1563;168 K intron_retention CUFF.831 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 29;204 N alternative_acceptor CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483852-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 11344;344 K alternative_acceptor CUFF.812 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 57;48 N alternative_acceptor CUFF.796 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 783;1621 N jcn_only_AD CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 191;45 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 45;43 N jcn_only_AD CUFF.904 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 379;38 N jcn_only_AA CUFF.815,CUFF.865 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 379;19 N cassette CUFF.894 chr6 - chr6:133047978-133055391;chr6:133046119-133055391;chr6:133048152-133055391 chr6:133047978-133049879,chr6:133048152-133049879,chr6:133046119-133049879;chr6:133050119-133055391 chr6:133049880-133050118 420;2616 N cassette CUFF.865 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 232;2546 K alternative_last_exon CUFF.836 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491616-41491963 16;16570 N alternative_donor CUFF.904 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 379;60 K intron_retention CUFF.780 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 1384;757 N jcn_only_AA chr6 + chr6:32130400-32133914;chr6:32130400-32132355 chr6:32130400-32130583 151;137 N alternative_donor chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939097-31939705 chr6:31939705-31939706 15;603 N jcn_only_AD CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 559;218 N jcn_only_AA chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939503-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 131;12 N alternative_acceptor CUFF.845 chr6 - chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483929-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 11474;214 N jcn_only_AA CUFF.814,CUFF.823 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 335;46 N jcn_only_AA CUFF.890 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1112;70 N alternative_acceptor CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483834-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 11278;410 N alternative_donor chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 3109;63 N alternative_acceptor CUFF.790 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 40;152 N alternative_acceptor CUFF.875 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 24;375 N cassette CUFF.886 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 287;2052 N alternative_donor chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 3130;42 N alternative_acceptor CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1909;118 N jcn_only_AD CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 377;266 K alternative_first_exon CUFF.827 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479957-35480047 chr6:35479425-35479777 25;273 N alternative_acceptor chr6 - chr6:31938925-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 264;110 N jcn_only_AD CUFF.886 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 63;71 K intron_retention CUFF.904 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 195;91 K alternative_first_exon CUFF.903 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665162-144665440 133;728 N cassette CUFF.890 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 37;2185 N cassette CUFF.780 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 299;2539 N alternative_donor CUFF.865 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 1633;60 N alternative_acceptor CUFF.874 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 249;77 N jcn_only_AA CUFF.890 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 100;1752 N alternative_donor CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 634;79 N cassette CUFF.890 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 97;5732 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 125;40 N alternative_donor CUFF.875 chr6 + chr6:112666362-112668493;chr6:112664981-112668493 chr6:112558118-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 527;336 N jcn_only_AD CUFF.886 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 790;39 N cassette CUFF.815 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 853;927 K alternative_first_exon CUFF.780 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292084-292560 116;2627 N cassette CUFF.894 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 406;1966 N jcn_only_AA CUFF.890 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 1320;135 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 22;336 N jcn_only_AD CUFF.872 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 627;97 K intron_retention CUFF.813 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 112;115 N alternative_donor CUFF.874 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 337;48 N jcn_only_AA CUFF.845 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483852-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 2613;91 K jcn_only_AA CUFF.894 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 421;225 N alternative_acceptor chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 76;560 K cassette CUFF.845 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 1394;3488 N alternative_acceptor chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 165;244 N alternative_first_exon CUFF.807 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109688-28109807 chr6:28109901-28110041 48;629 N jcn_only_AA CUFF.890 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 147;282 N jcn_only_AD chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 536;911 N jcn_only_AD CUFF.875 chr6 + chr6:112604730-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 329;45 K alternative_acceptor CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 54;4796 K alternative_donor CUFF.807 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 29;557 N alternative_donor CUFF.865 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 180;641 N coord_cassette CUFF.780 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 705;2046 K alternative_acceptor CUFF.918 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 109;93 N jcn_only_AA CUFF.796 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 323;216 K alternative_acceptor CUFF.882 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 34;236 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 323;137 K intron_retention CUFF.894 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 1271;236 N alternative_donor CUFF.890 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 1740;288 N jcn_only_AD CUFF.865 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 178;61 N jcn_only_AD chr6 + chr6:32125498-32130344 chr6:32125702-32130344 3;272 K intron_retention CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 191;44 N jcn_only_AD CUFF.836,CUFF.890 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 1710;229 K alternative_first_exon CUFF.800 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486492;chr6:13472213-13472370 chr6:13486870-13487991 246;604 N jcn_only_AA CUFF.796 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 281;258 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 43;350 K intron_retention CUFF.874 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 206;12 N intron_retention chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 136;20 N cassette CUFF.890 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 109;2260 N alternative_donor CUFF.890 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 426;16 N jcn_only_AD CUFF.890 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 163;279 K alternative_first_exon CUFF.836 chr6 - chr6:41491964-41513737,chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41515199-41515387 chr6:41513827-41514012 7598;7183 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 110;208 N cassette CUFF.865 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 108;1627 N cassette CUFF.807 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 16;350 N jcn_only_AA CUFF.890 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1147;35 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 67;51 N coord_cassette CUFF.894 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 265;2374 N alternative_donor CUFF.800,CUFF.881 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 410;736 N alternative_acceptor CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 2312;156 N alternative_donor CUFF.865 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 1591;102 N jcn_only_AD chr6 + chr6:32130400-32133914 chr6:32132435-32133914 23;57 N intron_retention CUFF.845 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 86;533 N jcn_only_AA chr6 + chr6:32125498-32130344 chr6:32125498-32125616 3;490 N alternative_donor CUFF.872 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 627;291 K cassette CUFF.894 chr6 - chr6:133050119-133055391 chr6:133050119-133052513;chr6:133052667-133055391 chr6:133052514-133052666 623;1327 N alternative_acceptor chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939503-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 348;26 N cassette CUFF.881 chr6 - chr6:114281183-114292020;chr6:114281183-114291643;chr6:114283559-114292020 chr6:114281183-114289797,chr6:114283559-114289797;chr6:114289861-114291643,chr6:114289861-114292020 chr6:114289798-114289860 932;1122 N alternative_donor CUFF.865 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 379;443 N jcn_only_AD CUFF.875 chr6 + chr6:112604395-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604730-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 283;91 N alternative_acceptor CUFF.845 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 1569;769 N jcn_only_AA chr6 - chr6:31938925-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 104;39 N jcn_only_AD CUFF.814 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 22;366 K jcn_only_AA CUFF.812 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 57;35 N jcn_only_AA chr6 + chr6:161413116-161491639 chr6:161413116-161455290 42;8 N jcn_only_AD chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 386;29 N cassette CUFF.780 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 76;2657 N alternative_donor CUFF.886 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 1083;111 K intron_retention CUFF.823 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 814;85 N jcn_only_AD CUFF.886 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 599;230 K intron_retention CUFF.814 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 1427;20 K intron_retention CUFF.823 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 1037;445 N jcn_only_AA CUFF.813 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 174;112 K jcn_only_AA CUFF.812 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 93;241 N jcn_only_AA CUFF.914 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 100;12 K cassette CUFF.882 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 55;71 N coord_cassette CUFF.894 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 265;1853 N cassette CUFF.831 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 72;503 N jcn_only_AA CUFF.890 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 31;1468 N jcn_only_AD CUFF.875 chr6 + chr6:112666362-112668493;chr6:112558118-112668493 chr6:112664981-112668493 chr6:112558118-112664980;chr6:112664981-112666361 chr6:112558117-112558118;chr6:112664980-112664981 475;165 K intron_retention CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 54;4067 N intron_retention chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 393;323 N alternative_donor chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 34;59 K jcn_only_AD CUFF.696,CUFF.710 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 48;193 N alternative_acceptor CUFF.699 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 28;26 N alternative_donor CUFF.775 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 22;2377 N alternative_acceptor CUFF.776 chr5 - chr5:178046898-178050256;chr5:178047675-178050256 chr5:178049461-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 2047;1915 K alternative_last_exon CUFF.731,CUFF.747 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 29;847 N jcn_only_AA CUFF.776 chr5 - chr5:178047675-178050256;chr5:178049461-178050256 chr5:178046898-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 375;47 N alternative_donor CUFF.768,CUFF.776 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 277;1266 N jcn_only_AD CUFF.718,CUFF.772 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 167;242 N alternative_acceptor CUFF.776 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 132;17 N jcn_only_AA chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 41;168 K alternative_last_exon CUFF.712,CUFF.747 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656665 282;37 K cassette CUFF.754 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 275;402 K intron_retention CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 797;988 N jcn_only_AA CUFF.701 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 49;62 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 110;61 N alternative_donor CUFF.735 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 17;382 K alternative_donor CUFF.754 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 324;1175 K cassette CUFF.776 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 93;303 N cassette CUFF.776 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 189;447 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 570;145 K alternative_donor CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 797;2796 N jcn_only_AD chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 283;126 K alternative_last_exon CUFF.772 chr5 - chr5:149782876-149785821,chr5:149784744-149785821;chr5:149781568-149785821;chr5:149785235-149785821 chr5:149782189-149785821 chr5:149781182-149781567;chr5:149784877-149785234 chr5:149782126-149782188 5723;126 N jcn_only_AA CUFF.735 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 16;32 N cassette CUFF.693 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 3346;2486 N jcn_only_AA CUFF.701,CUFF.717 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 51;54 N alternative_first_exon CUFF.748 chr5 + chr5:134182554-134190587;chr5:134181903-134190587 chr5:134181428-134190587 chr5:134181904-134182553;chr5:134181715-134181902 chr5:134181370-134181427 891;28 K cassette CUFF.710 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 245;553 N alternative_donor CUFF.772 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 3331;469 N mutually_exclusive CUFF.712 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 262;452 N alternative_donor CUFF.718,CUFF.772 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 595;3205 K alternative_last_exon CUFF.744 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127292496-127292613 chr5:127359713-127359990 317;901 N jcn_only_AA CUFF.759 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 456;143 N jcn_only_AA CUFF.718 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 436;41 K cassette CUFF.710 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 160;211 K cassette CUFF.713 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 95;46 K alternative_first_exon CUFF.759 chr5 + chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055,chr5:140027593-140028055 chr5:140026643-140026894 chr5:140027287-140027509 830;4253 N alternative_acceptor CUFF.776 chr5 - chr5:178046898-178050256;chr5:178049461-178050256 chr5:178047675-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 1962;2000 N jcn_only_AA CUFF.704,CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 155;771 K alternative_first_exon CUFF.735 chr5 - chr5:82969369-82971106,chr5:82969369-82978143;chr5:82969369-82970344;chr5:82969369-82969951 chr5:82969369-83016607 chr5:82970345-82970754;chr5:82969952-82970212 chr5:83016608-83017432 796;31 N cassette CUFF.759 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 30;279 N cassette CUFF.776 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178047675-178050256 chr5:178046839-178047674 189;3029 N alternative_donor CUFF.759 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 70;1456 K intron_retention CUFF.772 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 255;294 N alternative_acceptor CUFF.759 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 22;187 N alternative_first_exon CUFF.748 chr5 + chr5:134181428-134190587;chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181370-134181427;chr5:134181715-134181902 chr5:134181904-134182553 73;846 K intron_retention CUFF.688 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 39;13 N mutually_exclusive CUFF.744 chr5 - chr5:127302621-127412638,chr5:127412786-127417664 chr5:127302621-127396835,chr5:127396937-127417664 chr5:127412639-127412785 chr5:127396836-127396936 126;80 K cassette CUFF.764 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 483;581 N cassette CUFF.718 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 14;1305 N jcn_only_AA CUFF.776 chr5 - chr5:178046898-178050256;chr5:178049461-178050256 chr5:178047675-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 145;277 K cassette CUFF.747 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 131;142 N alternative_donor CUFF.764 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 42;3071 K jcn_only_AD CUFF.699,CUFF.718 chr5 - chr5:60198336-60214091 chr5:60198336-60199474 414;354 N jcn_only_AD CUFF.718 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 436;60 K alternative_first_exon CUFF.688 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2753042 chr5:2751279-2751827 122;241 N cassette CUFF.744 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417887-127418426 chr5:127417665-127417886 150;984 K jcn_only_AD CUFF.687 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 35;128 K jcn_only_AA CUFF.704,CUFF.717 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 97;255 N alternative_acceptor CUFF.759 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 414;340 K alternative_last_exon CUFF.774 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465029-162465479 12;878 N alternative_donor CUFF.687,CUFF.718 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 595;416 K alternative_last_exon CUFF.722 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902965-64902994 133;382 N jcn_only_AA CUFF.706 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 116;118 K intron_retention CUFF.759 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 1418;37 N intron_retention CUFF.759 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 771;754 K jcn_only_AA CUFF.735 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 90;668 N alternative_acceptor CUFF.701 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 49;275 K alternative_donor CUFF.722 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 165;516 N jcn_only_AD CUFF.745 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 25;33 K jcn_only_AA CUFF.713 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 73;27 K intron_retention chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 33;84 N jcn_only_AD CUFF.759 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 77;155 K jcn_only_AD CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 797;2015 N jcn_only_AA CUFF.683 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 3700;40 N jcn_only_AA CUFF.683 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 3432;308 K jcn_only_AD CUFF.754 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 324;519 K jcn_only_AD CUFF.764 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 47;243 N jcn_only_AD CUFF.735 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 17;292 N mutually_exclusive CUFF.744 chr5 - chr5:127302621-127412638,chr5:127412786-127418426 chr5:127302621-127396835,chr5:127396937-127418426 chr5:127412639-127412785 chr5:127396836-127396936 126;80 K intron_retention chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 90;167 K jcn_only_AA CUFF.767 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 16;26 N alternative_donor CUFF.767 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 9;9 N intron_retention chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 11;175 K intron_retention CUFF.762 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 149;32 K alternative_first_exon CUFF.718,CUFF.768 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783858 chr5:148758768-148758931 240;690 K alternative_donor CUFF.713,CUFF.776 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 50;16 N intron_retention chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 34;77 K alternative_donor CUFF.764 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 47;356 N cassette CUFF.776 chr5 - chr5:178043950-178045556 chr5:178043950-178044344;chr5:178044436-178045556 chr5:178044345-178044435 75;167 N alternative_acceptor CUFF.740 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 43;587 N alternative_donor chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 3674;126 K intron_retention CUFF.776 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 175;262 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 211;88 N alternative_acceptor CUFF.744 chr5 - chr5:127398193-127418426;chr5:127417884-127418426 chr5:127417887-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 212;766 N alternative_acceptor chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 11;108 N alternative_acceptor CUFF.735 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 16;789 N alternative_donor CUFF.702 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 101;77 K cassette CUFF.717 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 151;162 N jcn_only_AD CUFF.702 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 101;23 K jcn_only_AD CUFF.713,CUFF.776 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 50;9 K intron_retention CUFF.776 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 94;136 K coord_cassette CUFF.772 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 608;5421 N alternative_first_exon CUFF.748 chr5 + chr5:134182554-134190587;chr5:134181428-134190587 chr5:134181903-134190587 chr5:134181904-134182553;chr5:134181370-134181427 chr5:134181715-134181902 874;45 K intron_retention CUFF.717 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 58;120 N jcn_only_AA CUFF.740 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 43;319 K intron_retention CUFF.764 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 71;215 K jcn_only_AA CUFF.712 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 90;54 N alternative_acceptor chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 24;80 N intron_retention chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 114;375 N jcn_only_AD CUFF.768,CUFF.776 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 277;45 N jcn_only_AA CUFF.776 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 132;17 K intron_retention CUFF.759 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 1463;49 N jcn_only_AA CUFF.759 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 319;280 K alternative_first_exon CUFF.774 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684099 86;427 N alternative_donor CUFF.718 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 436;60 K alternative_acceptor CUFF.735 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 90;668 N jcn_only_AD chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 34;33 N cassette CUFF.759 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 25;359 N jcn_only_AD CUFF.759 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 70;1177 N jcn_only_AA CUFF.776 chr5 - chr5:178046898-178050256;chr5:178047675-178050256 chr5:178049461-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 324;98 N jcn_only_AD CUFF.774 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 51;40 N alternative_acceptor CUFF.701,CUFF.717 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 51;54 N jcn_only_AA chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 423;176 K cassette CUFF.764 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 70;1209 K alternative_first_exon CUFF.754 chr5 + chr5:137514540-137515348 chr5:137514892-137515348,chr5:137515023-137515348 chr5:137514408-137514539 chr5:137514641-137514891 68;938 K alternative_donor CUFF.687 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 35;418 N cassette CUFF.744 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 54;517 N alternative_acceptor CUFF.744 chr5 - chr5:127398193-127418426;chr5:127417887-127418426 chr5:127417884-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 827;151 N jcn_only_AA chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 24;73 N intron_retention chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 17;375 N cassette CUFF.744 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 168;671 N jcn_only_AA chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 56;14 N alternative_acceptor CUFF.759 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 611;143 K intron_retention chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 73;284 K alternative_last_exon CUFF.772 chr5 - chr5:149782876-149785821,chr5:149784744-149785821;chr5:149781568-149785821;chr5:149782189-149785821 chr5:149785235-149785821 chr5:149781182-149781567;chr5:149782126-149782188 chr5:149784877-149785234 2480;3369 K intron_retention CUFF.776 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 47;331 K alternative_acceptor CUFF.713 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 73;35 N jcn_only_AA CUFF.683 chr5 - chr5:466642-472793;chr5:471939-472793;chr5:472709-472793 chr5:472081-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 3698;42 N jcn_only_AA chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 73;1217 N intron_retention chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 1224;84 N intron_retention chr5 + chr5:140027599-140028060 chr5:140027598-140027599;chr5:140028060-140028061 6;197 K alternative_last_exon CUFF.705 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 212;608 N jcn_only_AA CUFF.744 chr5 - chr5:127398193-127418426;chr5:127417887-127418426 chr5:127417884-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 307;48 K intron_retention CUFF.748 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 52;393 N alternative_acceptor CUFF.759 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 3474;74 K alternative_donor CUFF.699,CUFF.722 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 62;702 N cassette CUFF.712 chr5 + chr5:54456225-54459882 chr5:54456225-54456879;chr5:54457084-54459882 chr5:54456880-54457083 157;710 K jcn_only_AD CUFF.745 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 4;67 N alternative_acceptor chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 41;402 K alternative_donor CUFF.696,CUFF.710 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 48;209 K alternative_first_exon CUFF.747 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630041-131630702 chr5:131631095-131631314 724;97 K alternative_acceptor CUFF.712 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 90;78 N cassette CUFF.772 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 241;3122 K intron_retention CUFF.776 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 203;341 K intron_retention CUFF.754 chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 324;450 N alternative_acceptor CUFF.683 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 3651;2268 N cassette CUFF.775 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 206;5347 K alternative_last_exon CUFF.774 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683043-162683276 170;758 K alternative_first_exon CUFF.704 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681994-50682460 chr5:50683324-50683583 326;708 N alternative_acceptor CUFF.718 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 436;41 N jcn_only_AD CUFF.772 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 368;41 K jcn_only_AA CUFF.774 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 69;257 N jcn_only_AA CUFF.718 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 237;105 K alternative_last_exon CUFF.772 chr5 - chr5:149782876-149785821,chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782189-149785821 chr5:149781568-149785821 chr5:149784877-149785234;chr5:149782126-149782188 chr5:149781182-149781567 4052;1797 K intron_retention chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 41;231 N alternative_acceptor CUFF.683 chr5 - chr5:466642-472793;chr5:471939-472793;chr5:472709-472793 chr5:472081-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 5761;158 K intron_retention CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 155;1198 K intron_retention CUFF.754 chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 519;177 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 110;1139 K cassette CUFF.699 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 134;115 N cassette CUFF.693 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 473;6451 N jcn_only_AA CUFF.744 chr5 - chr5:127417884-127418426;chr5:127417887-127418426 chr5:127398193-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 294;61 N jcn_only_AA chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 11;41 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 98;278 K alternative_last_exon CUFF.752 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194745-137194952 chr5:137218478-137219310 148;1442 N alternative_acceptor chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 56;346 N alternative_acceptor CUFF.705,CUFF.706 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 51;18 N jcn_only_AA CUFF.683 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 390;3350 K jcn_only_AD CUFF.722 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 165;79 N jcn_only_AA CUFF.759 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 22;41 K alternative_first_exon CUFF.776 chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178057555-178057703 chr5:178053947-178054089 49;730 K intron_retention CUFF.772 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 1803;161 N jcn_only_AD CUFF.775 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 22;2033 N cassette CUFF.744 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 150;771 N alternative_acceptor CUFF.744 chr5 - chr5:127417884-127418426;chr5:127417887-127418426 chr5:127398193-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 917;61 N jcn_only_AD CUFF.764 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 42;168 N jcn_only_AD CUFF.748 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 52;17 N alternative_donor CUFF.718 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 237;2138 N alternative_acceptor CUFF.683 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2569;3350 K intron_retention CUFF.722 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 55;131 N jcn_only_AA CUFF.705,CUFF.706 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 51;18 N alternative_acceptor CUFF.683 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 5776;143 N alternative_donor CUFF.748 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 52;461 K alternative_first_exon CUFF.745 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795882-128796175 chr5:128796795-128797450 119;97 K cassette CUFF.710 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 111;420 N jcn_only_AA CUFF.693 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 1049;534 K alternative_acceptor CUFF.704,CUFF.717 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 97;385 K jcn_only_AD CUFF.699,CUFF.722 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 62;238 K alternative_donor CUFF.745 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 4;125 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 29;440 K jcn_only_AA CUFF.696 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 43;291 N jcn_only_AD CUFF.687,CUFF.718 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 595;101 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 100;268 K intron_retention CUFF.764 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 363;52 K alternative_last_exon CUFF.701,CUFF.767 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980156 889;45 K intron_retention CUFF.775 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 286;3492 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 34;34 K alternative_first_exon CUFF.735 chr5 - chr5:82969369-82971106,chr5:82969369-82978143;chr5:82969369-82969951;chr5:82969369-83016607 chr5:82969369-82970344 chr5:82969952-82970212;chr5:83016608-83017432 chr5:82970345-82970754 306;521 N cassette CUFF.717 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 30;158 N cassette CUFF.772 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 608;2850 N alternative_last_exon chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 498;5422 N alternative_donor CUFF.745 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 25;62 K cassette CUFF.722 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 297;731 N cassette CUFF.712 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 157;699 N intron_retention chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 75;155 N jcn_only_AA CUFF.699 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 28;16 K alternative_last_exon CUFF.710 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54433391-54433464 287;122 K intron_retention CUFF.713 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 86;62 K coord_cassette CUFF.744 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 126;1040 N alternative_acceptor chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 73;7008 K cassette CUFF.718 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 533;542 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195442 chr5:134182353-134182553 156;408 N alternative_acceptor CUFF.718 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 237;2092 K intron_retention CUFF.772 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 505;558 K cassette CUFF.722 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 112;1075 N alternative_acceptor CUFF.706 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 116;214 N alternative_acceptor CUFF.693 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 1049;4416 N alternative_acceptor chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 483;271 N jcn_only_AA CUFF.744 chr5 - chr5:127398193-127418426;chr5:127417884-127418426 chr5:127417887-127418426 chr5:127398193-127417883;chr5:127417884-127417886 chr5:127398192-127398193;chr5:127417883-127417884 109;246 K jcn_only_AA CUFF.693 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 843;401 K alternative_first_exon CUFF.735 chr5 - chr5:82969369-82971106,chr5:82969369-82978143;chr5:82969369-82970344;chr5:82969369-83016607 chr5:82969369-82969951 chr5:82970345-82970754;chr5:83016608-83017432 chr5:82969952-82970212 627;200 K coord_cassette CUFF.744 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417887-127418426 chr5:127412639-127412785;chr5:127417665-127417886 126;1219 N alternative_acceptor CUFF.776 chr5 - chr5:178047675-178050256;chr5:178049461-178050256 chr5:178046898-178050256 chr5:178046898-178047674;chr5:178047675-178049460 chr5:178046897-178046898;chr5:178047674-178047675 3915;47 N jcn_only_AD CUFF.718 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 237;157 N jcn_only_AA CUFF.759 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 3474;74 K cassette CUFF.759 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 1494;3444 N jcn_only_AD CUFF.767 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 9;7 N alternative_acceptor CUFF.704,CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 155;1263 K alternative_first_exon CUFF.718 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214525 780;755 K jcn_only_AA CUFF.643 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 45;73 N cassette CUFF.579 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 55;171 N alternative_donor CUFF.656 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 240;1439 K jcn_only_AA CUFF.673 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 42;6 N jcn_only_AA CUFF.667 chr4 - chr4:152147239-152148911 chr4:152147393-152148911 2;33 K cassette CUFF.590 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 37;1534 N alternative_acceptor CUFF.656 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 271;657 K alternative_first_exon CUFF.681 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131250-186131409 45;166 K alternative_acceptor CUFF.647 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 21;586 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;219 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 62;146 N jcn_only_AD CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 46;18 N alternative_acceptor CUFF.647 chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 148;108 K alternative_first_exon CUFF.647 chr4 - chr4:99428880-99495607,chr4:99428880-99578675;chr4:99428880-99579296;chr4:99428880-99578690 chr4:99428880-99481325 chr4:99579297-99579721;chr4:99578691-99578881 chr4:99481326-99481456 699;436 K cassette CUFF.607 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 11;850 N alternative_donor CUFF.593 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 44;16 K intron_retention CUFF.603 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 323;179 N jcn_only_AD CUFF.593 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 44;8 N alternative_first_exon CUFF.667 chr4 - chr4:152147239-152246392;chr4:152147239-152147319;chr4:152147239-152148911 chr4:152147239-152187237 chr4:152147320-152147672;chr4:152148912-152149152 chr4:152187238-152187469 405;189 K alternative_first_exon CUFF.603 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256455-20256698 37;774 N jcn_only_AA CUFF.653 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 2121;148 K jcn_only_AD CUFF.606,CUFF.630 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 91;230 N jcn_only_AA CUFF.681 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 62;62 K cassette CUFF.603 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 195;612 N cassette CUFF.649 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 11;1553 K alternative_first_exon CUFF.645 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419692 chr4:85417646-85418103 114;85 N jcn_only_AA CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 46;25 K cassette CUFF.590 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 33;936 K alternative_last_exon CUFF.659 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849885 chr4:130829789-130829858 132;18 K jcn_only_AD CUFF.681 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 50;21 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 52;307 K jcn_only_AA CUFF.647 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 21;497 N cassette CUFF.644 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83821229,chr4:83819216-83820865 chr4:83819142-83819215 117;438 N alternative_donor CUFF.653 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 2121;159 K jcn_only_AA CUFF.607 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 360;444 N jcn_only_AA CUFF.630 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 3;126 N alternative_donor CUFF.592 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 52;1117 K intron_retention chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 518;704 N alternative_donor chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 28;1185 N jcn_only_AA CUFF.587 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 511;49 K intron_retention chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 608;154 K alternative_donor CUFF.633 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 19;324 N alternative_acceptor CUFF.681 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 62;278 K alternative_first_exon CUFF.592 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6473886;chr4:6382822-6383503 chr4:6382822-6536997 chr4:6473887-6474223;chr4:6383504-6385047 chr4:6536998-6537104 1953;265 N alternative_first_exon CUFF.667 chr4 - chr4:152147239-152246392;chr4:152147239-152187237;chr4:152147239-152148911 chr4:152147239-152147319 chr4:152187238-152187469;chr4:152148912-152149152 chr4:152147320-152147672 229;365 N alternative_acceptor chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 55;5112 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3948352 262;52 N intron_retention chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 411;438 N jcn_only_AD CUFF.592 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 52;890 N alternative_donor CUFF.592 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 300;116 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 46;521 N cassette CUFF.592 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 35;2060 N alternative_donor CUFF.587,CUFF.630 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 511;189 N alternative_acceptor CUFF.637 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 181;2262 K jcn_only_AD CUFF.633 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 19;203 K cassette CUFF.593 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 97;259 N jcn_only_AA CUFF.630 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 170;160 K jcn_only_AD CUFF.656 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 98;120 K cassette CUFF.673 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 73;142 N cassette CUFF.617 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 681;878 N jcn_only_AA CUFF.590 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 431;29 K cassette CUFF.628 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 88;130 K alternative_first_exon CUFF.626,CUFF.647 chr4 - chr4:99428880-99495607,chr4:99428880-99578675;chr4:99428880-99578690;chr4:99428880-99481325 chr4:99428880-99579296 chr4:99578691-99578881;chr4:99481326-99481456 chr4:99579297-99579721 846;289 K cassette CUFF.581 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 209;552 N alternative_donor CUFF.653 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 64;470 N alternative_donor CUFF.653 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 369;308 K alternative_first_exon CUFF.681 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186216917-186217184 34;287 N alternative_acceptor CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 46;29 N jcn_only_AA CUFF.637 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 181;1193 K alternative_donor CUFF.592 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 66;774 N intron_retention chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 53;114 K alternative_last_exon CUFF.597 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 265;1723 K intron_retention CUFF.625 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 372;46 N alternative_donor CUFF.653 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 1443;277 N jcn_only_AA CUFF.647 chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 148;38 K jcn_only_AA CUFF.628 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 224;70 K alternative_last_exon CUFF.580,CUFF.681 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186291387 chr4:186284539-186285125 297;600 N jcn_only_AD CUFF.618 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 208;8 K jcn_only_AA CUFF.659 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 17;81 N cassette CUFF.667 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 24;279 N coord_cassette CUFF.639 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 34;807 N jcn_only_AA CUFF.603,CUFF.618 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 208;6 N jcn_only_AA chr4 - chr4:3945100-3949816 chr4:3949735-3949816 chr4:3945100-3949734 chr4:3945099-3945100 35;214 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 28;610 N cassette CUFF.584 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 261;1051 N jcn_only_AA CUFF.653 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 712;70 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948870 chr4:3945100-3948495 259;55 N cassette CUFF.637 chr4 - chr4:77979789-77996624 chr4:77979789-77987401;chr4:77987559-77996624 chr4:77987402-77987558 226;3041 K intron_retention CUFF.626 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 73;456 N jcn_only_AD CUFF.592 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 300;37 N alternative_acceptor CUFF.584 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 54;587 N jcn_only_AA chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 30;101 N jcn_only_AD CUFF.653 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 64;470 N alternative_acceptor CUFF.584 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 25;1111 K coord_cassette CUFF.639 chr4 + chr4:81105506-81115266 chr4:81105506-81105803;chr4:81105908-81106518;chr4:81106673-81112625;chr4:81112724-81115266 chr4:81105804-81105907;chr4:81106519-81106672;chr4:81112626-81112723 182;1273 N alternative_acceptor CUFF.605 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 121;74 N cassette CUFF.637 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 115;3851 N alternative_donor CUFF.603 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 16;33 N cassette CUFF.617 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 325;1172 K alternative_donor CUFF.656 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 98;120 N jcn_only_AA chr4 + chr4:99003639-99399805 chr4:99003639-99393448 9;3 K alternative_first_exon CUFF.592 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6383503 chr4:6382822-6473886 chr4:6536998-6537104;chr4:6383504-6385047 chr4:6473887-6474223 1539;679 N jcn_only_AD CUFF.595 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 37;53 N alternative_donor CUFF.592,CUFF.673 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 71;121 K intron_retention CUFF.592 chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 129;186 N alternative_donor CUFF.603 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 61;404 N alternative_acceptor chr4 - chr4:3945100-3949816 chr4:3949735-3949816 chr4:3945100-3949734 chr4:3945099-3945100 35;1108 N jcn_only_AA CUFF.626 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 84;28 K intron_retention CUFF.584 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 519;537 N mutually_exclusive CUFF.617 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 467;296 K jcn_only_AD CUFF.592 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 66;722 N jcn_only_AD CUFF.590 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 431;35 N jcn_only_AA CUFF.653 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 369;41 N jcn_only_AD CUFF.603 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 61;54 N jcn_only_AA CUFF.579 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 27;164 K alternative_first_exon CUFF.617 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502949 chr4:56502248-56502478 325;1601 K cassette CUFF.653 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 500;398 K alternative_last_exon CUFF.606 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195200-36195269 chr4:36210995-36211036 77;63 N jcn_only_AD CUFF.681 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 33;148 N alternative_acceptor CUFF.653 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 712;134 N alternative_donor CUFF.593 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 41;58 N jcn_only_AD CUFF.603 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 16;33 K intron_retention CUFF.584 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 399;145 K alternative_last_exon CUFF.669 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143618-153143911 191;396 K intron_retention CUFF.647 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 587;157 K intron_retention CUFF.644 chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 86;126 N cassette CUFF.579 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 217;608 N jcn_only_AD CUFF.593 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 41;20 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3954837 193;121 K intron_retention CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 77;432 N jcn_only_AD CUFF.587,CUFF.630 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 511;148 N alternative_first_exon CUFF.667 chr4 - chr4:152147239-152246392;chr4:152147239-152147319;chr4:152147239-152187237 chr4:152147239-152148911 chr4:152147320-152147672;chr4:152187238-152187469 chr4:152148912-152149152 585;9 N alternative_acceptor CUFF.579 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 27;164 N cassette CUFF.617 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 605;777 K intron_retention CUFF.667 chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 70;122 N jcn_only_AA CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 187;31 N coord_cassette CUFF.633 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189922-77192720;chr4:77192922-77211054;chr4:77211214-77230296 chr4:77189813-77189921;chr4:77192721-77192921;chr4:77211055-77211213 91;390 N alternative_donor CUFF.618 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 208;250 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948495 chr4:3945100-3948870 263;51 N cassette CUFF.579 chr4 + chr4:647109-647640 chr4:647109-647225;chr4:647497-647640 chr4:647226-647496 56;5409 N jcn_only_AD CUFF.653 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 1443;165 N jcn_only_AA CUFF.656 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 271;29 N intron_retention chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 214;163 K alternative_first_exon CUFF.647 chr4 - chr4:99428880-99495607,chr4:99428880-99578675;chr4:99428880-99579296;chr4:99428880-99481325 chr4:99428880-99578690 chr4:99579297-99579721;chr4:99481326-99481456 chr4:99578691-99578881 785;350 N alternative_acceptor CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 187;925 K cassette CUFF.639 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 312;301 N alternative_donor CUFF.590 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 431;35 N alternative_donor CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 46;18 N coord_cassette CUFF.584 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 19;1860 K intron_retention CUFF.607 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 724;510 K intron_retention CUFF.666 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 49;110 N jcn_only_AA CUFF.603 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 61;60 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 165;25 K alternative_first_exon CUFF.619 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774984-57775205 chr4:57775345-57775753 2178;682 N alternative_donor CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 77;103 N alternative_acceptor CUFF.587 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 511;61 K alternative_first_exon CUFF.652 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133861 chr4:120116866-120116996 41;479 K intron_retention CUFF.647 chr4 - chr4:99403327-99405549 chr4:99403326-99403327;chr4:99405549-99405550 97;114 K alternative_last_exon CUFF.673 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416286-162416632 129;610 N alternative_acceptor CUFF.653 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 2121;4169 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 43;151 N alternative_acceptor CUFF.630 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 170;872 K jcn_only_AD CUFF.644,CUFF.652 chr4 - chr4:83816001-83821229 chr4:83816001-83816844 69;86 K alternative_acceptor CUFF.643 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 45;130 K alternative_donor CUFF.681 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 50;33 N jcn_only_AA CUFF.584 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 54;532 K intron_retention CUFF.674 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 34;279 N cassette CUFF.587 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 40;514 K alternative_acceptor CUFF.628 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 224;147 K coord_cassette CUFF.631 chr4 - chr4:77097064-77116859 chr4:77097064-77097589;chr4:77097682-77100669;chr4:77100859-77102106;chr4:77102255-77116859 chr4:77097590-77097681;chr4:77100670-77100858;chr4:77102107-77102254 47;61 N jcn_only_AA CUFF.584 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 25;686 N alternative_acceptor CUFF.584 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 46;867 N jcn_only_AA CUFF.603 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 16;36 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;566 K cassette CUFF.667 chr4 - chr4:152065203-152069073 chr4:152065203-152065371;chr4:152065441-152069073 chr4:152065372-152065440 137;165 K coord_cassette CUFF.617 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 325;944 K cassette CUFF.630 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 208;265 K cassette CUFF.667 chr4 - chr4:152100550-152108574 chr4:152100550-152102840;chr4:152102882-152108574 chr4:152102841-152102881 244;115 N intron_retention CUFF.647 chr4 - chr4:99403327-99405535 chr4:99403326-99403327;chr4:99405535-99405536 42;116 K cassette CUFF.633 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 290;70 K alternative_last_exon CUFF.605 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059592-36059765 chr4:36067610-36069900 144;611 N jcn_only_AA CUFF.626 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 267;66 K cassette CUFF.607 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 230;1268 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 890;150 K coord_cassette CUFF.617 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 449;448 K alternative_first_exon CUFF.597 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821637-13821895 94;510 N jcn_only_AD CUFF.587,CUFF.644 chr4 - chr4:83819216-83821229 chr4:83819216-83820865 140;213 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3954837;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3949816 279;35 K intron_retention CUFF.579 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 358;237 K cassette CUFF.631 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 32;136 N jcn_only_AA CUFF.584 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 46;399 K cassette CUFF.628 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 142;175 K cassette CUFF.681 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 118;259 K alternative_acceptor CUFF.673 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 42;6 K intron_retention CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 187;660 K cassette CUFF.603 chr4 + chr4:20490606-20493383 chr4:20490606-20492425;chr4:20492438-20493383 chr4:20492426-20492437 4;54 N alternative_acceptor CUFF.603 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 16;36 K alternative_first_exon CUFF.592 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6473886 chr4:6382822-6383503 chr4:6536998-6537104;chr4:6473887-6474223 chr4:6383504-6385047 1096;1122 K intron_retention CUFF.584 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 427;904 N cassette CUFF.673 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 14;123 K alternative_last_exon CUFF.666 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240572-142241054 chr4:142242529-142242535 170;102 K cassette CUFF.647 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 587;502 N alternative_first_exon CUFF.626 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69083624-69083891 chr4:69078080-69078197 514;37 K intron_retention CUFF.644 chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 69;141 N intron_retention chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 75;424 N jcn_only_AD CUFF.653 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 369;245 K intron_retention CUFF.649 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 823;54 N jcn_only_AA chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 55;123 N intron_retention chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 261;723 N alternative_acceptor CUFF.626 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 267;100 N alternative_acceptor CUFF.603 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 61;60 N jcn_only_AD CUFF.656 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 240;24 N jcn_only_AA CUFF.605 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 121;60 N alternative_donor CUFF.595 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 37;541 K cassette CUFF.617 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 181;2806 N cassette CUFF.633 chr4 + chr4:77192922-77230296 chr4:77192922-77211054;chr4:77211214-77230296 chr4:77211055-77211213 183;75 K coord_cassette CUFF.605 chr4 - chr4:36014454-36047600 chr4:36014454-36017007;chr4:36017255-36017521;chr4:36017581-36020765;chr4:36020909-36047600 chr4:36017008-36017254;chr4:36017522-36017580;chr4:36020766-36020908 33;629 N alternative_acceptor CUFF.653 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 369;41 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 165;25 N jcn_only_AD CUFF.653 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 2121;159 K intron_retention CUFF.581 chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 62;326 N alternative_acceptor chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 30;109 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 181;76 K alternative_last_exon CUFF.603 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554344 946;323 N alternative_acceptor CUFF.603,CUFF.618 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 208;6 N coord_cassette CUFF.633 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189967-77192720;chr4:77192922-77211054;chr4:77211214-77230296 chr4:77189813-77189966;chr4:77192721-77192921;chr4:77211055-77211213 91;527 K coord_cassette CUFF.607 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 143;1627 K alternative_first_exon CUFF.590 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202397 chr4:6196218-6196409 470;314 K alternative_first_exon CUFF.593 chr4 + chr4:6911679-6925099;chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910875-6911232 chr4:6911971-6912328 1473;404 N alternative_donor CUFF.681 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 33;219 N alternative_acceptor CUFF.590 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 431;29 K alternative_first_exon CUFF.595 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430319 175;563 N intron_retention chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 19;370 K mutually_exclusive CUFF.581 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 313;169 K intron_retention CUFF.647 chr4 - chr4:99405750-99407888 chr4:99405749-99405750;chr4:99407888-99407889 205;91 N jcn_only_AD CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 77;75 N cassette CUFF.587 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 157;551 N cassette CUFF.633 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 183;57 N jcn_only_AD CUFF.592,CUFF.673 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 71;95 K alternative_first_exon CUFF.637 chr4 - chr4:77987559-77995942;chr4:77987559-77996624 chr4:77987559-77996251 chr4:77996625-77997256 chr4:77996252-77996576 5191;1393 N alternative_donor CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73651504 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 2449;9 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 26;13475 K cassette CUFF.543 chr3 + chr3:132948196-133098595 chr3:132948196-133097185;chr3:133097401-133098595 chr3:133097186-133097400 729;769 N jcn_only_AD CUFF.455 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 300;59 K alternative_first_exon CUFF.458,CUFF.536 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730722 chr3:45729868-45730374 146;267 K cassette CUFF.535 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 2368;13563 N alternative_acceptor CUFF.524,CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 407;245 N jcn_only_AA CUFF.524,CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 407;47 N jcn_only_AA chr3 - chr3:107586273-107596159;chr3:107595379-107596159 chr3:107595034-107596159 349;102 N jcn_only_AD CUFF.569 chr3 + chr3:186660216-186681572;chr3:186648624-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186649184-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1572;70 K alternative_last_exon CUFF.535 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743679-125743748 891;1951 N jcn_only_AA chr3 - chr3:107595034-107596748;chr3:107591874-107596748;chr3:107596345-107596748 chr3:107586425-107596748 719;115 N intron_retention chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 37;29 N jcn_only_AD CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186648624-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 557;1085 N jcn_only_AD CUFF.466 chr3 - chr3:107595034-107596748;chr3:107595034-107595301;chr3:107595034-107596159 chr3:107595034-107595281 553;61 N jcn_only_AD CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 853;33 N jcn_only_AA CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 972;83 N cassette CUFF.543 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 396;100 N jcn_only_AD CUFF.432 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 824;34 N alternative_acceptor CUFF.504 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 931;60 N jcn_only_AA CUFF.522 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 388;81 N alternative_donor CUFF.566 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 276;131 K alternative_donor CUFF.466,CUFF.507 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 chr3:108475355-108475435 264;1154 K alternative_first_exon CUFF.535 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125797816,chr3:125787090-125802771,chr3:125787090-125802896;chr3:125787090-125802935 chr3:125787090-125802718 chr3:125802936-125803229 chr3:125802719-125802814 3580;948 N mutually_exclusive CUFF.542 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 48;181 K alternative_first_exon CUFF.455 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071348 chr3:38065647-38066281 807;1813 N jcn_only_AD CUFF.561 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 689;59 K alternative_first_exon CUFF.522,CUFF.561 chr3 - chr3:120394711-120400943 chr3:120394711-120396750 chr3:120400944-120401418 chr3:120396751-120396844 827;200 K cassette CUFF.438 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 69;1556 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49348171-49362134 chr3:49350047-49362134 337;20 N alternative_acceptor chr3 - chr3:107576050-107586157;chr3:107578109-107586157 chr3:107585601-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 823;68 N alternative_donor chr3 - chr3:107586425-107596748;chr3:107586425-107591814 chr3:107586425-107591172 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 425;139 N alternative_donor CUFF.528,CUFF.542 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 129;260 N jcn_only_AD CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 1138;37 N alternative_donor CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 693;2171 N cassette CUFF.441 chr3 - chr3:27183074-27204191 chr3:27183074-27203951;chr3:27204093-27204191 chr3:27203952-27204092 101;1015 N cassette CUFF.504 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107572719 chr3:107568670-107568818 483;335 K intron_retention CUFF.455 chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 634;77 N cassette CUFF.542 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 242;949 N jcn_only_AD CUFF.561 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 556;59 K intron_retention CUFF.455 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 504;341 N alternative_donor CUFF.569 chr3 + chr3:186660216-186681572;chr3:186648624-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186649184-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1662;76 K alternative_donor CUFF.513 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1709;373 N alternative_acceptor CUFF.504 chr3 - chr3:107591328-107591814;chr3:107576050-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1925;386 K intron_retention CUFF.452 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 82;193 N intron_retention CUFF.528 chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 76;565 K alternative_last_exon CUFF.524 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 593;290 N alternative_donor chr3 - chr3:107586273-107591814;chr3:107586273-107596159 chr3:107586273-107594976 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 757;87 N cassette CUFF.543 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 68;5823 N alternative_acceptor CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 1645;323 N alternative_acceptor CUFF.538 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 1151;4876 N jcn_only_AA CUFF.432 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 848;207 N alternative_donor CUFF.441 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 554;82 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 34;146 N alternative_acceptor CUFF.542 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 1325;2409 N cassette CUFF.514 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 640;720 N jcn_only_AA chr3 - chr3:107576050-107586157;chr3:107578109-107586157 chr3:107585601-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 815;55 N alternative_donor CUFF.504 chr3 - chr3:107576050-107577977;chr3:107576050-107586157;chr3:107576050-107591814 chr3:107576050-107585498 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 2645;150 N intron_retention chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 27;168 K intron_retention chr3 - chr3:127294349-127294591 chr3:127294348-127294349;chr3:127294591-127294592 242;185 N alternative_donor CUFF.528 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 504;32 N mutually_exclusive CUFF.554 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 42;299 N alternative_acceptor chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 166;267 N jcn_only_AD CUFF.524 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 59;35 N alternative_acceptor chr3 - chr3:107585601-107586157;chr3:107578109-107586157 chr3:107576050-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 125;766 N jcn_only_AD CUFF.450,CUFF.471 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 81;44 K alternative_donor CUFF.513 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1447;635 K intron_retention CUFF.517 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 194;423 N jcn_only_AA chr3 - chr3:107585601-107586157;chr3:107576050-107586157 chr3:107578109-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 821;49 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 396;50 N jcn_only_AA CUFF.524 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 50;63 N coord_cassette CUFF.543 chr3 + chr3:132948196-133109023 chr3:132948196-133097185;chr3:133097401-133098595;chr3:133100006-133109023 chr3:133097186-133097400;chr3:133098596-133100005 68;1894 N alternative_acceptor CUFF.522 chr3 - chr3:120396877-120400943;chr3:120396839-120400943 chr3:120394711-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 175;404 N cassette CUFF.477 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569760-57570110 chr3:57569625-57569759 82;1065 N jcn_only_AD CUFF.461 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 16;761 K cassette CUFF.562 chr3 - chr3:165504100-165547304 chr3:165504100-165545773;chr3:165545858-165547304 chr3:165545774-165545857 133;149 N jcn_only_AD chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 104;27 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 117;1150 N jcn_only_AD chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 793;50 N coord_cassette CUFF.569 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186756530-186756661;chr3:186759705-186759754;chr3:186760442-186761098 42;3917 N jcn_only_AD CUFF.432 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 207;77 K cassette CUFF.452 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 101;372 N jcn_only_AD chr3 - chr3:107591874-107594976;chr3:107591874-107596748 chr3:107591874-107594305 720;87 K cassette CUFF.499 chr3 - chr3:93646252-93692517 chr3:93646252-93647545;chr3:93647642-93692517 chr3:93647546-93647641 12;666 N mutually_exclusive CUFF.554 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 42;299 N jcn_only_AA CUFF.441 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 556;37 N jcn_only_AD chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 84;759 N alternative_donor CUFF.452 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 108;22 N alternative_donor CUFF.450 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 54;8 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27258062 40;487 K intron_retention CUFF.535 chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 201;568 K intron_retention CUFF.524 chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 587;25 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 848;32 K alternative_last_exon CUFF.546 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 116;216 K coord_cassette CUFF.514 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 640;546 N alternative_acceptor CUFF.441 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 556;173 K intron_retention CUFF.547 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 53;83 N cassette CUFF.569 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 6;4095 N coord_cassette CUFF.569 chr3 + chr3:186756662-186769036 chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186759705-186759754;chr3:186760442-186761098 6;2861 N alternative_acceptor CUFF.504 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 80;1327 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107595034-107596748;chr3:107591874-107596748 chr3:107596345-107596748 594;240 K intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 741;311 K cassette CUFF.441 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 303;46 N alternative_donor CUFF.569 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 407;442 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 664;153 N jcn_only_AD chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 809;34 N cassette CUFF.450 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 126;652 N alternative_acceptor CUFF.522 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 388;526 N alternative_acceptor CUFF.450 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 81;1130 N jcn_only_AA CUFF.452 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 108;47 N alternative_acceptor chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 54;490 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 121;759 K cassette CUFF.461 chr3 - chr3:46982556-47017842 chr3:46982556-47007473;chr3:47007620-47017842 chr3:47007474-47007619 627;533 N cassette CUFF.450 chr3 - chr3:33614847-33617660 chr3:33614847-33615964;chr3:33615989-33617660 chr3:33615965-33615988 232;1382 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 125;168 N jcn_only_AD CUFF.441 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 80;1095 K cassette CUFF.577 chr3 - chr3:196214450-196229743 chr3:196214450-196215477;chr3:196215555-196229743 chr3:196215478-196215554 14;8 N jcn_only_AA CUFF.504 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 73;453 N jcn_only_AD CUFF.517 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 489;83 N alternative_acceptor CUFF.450 chr3 - chr3:33602464-33612218 chr3:33605459-33612218 chr3:33602464-33605458 chr3:33602463-33602464 54;7 N jcn_only_AD CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73618301 chr3:73453547-73605850 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 798;88 N intron_retention chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 32;594 N jcn_only_AA CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 1031;24 N cassette CUFF.504 chr3 - chr3:107574077-107575926 chr3:107574077-107574854;chr3:107575172-107575926 chr3:107574855-107575171 810;1276 N jcn_only_AD CUFF.569 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 407;61 N alternative_acceptor CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 665;1303 N jcn_only_AD CUFF.442 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 240;118 N alternative_acceptor CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 1416;264 N jcn_only_AD CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73651504 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 877;9 N alternative_donor CUFF.441,CUFF.542 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 520;116 K jcn_only_AD CUFF.509 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 100;89 N intron_retention chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 50;1553 N jcn_only_AA chr3 - chr3:107595034-107596159;chr3:107595379-107596159 chr3:107586273-107596159 203;248 N alternative_donor CUFF.528 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 460;76 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 78;264 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 9;337 N alternative_acceptor CUFF.504 chr3 - chr3:107591328-107591814;chr3:107586273-107591814;chr3:107576050-107591814 chr3:107586425-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1569;742 K jcn_only_AD CUFF.513 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 610;373 K jcn_only_AD CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 29;140 K intron_retention CUFF.425 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 896;249 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107596748;chr3:107595034-107596159 chr3:107595034-107595301 591;23 N alternative_donor CUFF.517 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 489;244 N mutually_exclusive CUFF.535 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 1332;909 N alternative_acceptor CUFF.522 chr3 - chr3:120394711-120400943;chr3:120396877-120400943 chr3:120396839-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 490;89 K coord_cassette CUFF.470 chr3 + chr3:51741184-51749077 chr3:51741184-51742863;chr3:51743450-51746488;chr3:51747327-51747979;chr3:51748138-51749077 chr3:51742864-51743449;chr3:51746489-51747326;chr3:51747980-51748137 78;1933 N alternative_donor chr3 - chr3:107586273-107594976;chr3:107586273-107591814 chr3:107586273-107596159 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 596;248 K intron_retention CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 29;147 K coord_cassette CUFF.522 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 190;452 K alternative_first_exon CUFF.466 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49331840-49332031 chr3:49330979-49331160 1307;449 K cassette CUFF.452 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 88;297 N jcn_only_AD CUFF.441 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 466;35 N jcn_only_AD CUFF.466 chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 434;38 N jcn_only_AA CUFF.450 chr3 - chr3:33602464-33612218 chr3:33605459-33612218 chr3:33602464-33605458 chr3:33602463-33602464 54;7 K coord_cassette CUFF.554 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 1018;2539 N coord_cassette CUFF.441 chr3 - chr3:27183074-27204191 chr3:27183074-27184935;chr3:27184966-27203951;chr3:27204093-27204191 chr3:27184936-27184965;chr3:27203952-27204092 101;101 K intron_retention CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 407;245 N jcn_only_AD CUFF.528 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 323;76 K alternative_first_exon CUFF.461 chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023592 chr3:47020964-47021150 162;361 N alternative_donor CUFF.534 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 1541;299 N cassette CUFF.466 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 85;2060 K jcn_only_AD CUFF.546 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 234;62 N jcn_only_AA chr3 - chr3:107591874-107594976;chr3:107594422-107594976 chr3:107586273-107594976 758;87 N jcn_only_AD CUFF.528,CUFF.542 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 129;72 N jcn_only_AA chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 54;234 N coord_cassette CUFF.554 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 74;838 N alternative_acceptor CUFF.547 chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 319;359 N alternative_donor chr3 - chr3:107576050-107577977;chr3:107576050-107585498;chr3:107576050-107586157 chr3:107576050-107591814 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 1945;850 N cassette CUFF.461 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 105;562 K alternative_first_exon CUFF.538 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126151912-126152047 chr3:126152199-126152317 1050;374 N jcn_only_AD CUFF.504 chr3 - chr3:107576050-107577977;chr3:107576050-107586157;chr3:107576050-107591814 chr3:107576050-107585498 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 1691;70 N alternative_acceptor CUFF.477 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 528;98 K cassette CUFF.562 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 677;2820 N alternative_donor CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648624-186681572;chr3:186648928-186681572 chr3:186666727-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1657;81 N cassette CUFF.554 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 106;1536 N intron_retention CUFF.535 chr3 - chr3:125787090-125802896 chr3:125787089-125787090;chr3:125802896-125802897 66;249 N cassette CUFF.441 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 155;539 N jcn_only_AD chr3 - chr3:107576050-107577977;chr3:107576050-107585498;chr3:107576050-107586157 chr3:107576050-107591814 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 911;850 N jcn_only_AD CUFF.450,CUFF.466 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 171;50 N alternative_donor chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 22;118 N intron_retention chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 30;508 K jcn_only_AD CUFF.466,CUFF.507 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 chr3:108475355-108475435 264;364 N jcn_only_AA CUFF.528 chr3 - chr3:124996654-125042231 chr3:125032501-125042231 919;76 N cassette CUFF.569 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 42;1687 N jcn_only_AA CUFF.504 chr3 - chr3:107591328-107591814;chr3:107576050-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1150;375 N cassette CUFF.450 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 44;968 N alternative_donor CUFF.504,CUFF.554 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 1233;649 K alternative_last_exon CUFF.554 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697362-141697524 chr3:141707970-141708356 1189;759 N alternative_acceptor CUFF.450 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 24;884 N alternative_donor CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73618301 chr3:73453547-73605850 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 2334;124 N alternative_acceptor CUFF.547 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 58;89 N jcn_only_AD CUFF.441,CUFF.562 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 638;90 N alternative_donor chr3 - chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73482789 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 266;2192 K alternative_first_exon CUFF.509 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021234-112021561 chr3:112025945-112026045 391;77 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107596748;chr3:107595034-107595301 chr3:107595034-107596159 512;102 N jcn_only_AA CUFF.504 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 496;30 N jcn_only_AA CUFF.504 chr3 - chr3:107586273-107591814;chr3:107576050-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1437;88 K cassette CUFF.565 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 48;86 K cassette CUFF.558 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 989;2148 N cassette CUFF.534 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 10;3068 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 24;757 K alternative_first_exon CUFF.524 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843119-122843190 chr3:122863342-122863676 111;1979 K coord_cassette CUFF.562 chr3 - chr3:165504100-165555101 chr3:165504100-165545773;chr3:165545858-165547304;chr3:165548830-165555101 chr3:165545774-165545857;chr3:165547305-165548829 677;1071 N alternative_donor CUFF.442 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 249;152 N jcn_only_AD CUFF.561 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 265;242 N cassette CUFF.538 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 332;499 N alternative_acceptor CUFF.522 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 30;193 N jcn_only_AD chr3 - chr3:107586425-107596748;chr3:107586425-107591814 chr3:107586425-107591172 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 327;78 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 111;744 K alternative_last_exon CUFF.507 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474484-108474752 chr3:108475355-108475435 574;560 N jcn_only_AD CUFF.534 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 1541;112 K jcn_only_AA CUFF.576 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 94;29 K alternative_donor CUFF.513 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1008;1074 K alternative_donor CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 29;284 N alternative_acceptor CUFF.528 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 304;22 K intron_retention CUFF.535 chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 2793;242 K alternative_first_exon CUFF.543 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757156-132757279 chr3:132760585-132760699 501;364 K intron_retention CUFF.535 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 1951;1168 K cassette CUFF.470 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 49;388 K intron_retention CUFF.461 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 718;530 K cassette CUFF.528 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 579;60 N alternative_donor CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 2892;23 N alternative_acceptor chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 209;3558 N alternative_donor CUFF.561 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 949;48 N jcn_only_AD chr3 - chr3:49349088-49355741;chr3:49349088-49351303 chr3:49349088-49362134 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 247;225 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49349088-49362134 132;225 N jcn_only_AA chr3 - chr3:107586273-107594976;chr3:107594422-107594976 chr3:107591874-107594976 176;669 N cassette CUFF.466 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 88;1157 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 26;27 N alternative_donor chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 117;5642 K jcn_only_AD CUFF.478 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 143;229 K alternative_acceptor CUFF.576 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 94;29 N jcn_only_AD CUFF.561 chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 158;594 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 34;1016 N alternative_donor CUFF.466 chr3 - chr3:49349088-49362134;chr3:49349088-49351303 chr3:49349088-49355741 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 1391;1145 K jcn_only_AA CUFF.538 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 676;379 K intron_retention CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 564;5057 N jcn_only_AD chr3 - chr3:27233734-27236027;chr3:27233734-27235551 chr3:27233734-27243000 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 63;438 K alternative_first_exon CUFF.492 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492659-75492797 chr3:75496223-75496447 41;1722 K intron_retention CUFF.455 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 483;52 N alternative_donor CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648624-186681572;chr3:186666727-186681572 chr3:186648928-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1471;267 K intron_retention CUFF.452 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 148;41 N alternative_donor CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850 chr3:73453547-73618301 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 2403;55 N alternative_donor CUFF.487 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 746;154 N alternative_donor CUFF.450,CUFF.466 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 171;52 N alternative_donor CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73610601 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 2430;28 N jcn_only_AD CUFF.442 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 174;184 N jcn_only_AA chr3 - chr3:107586273-107596159;chr3:107595034-107596159 chr3:107595379-107596159 350;101 N cassette CUFF.514 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 84;206 K intron_retention CUFF.500 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 74;160 N jcn_only_AA CUFF.504 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 483;43 N jcn_only_AA CUFF.522 chr3 - chr3:120396877-120400943;chr3:120396839-120400943 chr3:120394711-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 143;404 K intron_retention CUFF.487 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 36;1984 N cassette CUFF.542 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 275;528 K alternative_first_exon CUFF.500 chr3 + chr3:97643256-97652537;chr3:97652352-97652537 chr3:97634581-97652537 chr3:97642982-97643255;chr3:97652346-97652351 chr3:97634454-97634580 478;33 N alternative_donor CUFF.561 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 689;104 N alternative_acceptor CUFF.542 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 546;539 N alternative_donor CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186648624-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 653;1085 N alternative_donor CUFF.569 chr3 + chr3:186649184-186681572;chr3:186648624-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186660216-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1509;229 N jcn_only_AA CUFF.528 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 304;17 K cassette CUFF.456 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 81;58 N alternative_acceptor CUFF.524 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 1055;168 N cassette CUFF.504 chr3 - chr3:107568819-107572719 chr3:107568819-107569143;chr3:107569199-107572719 chr3:107569144-107569198 73;185 N cassette CUFF.554 chr3 - chr3:141697525-141747420;chr3:141713984-141811902;chr3:141713984-141747420 chr3:141697525-141724282,chr3:141713984-141724282;chr3:141724387-141747420,chr3:141724387-141811902 chr3:141724283-141724386 308;2737 N alternative_donor CUFF.504 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 453;17 K intron_retention CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 693;352 N jcn_only_AD CUFF.566 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 276;42 K intron_retention CUFF.452 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 132;261 N jcn_only_AA CUFF.522 chr3 - chr3:120394711-120400943;chr3:120396877-120400943 chr3:120396839-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 458;89 N jcn_only_AD CUFF.442 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 302;56 N jcn_only_AD CUFF.561 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 729;23 N jcn_only_AA CUFF.477 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 124;402 N cassette CUFF.554 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 1052;1434 K alternative_first_exon CUFF.450 chr3 - chr3:33686396-33686494,chr3:33686396-33686773,chr3:33686396-33700998;chr3:33686396-33700465 chr3:33686396-33686835 chr3:33700466-33700728 chr3:33686836-33687080 1864;1648 N jcn_only_AA CUFF.524 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 1055;150 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 284;162 N cassette CUFF.441 chr3 - chr3:27394411-27410715 chr3:27394411-27409013;chr3:27409054-27410715 chr3:27409014-27409053 119;50 N cassette CUFF.535 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 449;22743 N alternative_donor CUFF.561 chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 403;594 N jcn_only_AD CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648624-186681572;chr3:186648928-186681572 chr3:186666727-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1622;20 N jcn_only_AD chr3 - chr3:107591874-107594305;chr3:107591874-107596748 chr3:107591874-107594976 138;669 K alternative_first_exon CUFF.500 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97642982-97643255;chr3:97634454-97634580 chr3:97652346-97652351 484;27 N alternative_acceptor CUFF.477 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 142;484 N coord_cassette CUFF.477 chr3 - chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110;chr3:57570192-57582800 chr3:57569625-57569734;chr3:57570111-57570191 64;535 N alternative_donor chr3 - chr3:107586425-107596748;chr3:107586425-107591172 chr3:107586425-107591814 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 254;310 K alternative_donor CUFF.509 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 100;89 N jcn_only_AA chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 209;27 N alternative_donor CUFF.466 chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 1370;1166 N jcn_only_AD CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 1154;21 K intron_retention CUFF.455 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 452;186 N alternative_acceptor CUFF.504 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 948;43 N jcn_only_AA CUFF.477 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 428;98 N jcn_only_AA chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 105;420 N cassette CUFF.554 chr3 - chr3:141724387-141868024;chr3:141724387-141811902 chr3:141724387-141772956;chr3:141772992-141811902,chr3:141772992-141868024 chr3:141772957-141772991 569;2105 N cassette CUFF.522 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 546;1072 N jcn_only_AA CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 1416;64 K alternative_first_exon CUFF.470 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741036-51741183 chr3:51741372-51741670 145;345 N jcn_only_AA CUFF.504 chr3 - chr3:107591328-107591814;chr3:107586273-107591814;chr3:107586425-107591814 chr3:107576050-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 675;850 N jcn_only_AD chr3 - chr3:107586273-107591814;chr3:107586273-107596159 chr3:107586273-107594976 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 623;87 N jcn_only_AA chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 166;41 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838352 30;383 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 26;836 N jcn_only_AD CUFF.450 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 54;8 N jcn_only_AA CUFF.542 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 1325;84 N alternative_acceptor CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 1944;24 N cassette CUFF.569 chr3 + chr3:186739793-186756529 chr3:186739793-186756179;chr3:186756280-186756529 chr3:186756180-186756279 8;657 N alternative_donor chr3 - chr3:49349088-49355741;chr3:49349088-49351303 chr3:49349088-49362134 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 2311;225 K cassette CUFF.558 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 399;710 K intron_retention CUFF.452 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 27;97 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107595301;chr3:107595034-107596159 chr3:107595034-107596748 186;428 N jcn_only_AD chr3 - chr3:57582951-57583365 chr3:57582951-57583058 79;50 K jcn_only_AD CUFF.507,CUFF.528 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 919;199 N jcn_only_AD CUFF.528 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 380;19 N jcn_only_AD CUFF.535 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 166;350 K cassette CUFF.558 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 1291;979 N jcn_only_AD CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 693;76 K alternative_acceptor CUFF.450 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 1324;340 N jcn_only_AA chr3 - chr3:107586273-107594976;chr3:107591874-107594976 chr3:107594422-107594976 756;89 K alternative_first_exon CUFF.452 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 368;270 N jcn_only_AA CUFF.450 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 24;441 N jcn_only_AD CUFF.487 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 746;90 N alternative_donor CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 2892;23 K alternative_last_exon CUFF.562 chr3 - chr3:165495584-165503932;chr3:165491295-165503932 chr3:165496527-165503932 chr3:165490649-165491294 chr3:165496062-165496526 3330;1697 K cassette CUFF.538 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 610;632 K intron_retention CUFF.524 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 110;52 K alternative_acceptor CUFF.554 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 456;309 K intron_retention CUFF.455 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 308;313 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107591874-107596748;chr3:107596345-107596748 chr3:107595034-107596748 406;428 N cassette CUFF.466 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 24;1839 N alternative_donor CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 2878;37 N cassette CUFF.477 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 146;946 N jcn_only_AD chr3 - chr3:107586425-107591172;chr3:107586425-107591814 chr3:107586425-107596748 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 290;115 N alternative_donor CUFF.461 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 16;1188 N cassette CUFF.569 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 308;1546 N coord_cassette CUFF.554 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 275;2753 N coord_cassette CUFF.504 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107569143;chr3:107569199-107572719 chr3:107568670-107568818;chr3:107569144-107569198 483;338 N alternative_acceptor chr3 - chr3:107585601-107586157;chr3:107576050-107586157 chr3:107578109-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 834;57 N jcn_only_AA CUFF.538 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 462;63 N jcn_only_AD CUFF.466,CUFF.561 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 617;135 K alternative_first_exon CUFF.500 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97652346-97652351;chr3:97634454-97634580 chr3:97642982-97643255 60;451 N alternative_donor CUFF.432 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 824;137 N mutually_exclusive CUFF.477 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 186;344 N cassette CUFF.468 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 58;3624 N alternative_donor chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 104;1137 N alternative_acceptor CUFF.452 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 108;50 K intron_retention CUFF.461 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 497;597 N alternative_donor CUFF.504,CUFF.547 chr3 - chr3:107576050-107585498;chr3:107576050-107586157;chr3:107576050-107591814 chr3:107576050-107577977 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 2615;180 N cassette CUFF.554 chr3 - chr3:141712428-141724282;chr3:141697525-141747420;chr3:141697525-141724282 chr3:141697525-141713861,chr3:141712428-141713861;chr3:141713984-141724282,chr3:141713984-141747420 chr3:141713862-141713983 1112;2056 K jcn_only_AD CUFF.513 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 690;293 N cassette CUFF.522 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 52;997 N jcn_only_AA CUFF.504 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 80;78 N alternative_acceptor CUFF.432 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 1650;318 K jcn_only_AD CUFF.513 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 666;317 N alternative_acceptor CUFF.477 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 582;44 N jcn_only_AD chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 95;304 N jcn_only_AA CUFF.468 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 99;1498 K coord_cassette CUFF.542 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 219;1007 K intron_retention CUFF.461 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 975;828 N cassette CUFF.442 chr3 + chr3:28283304-28357823 chr3:28283304-28304781;chr3:28304872-28357823 chr3:28304782-28304871 125;849 N coord_cassette CUFF.554 chr3 - chr3:141724387-141820576 chr3:141724387-141772956;chr3:141772992-141811902;chr3:141811970-141820576 chr3:141772957-141772991;chr3:141811903-141811969 106;346 N jcn_only_AA CUFF.547 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 58;67 N jcn_only_AA CUFF.504 chr3 - chr3:107591328-107591814;chr3:107586273-107591814;chr3:107576050-107591814 chr3:107586425-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1313;212 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 26;861 K alternative_first_exon CUFF.535,CUFF.561 chr3 - chr3:156271571-156272525;chr3:156271571-156272745 chr3:156271571-156271781 chr3:156272746-156273020 chr3:156271782-156272003 432;452 N intron_retention chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 64;335 N jcn_only_AA chr3 - chr3:107585601-107586157;chr3:107578109-107586157 chr3:107576050-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 104;766 K alternative_first_exon CUFF.542 chr3 - chr3:127299007-127306912,chr3:127299007-127309725,chr3:127299007-127310732;chr3:127299007-127313642 chr3:127299007-127309252 chr3:127313643-127313776 chr3:127309253-127309640 2153;1766 N alternative_donor CUFF.524 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 59;108 N alternative_acceptor CUFF.504 chr3 - chr3:107591328-107591814;chr3:107586273-107591814;chr3:107586425-107591814 chr3:107576050-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1461;850 N jcn_only_AD chr3 - chr3:107586425-107596748;chr3:107586425-107591172 chr3:107586425-107591814 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 193;212 N jcn_only_AA CUFF.542 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 546;276 N jcn_only_AA CUFF.466 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 111;612 N intron_retention chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 759;728 N coord_cassette CUFF.554 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 998;2543 N jcn_only_AA CUFF.432 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 314;741 K intron_retention CUFF.452 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 88;181 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 212;234 N alternative_acceptor CUFF.504 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 103;888 N alternative_donor CUFF.441,CUFF.562 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 638;1392 N alternative_acceptor CUFF.524 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 50;1513 N jcn_only_AA CUFF.538 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 483;42 N jcn_only_AD chr3 - chr3:107591874-107594976;chr3:107591874-107594305 chr3:107591874-107596748 756;51 N jcn_only_AA CUFF.547 chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 319;149 K intron_retention CUFF.535 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 589;1236 N alternative_donor CUFF.561 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 265;797 N cassette CUFF.528 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 26;1780 K alternative_last_exon CUFF.492 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501805 326;1334 K intron_retention CUFF.429 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 370;39 K alternative_first_exon CUFF.536 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073207 90;1206 N jcn_only_AA chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 32;84 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107595034-107596748;chr3:107596345-107596748 chr3:107591874-107596748 783;51 N jcn_only_AD CUFF.504 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 453;17 N jcn_only_AD chr3 - chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73482789 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 201;685 N alternative_acceptor CUFF.538 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 5964;63 K jcn_only_AD CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 564;589 N alternative_acceptor chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 4939;1088 N jcn_only_AA CUFF.477 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 500;26 N alternative_donor CUFF.466,CUFF.561 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 642;355 N jcn_only_AD CUFF.504,CUFF.554 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 1233;221 N jcn_only_AA CUFF.522 chr3 - chr3:120394711-120400943;chr3:120396839-120400943 chr3:120396877-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 493;54 N cassette CUFF.513 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 21;459 N jcn_only_AD CUFF.569 chr3 + chr3:186660216-186681572;chr3:186649184-186681572;chr3:186648624-186681572;chr3:186666727-186681572 chr3:186648928-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1388;254 K jcn_only_AD CUFF.534 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 249;1590 N jcn_only_AA CUFF.450 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 81;166 N jcn_only_AA CUFF.466 chr3 - chr3:49349088-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49354912-49362134 253;104 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 50;794 N alternative_donor CUFF.535 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 166;697 N jcn_only_AA CUFF.569 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 341;27 K intron_retention CUFF.470 chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 99;28 N alternative_donor chr3 - chr3:27233734-27236027;chr3:27233734-27235551 chr3:27233734-27243000 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 198;438 K intron_retention CUFF.457 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 16;814 K jcn_only_AA CUFF.450 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 1324;340 K jcn_only_AA CUFF.554 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 456;309 K alternative_last_exon CUFF.509 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049171 777;65 K alternative_first_exon CUFF.466 chr3 - chr3:49348171-49362134 chr3:49348171-49348946 chr3:49362135-49362196 chr3:49348947-49350342 8;3629 K intron_retention CUFF.538 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 706;180 N jcn_only_AD CUFF.483 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 1153;22 N jcn_only_AD CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850 chr3:73453547-73618301 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 838;48 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 184;203 N jcn_only_AD chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 22;118 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49350047-49362134 chr3:49348171-49362134 349;8 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 22;490 N alternative_donor CUFF.432 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 207;465 N cassette CUFF.477 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 146;755 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 9;52 N coord_cassette CUFF.528 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125057665;chr3:125057756-125093945 chr3:125050002-125050082;chr3:125057666-125057755 26;118 N jcn_only_AA CUFF.547 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 21;784 N alternative_acceptor CUFF.452 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 55;193 N alternative_donor CUFF.504 chr3 - chr3:107576050-107577977;chr3:107576050-107585498;chr3:107576050-107591814 chr3:107576050-107586157 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 1180;1615 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 207;392 N cassette CUFF.554 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 275;1440 N coord_cassette CUFF.483 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 41;4931 N jcn_only_AD CUFF.441,CUFF.542 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 473;28 N intron_retention chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 89;356 N mutually_exclusive CUFF.554 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 42;299 N intron_retention chr3 - chr3:107574077-107574159 chr3:107574076-107574077;chr3:107574159-107574160 185;126 N alternative_donor CUFF.450,CUFF.471 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 81;44 N jcn_only_AD CUFF.452 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 108;22 N alternative_donor CUFF.442 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 336;65 N jcn_only_AD CUFF.504,CUFF.547 chr3 - chr3:107576050-107585498;chr3:107576050-107586157;chr3:107576050-107591814 chr3:107576050-107577977 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 1686;75 N jcn_only_AD CUFF.466 chr3 - chr3:49349088-49362134;chr3:49349088-49351303 chr3:49349088-49355741 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 263;209 N jcn_only_AD CUFF.441 chr3 - chr3:107586273-107594976;chr3:107586273-107596159 chr3:107586273-107591814 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 335;375 N alternative_donor CUFF.441 chr3 - chr3:107586273-107594976;chr3:107586273-107596159 chr3:107586273-107591814 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 335;509 N jcn_only_AA CUFF.452 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 55;170 N cassette CUFF.534 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 11;2652 N alternative_donor CUFF.561 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 556;124 K alternative_first_exon CUFF.547 chr3 - chr3:133894884-133901845 chr3:133894884-133896784 chr3:133901846-133901915 chr3:133896785-133899865 319;6545 N alternative_acceptor CUFF.468 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 99;1627 K intron_retention CUFF.461 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 472;656 N alternative_donor chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 108;428 N cassette CUFF.535 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 64;6942 N alternative_donor CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 2408;50 K coord_cassette CUFF.558 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 1291;972 N alternative_acceptor chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 32;988 K intron_retention CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 1416;411 N jcn_only_AD chr3 - chr3:107586273-107594976;chr3:107586273-107591814 chr3:107586273-107596159 chr3:107591815-107594976;chr3:107594977-107596159 chr3:107594976-107594977;chr3:107596159-107596160 462;248 K intron_retention CUFF.468 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 373;3159 K alternative_donor CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 564;5573 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 77;47 K intron_retention CUFF.513 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 184;28 N alternative_donor CUFF.455 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 300;67 N jcn_only_AD CUFF.504 chr3 - chr3:107576050-107577977;chr3:107576050-107585498;chr3:107576050-107591814 chr3:107576050-107586157 chr3:107577978-107585498;chr3:107585499-107586157;chr3:107586158-107591814 chr3:107585498-107585499;chr3:107586157-107586158;chr3:107591814-107591815 995;766 N jcn_only_AD CUFF.487 chr3 - chr3:73453547-73482789;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73610601 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 863;23 N alternative_acceptor chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 77;1642 N jcn_only_AA CUFF.522 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 30;193 N jcn_only_AD CUFF.569 chr3 + chr3:186649184-186681572;chr3:186648624-186681572;chr3:186648928-186681572;chr3:186666727-186681572 chr3:186660216-186681572 chr3:186648624-186648927;chr3:186648928-186649183;chr3:186649184-186660215;chr3:186660216-186666726 chr3:186648623-186648624;chr3:186648927-186648928;chr3:186649183-186649184;chr3:186660215-186660216 1429;213 N alternative_donor chr3 - chr3:107586425-107591172;chr3:107586425-107591814 chr3:107586425-107596748 chr3:107591173-107591814;chr3:107591815-107596748 chr3:107591814-107591815;chr3:107596748-107596749 449;115 N alternative_acceptor CUFF.504 chr3 - chr3:107586273-107591814;chr3:107576050-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107576050-107586272;chr3:107586273-107586424;chr3:107586425-107591327 chr3:107576049-107576050;chr3:107586272-107586273;chr3:107586424-107586425 1978;333 N alternative_donor CUFF.442 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 217;184 K alternative_first_exon CUFF.471 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263798 chr3:52259543-52260179 86;55 N alternative_acceptor CUFF.522 chr3 - chr3:120394711-120400943;chr3:120396839-120400943 chr3:120396877-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 493;86 N alternative_acceptor CUFF.569 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 341;396 K cassette CUFF.569 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 1151;1693 N jcn_only_AA chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 791;89 N alternative_donor CUFF.441 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 83;2832 N intron_retention CUFF.535 chr3 - chr3:125787090-125802771 chr3:125787089-125787090;chr3:125802771-125802772 34;351 K intron_retention CUFF.450 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 441;282 K intron_retention CUFF.556 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 364;73 N cassette CUFF.371 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 85;918 N alternative_donor CUFF.422 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 593;1202 N alternative_donor CUFF.384 chr2 + chr2:191334376-191334483;chr2:191307732-191334483 chr2:191302288-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 1595;57 N intron_retention chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 19;370 K alternative_donor CUFF.222 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 259;1273 N alternative_donor CUFF.294 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 1094;295 N alternative_donor CUFF.195 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 457;158 N alternative_acceptor CUFF.370 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 839;2797 N alternative_donor CUFF.422 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 2776;129 N jcn_only_AD CUFF.333 chr2 + chr2:109102364-109102890 chr2:109102365-109102890 chr2:109102364-109102364 chr2:109102363-109102364 3;1463 K alternative_first_exon CUFF.198 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393384-3393550 2164;1223 N jcn_only_AA chr2 + chr2:220095128-220096981 chr2:220095128-220096649 159;345 K alternative_acceptor CUFF.191 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1956;595 N jcn_only_AD CUFF.396 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 579;36 N jcn_only_AD chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 243;276 K alternative_acceptor CUFF.333 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 22;2643 N alternative_acceptor chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 201;847 N jcn_only_AD CUFF.278 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 141;25 N alternative_donor CUFF.226 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 1335;26 K jcn_only_AD CUFF.333 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 603;185 N jcn_only_AA CUFF.418 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 471;31 N alternative_donor CUFF.278 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 775;252 N jcn_only_AA CUFF.396 chr2 - chr2:207989129-208030190 chr2:208013925-208030190 chr2:207989129-208013924 chr2:207989128-207989129 523;75 N alternative_donor CUFF.278 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 141;31 N alternative_donor CUFF.422 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 449;2456 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 185;172 K alternative_first_exon CUFF.249 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516515-33516854 349;504 K cassette CUFF.297 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 782;1386 K intron_retention CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577139-242577140;chr2:242590424-242590425 2456;99 K alternative_acceptor CUFF.307 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 70;1403 K cassette CUFF.350 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 200;1377 N jcn_only_AA CUFF.370 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 102;23 N alternative_acceptor CUFF.403 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 552;343 N jcn_only_AA CUFF.283 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 114;111 N alternative_acceptor CUFF.333 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 429;316 N alternative_donor CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630379-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 440;89 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 92;126 N cassette CUFF.297 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 27;1896 N alternative_donor CUFF.422 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 1436;359 N jcn_only_AD CUFF.409 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 719;40 N jcn_only_AD chr2 - chr2:175689247-175711042 chr2:175689247-175711036 74;157 N jcn_only_AD CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630487-207631367 chr2:207630243-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 187;55 K intron_retention CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 25;157 N alternative_acceptor CUFF.370 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 3615;21 N alternative_acceptor CUFF.195,CUFF.249 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 416;146 N alternative_donor CUFF.278 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 521;506 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 417;360 N coord_cassette CUFF.422 chr2 + chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522;chr2:242598603-242606059 chr2:242594686-242594758;chr2:242598523-242598602 41;3102 N alternative_acceptor CUFF.195 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 413;92 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 106;116 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1564;42 N mutually_exclusive CUFF.392 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 493;111 N alternative_donor CUFF.409 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 947;72 N jcn_only_AA CUFF.214 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 1585;141 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 41;120 N jcn_only_AA CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 2456;148 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1395;211 N coord_cassette CUFF.323 chr2 + chr2:101598840-101609808 chr2:101598840-101604540;chr2:101604739-101606717;chr2:101606909-101607241;chr2:101607335-101609808 chr2:101604541-101604738;chr2:101606718-101606908;chr2:101607242-101607334 56;2936 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440493-242440892 chr2:242440263-242440892 110;317 N alternative_donor CUFF.195 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 577;148 N coord_cassette CUFF.421 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440155-242440211;chr2:242440893-242441123 246;5020 N alternative_donor CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 1092;359 N alternative_acceptor CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1366;1467 N jcn_only_AD CUFF.409 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 666;93 K intron_retention CUFF.333 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 38;16 K alternative_first_exon CUFF.269 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150330-38150510 chr2:38152370-38152568 145;657 K intron_retention CUFF.418 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 442;114 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 68;97 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4009394-4021134 820;223 N mutually_exclusive CUFF.421 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440892,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440893-242441123 356;185 N cassette CUFF.190 chr2 - chr2:262787-264781;chr2:253116-264083;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263373-264781,chr2:263373-264083 chr2:263211-263372 1010;1297 N jcn_only_AA chr2 + chr2:1079342-1204788 chr2:1079342-1093881 113;735 K alternative_first_exon CUFF.274 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42181156-42181482 chr2:42180867-42180943 133;20 K alternative_first_exon CUFF.231 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440493 5;126 N alternative_donor CUFF.278 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 758;269 K intron_retention CUFF.394 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 398;40 N alternative_donor CUFF.396 chr2 - chr2:207989129-208013705;chr2:207989129-208030190;chr2:207989129-208031863 chr2:207989129-207998790 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 1457;470 N jcn_only_AD CUFF.278 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 164;269 N coord_cassette CUFF.190 chr2 - chr2:253116-264781 chr2:253116-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 287;2882 N jcn_only_AD CUFF.384 chr2 + chr2:191334376-191334483;chr2:191307732-191334483 chr2:191302288-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 303;57 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 151;123 K intron_retention CUFF.403 chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 168;107 K intron_retention CUFF.421 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 1058;101 N jcn_only_AD CUFF.198 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 1147;166 K cassette CUFF.376 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 64;3561 N jcn_only_AA CUFF.352 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 116;60 N alternative_donor CUFF.421 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1156;398 N cassette CUFF.421 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 246;2395 N jcn_only_AD CUFF.396 chr2 - chr2:207989129-208013705;chr2:207989129-208030190;chr2:207989129-208031863 chr2:207989129-207998790 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 598;149 N alternative_acceptor CUFF.227 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 341;66 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 8;68 N alternative_donor CUFF.195 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 1117;793 N jcn_only_AA CUFF.269 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 2336;139 N alternative_acceptor CUFF.370 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 2818;818 N jcn_only_AD CUFF.198 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 510;387 N intron_retention CUFF.277 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 56;18 N alternative_donor CUFF.350 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 290;50 N cassette CUFF.190 chr2 - chr2:253116-263210;chr2:253116-262630 chr2:253116-260084;chr2:260703-262630,chr2:260703-263210 chr2:260085-260702 353;4793 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 40;122 N jcn_only_AD CUFF.278 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 327;106 N alternative_donor CUFF.333 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 429;581 N jcn_only_AA CUFF.190 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 98;32 K intron_retention CUFF.421 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 2001;767 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 38;206 K intron_retention CUFF.320 chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 33;38 N cassette CUFF.195 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 103;919 K intron_retention CUFF.409 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 123;721 N cassette CUFF.375 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 372;336 K alternative_first_exon CUFF.418 chr2 + chr2:241381924-241398446,chr2:241392512-241398446,chr2:241394438-241398446;chr2:241396887-241398446;chr2:241375502-241398446 chr2:241397535-241398446 chr2:241396785-241396886;chr2:241375088-241375501 chr2:241397347-241397534 1184;321 N alternative_acceptor CUFF.392 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 15;703 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 704;73 N jcn_only_AD CUFF.364 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 695;80 N alternative_acceptor CUFF.249 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 548;61 N cassette CUFF.352 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 116;921 K cassette CUFF.360 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 24;210 N jcn_only_AA CUFF.384,CUFF.403 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 1852;17 N cassette CUFF.421 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 371;1707 N jcn_only_AA CUFF.194 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 191;120 N jcn_only_AD CUFF.371 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 156;37 N jcn_only_AA CUFF.370 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 104;21 N intron_retention chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 66;396 N alternative_donor CUFF.198 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 490;1089 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 3;950 K alternative_first_exon CUFF.397 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089661 264;6195 N alternative_acceptor CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656 chr2:73268061-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1955;878 N cassette CUFF.190 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 980;554 K intron_retention CUFF.409 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 202;526 N alternative_acceptor CUFF.297 chr2 - chr2:73280681-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73269715-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 2791;42 N alternative_first_exon CUFF.336 chr2 - chr2:27676381-27676848 chr2:27676381-27676496 chr2:27676849-27677029 chr2:27676497-27676734 179;5925 N alternative_donor chr2 - chr2:207989129-208013705;chr2:207989129-207998790;chr2:207989129-208031863 chr2:207989129-208030190 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 620;1307 K intron_retention CUFF.394 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 335;189 N alternative_donor CUFF.384 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 1852;107 N cassette CUFF.392 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 325;634 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 443;107 N jcn_only_AA CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 415;41 N alternative_donor CUFF.323 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 8387;62 K intron_retention CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 639;145 N alternative_acceptor CUFF.304 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 1386;374 K intron_retention CUFF.336 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 841;62 N jcn_only_AD chr2 - chr2:177042550-177042742 chr2:177042550-177042730 62;66 K jcn_only_AA CUFF.191 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1956;595 N alternative_donor CUFF.190 chr2 - chr2:231192-234159 chr2:231192-233100 chr2:233101-234159 chr2:234159-234160 1616;1360 K alternative_last_exon CUFF.344 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328646 562;588 N jcn_only_AD CUFF.422 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 124;359 N alternative_acceptor CUFF.222 chr2 - chr2:25180844-25186273 chr2:25181471-25186273 chr2:25180844-25181470 chr2:25180843-25180844 699;152 N alternative_donor CUFF.394 chr2 + chr2:207630379-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630472-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 447;82 N alternative_donor chr2 - chr2:242435950-242436714;chr2:242435950-242436596 chr2:242435950-242437030 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 496;1058 K cassette CUFF.388 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 106;572 N coord_cassette CUFF.422 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 38;3994 N alternative_donor CUFF.190 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 1869;2690 N jcn_only_AA CUFF.195,CUFF.403 chr2 + chr2:219449445-219452308 chr2:219449445-219452027 chr2:219452028-219452308 chr2:219452308-219452309 149;62 K jcn_only_AD CUFF.191,CUFF.336 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 252;123 K intron_retention CUFF.307 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 980;461 N jcn_only_AD CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 1092;56 N alternative_acceptor CUFF.190 chr2 - chr2:231192-234159 chr2:233230-234159 chr2:231192-233229 chr2:231191-231192 1616;1896 N jcn_only_AD CUFF.297,CUFF.336 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 740;178 N jcn_only_AA chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 109;442 K intron_retention CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 1092;95 K alternative_first_exon CUFF.412 chr2 + chr2:232026224-232029913 chr2:232028442-232029913 chr2:232026054-232026223 chr2:232027787-232028441 1122;1814 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 142;230 N jcn_only_AA chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 879;1596 N jcn_only_AA CUFF.309 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 75;163 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 724;53 N jcn_only_AD chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 210;147 N alternative_donor CUFF.409 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 393;626 K intron_retention CUFF.309 chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 166;182 K intron_retention CUFF.422 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 829;161 N alternative_donor CUFF.198 chr2 + chr2:3453249-3461391;chr2:3461001-3461391 chr2:3447663-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 1284;2035 N alternative_acceptor CUFF.283 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 114;1160 N jcn_only_AA CUFF.222 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 124;78 K intron_retention CUFF.283 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 423;224 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4015879-4021134 908;135 K intron_retention CUFF.422 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 635;341 N intron_retention CUFF.421 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 20;89 K alternative_last_exon CUFF.226 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672865-27672963 chr2:27676124-27676137 351;3976 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 160;1493 K coord_cassette CUFF.283 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 2977;2067 N alternative_donor CUFF.421 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1456;98 K coord_cassette CUFF.392 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 64;771 N jcn_only_AD CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630243-207631367 chr2:207630487-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 145;97 N alternative_donor CUFF.195 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 1230;680 K coord_cassette CUFF.202 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 11;1087 K alternative_first_exon CUFF.307 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422970 chr2:86422045-86422125 3020;55 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 40;409 N intron_retention chr2 + chr2:99232810-99234630 chr2:99232809-99232810;chr2:99234630-99234631 20;49 K alternative_last_exon CUFF.412 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:232003450-232003564 chr2:231973278-231973827 730;877 N alternative_acceptor CUFF.198 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 2035;24 K alternative_acceptor CUFF.333 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 291;1149 K alternative_last_exon CUFF.278 chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003660 chr2:48906474-48906742 756;819 N coord_cassette CUFF.350 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 30;50 N jcn_only_AA chr2 - chr2:175816931-175869933 chr2:175869809-175869933 chr2:175816931-175869808 chr2:175816930-175816931 12;190 K intron_retention CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 151;527 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 345;569 N alternative_donor CUFF.333 chr2 + chr2:109102364-109102890 chr2:109102365-109102890 chr2:109102364-109102364 chr2:109102363-109102364 3;1463 N jcn_only_AD CUFF.287 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 632;438 N coord_cassette CUFF.371 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175779786-175779899;chr2:175783262-175783293;chr2:175809616-175809671 119;677 N jcn_only_AA CUFF.347 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 144;99 K intron_retention CUFF.226 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 485;781 N jcn_only_AA CUFF.403 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 420;153 N jcn_only_AD CUFF.422 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 2763;109 N alternative_donor CUFF.360 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 17;15 N jcn_only_AD CUFF.287 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 500;570 N alternative_donor CUFF.195 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 1473;437 N coord_cassette CUFF.421 chr2 - chr2:242439697-242448637 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242448637 chr2:242440155-242440211;chr2:242440893-242441123 139;2319 N alternative_donor CUFF.396 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 669;998 N alternative_donor CUFF.396 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 261;353 N alternative_donor chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1449;157 N jcn_only_AD CUFF.375 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 180;100 N jcn_only_AD CUFF.422 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 2565;307 N jcn_only_AD chr2 + chr2:171400499-171508137 chr2:171503450-171508137 113;21 N jcn_only_AA CUFF.249 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 250;61 N cassette CUFF.392 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 122;1018 N alternative_donor CUFF.193,CUFF.222 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 124;66 N cassette CUFF.422 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 160;2573 K alternative_donor CUFF.297 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 527;517 K intron_retention CUFF.409 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 474;103 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 38;40 N alternative_acceptor CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 564;187 N cassette CUFF.350 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 17;295 K cassette CUFF.220 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 121;820 N jcn_only_AA CUFF.226 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 182;992 K intron_retention CUFF.226 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 1203;432 N jcn_only_AD chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 160;25 K alternative_first_exon CUFF.418 chr2 + chr2:241381924-241398446,chr2:241392512-241398446,chr2:241394438-241398446;chr2:241396887-241398446;chr2:241397535-241398446 chr2:241375502-241398446 chr2:241396785-241396886;chr2:241397347-241397534 chr2:241375088-241375501 788;717 K intron_retention CUFF.409 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 946;705 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 2129;189 N alternative_acceptor CUFF.384,CUFF.403 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 1852;17 N jcn_only_AD CUFF.198 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 8;86 N alternative_donor CUFF.409 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 698;321 N jcn_only_AD CUFF.195 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 926;81 K intron_retention CUFF.226 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 1191;82 N alternative_acceptor CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 2456;239 N alternative_donor CUFF.384 chr2 + chr2:191302288-191334483;chr2:191334376-191334483 chr2:191307732-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 573;1079 K cassette CUFF.249 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 271;786 N mutually_exclusive CUFF.375 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 297;485 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 122;881 K jcn_only_AA CUFF.307 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 70;1382 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 226;81 N jcn_only_AD CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630379-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 180;62 N jcn_only_AD CUFF.283 chr2 - chr2:61749819-61753554;chr2:61749819-61753555 chr2:61749819-61752404 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 5293;442 N jcn_only_AD CUFF.394 chr2 + chr2:207630379-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630472-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 214;28 K cassette CUFF.347 chr2 + chr2:153497429-153504309 chr2:153497429-153499932;chr2:153500059-153504309 chr2:153499933-153500058 293;697 K jcn_only_AA CUFF.412 chr2 + chr2:232026224-232029913 chr2:232026224-232028348 646;82 K cassette CUFF.323 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 250;14693 N alternative_donor CUFF.198 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 1147;2091 N jcn_only_AD CUFF.214 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 2193;236 N jcn_only_AD CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 298;162 N jcn_only_AD CUFF.422 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 416;2456 K intron_retention CUFF.304 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 4305;276 N alternative_donor CUFF.312 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 138;158 N cassette CUFF.409 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 101;1436 N alternative_donor CUFF.333 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 123;604 N intron_retention chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 106;124 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134 chr2:4020693-4021134 799;244 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 160;463 N alternative_donor chr2 - chr2:61749819-61753555;chr2:61749819-61752404 chr2:61749819-61753554 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 4164;5694 K intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 335;79 N jcn_only_AD chr2 - chr2:242435950-242436714;chr2:242435950-242436596 chr2:242435950-242437030 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 88;1058 N jcn_only_AD CUFF.396 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 255;158 K intron_retention CUFF.413 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 179;220 K cassette CUFF.249 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 314;1272 N jcn_only_AA CUFF.364 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 695;38 N intron_retention chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 276;347 N cassette CUFF.277 chr2 - chr2:46839484-46842075 chr2:46839484-46840832;chr2:46840925-46842075 chr2:46840833-46840924 89;1831 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1457;149 N jcn_only_AD CUFF.403 chr2 + chr2:219449445-219452308 chr2:219452124-219452308 chr2:219449445-219452123 chr2:219449444-219449445 149;54 N alternative_donor CUFF.214 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 1585;264 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 92;2807 K coord_cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 60;978 K jcn_only_AA CUFF.333 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 291;13 N alternative_acceptor CUFF.269 chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 8488;740 N jcn_only_AD CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 639;31 K cassette CUFF.220 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 130;731 N coord_cassette CUFF.213 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 24;1578 N alternative_donor CUFF.384 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 1136;516 N alternative_acceptor CUFF.269 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 8545;683 N cassette CUFF.422 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 2437;1548 K intron_retention CUFF.320 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 42;98 K intron_retention CUFF.191 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 1805;226 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 62;482 N jcn_only_AA CUFF.412 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 113;23 N jcn_only_AD CUFF.307 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 41;8 N jcn_only_AA CUFF.304 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 1386;374 N mutually_exclusive CUFF.307 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 115;373 K intron_retention CUFF.402 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 351;327 N alternative_acceptor CUFF.226 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 182;2313 N alternative_acceptor CUFF.249 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 389;220 K intron_retention CUFF.269 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 86;1917 N coord_cassette CUFF.402 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 127;2175 N jcn_only_AD CUFF.396 chr2 - chr2:207989129-208013705;chr2:207989129-208030190;chr2:207989129-207998790 chr2:207989129-208031863 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 709;38 N alternative_acceptor CUFF.403 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 577;318 N alternative_donor CUFF.422 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 2585;320 N coord_cassette CUFF.190 chr2 - chr2:262787-264781 chr2:262787-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 280;3068 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 30;325 N jcn_only_AD CUFF.422 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 395;88 N cassette CUFF.422 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 1389;3149 N jcn_only_AD chr2 - chr2:61749819-61753555;chr2:61749819-61752404 chr2:61749819-61753554 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 444;5291 N cassette CUFF.307 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 48;2986 N cassette CUFF.333 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 363;380 N alternative_donor CUFF.397 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 12;1260 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 16;2900 N jcn_only_AA CUFF.198,CUFF.413 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 510;332 N alternative_acceptor CUFF.371 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 699;253 N cassette CUFF.421 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 182;5768 N jcn_only_AA CUFF.333 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 429;316 N jcn_only_AD CUFF.294 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 377;138 N intron_retention CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 16;68 N jcn_only_AA CUFF.222 chr2 - chr2:25180844-25186273 chr2:25181471-25186273 chr2:25180844-25181470 chr2:25180843-25180844 699;152 N alternative_donor CUFF.323 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 4814;79 N alternative_acceptor chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 243;1313 N jcn_only_AD CUFF.269 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 1596;147 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 55;59 K cassette CUFF.354 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 580;821 K intron_retention CUFF.402 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 677;421 K cassette CUFF.195 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 248;710 N alternative_first_exon CUFF.392 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676863 33;383 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 88;838 N alternative_donor CUFF.307 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 41;90 K intron_retention CUFF.269 chr2 + chr2:38201358-38202354 chr2:38201357-38201358;chr2:38202354-38202355 2077;199 K intron_retention CUFF.202 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 385;349 K intron_retention CUFF.313 chr2 + chr2:88928251-88930917 chr2:88928250-88928251;chr2:88930917-88930918 55;158 N alternative_donor CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630243-207631367 chr2:207630487-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 226;303 N alternative_donor CUFF.283 chr2 - chr2:61749819-61753554;chr2:61749819-61752404 chr2:61749819-61753555 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 9856;2 K intron_retention CUFF.226 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 3461;23 K jcn_only_AD CUFF.222 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 259;481 N jcn_only_AA CUFF.360 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 99;18 K intron_retention CUFF.409 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 272;527 K intron_retention CUFF.352 chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 85;241 N jcn_only_AD CUFF.198 chr2 + chr2:3447663-3461391;chr2:3461001-3461391 chr2:3453249-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 2144;74 N jcn_only_AD CUFF.409 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 133;626 K jcn_only_AA CUFF.336 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 252;689 N jcn_only_AA chr2 - chr2:242440493-242440892;chr2:242440263-242440892 chr2:242440335-242440892 397;30 N alternative_acceptor CUFF.336 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 639;689 N alternative_acceptor chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 109;450 N intron_retention chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 129;389 K intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 174;79 N jcn_only_AD CUFF.333 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 123;158 N jcn_only_AA CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656 chr2:73268061-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 321;878 N jcn_only_AA CUFF.227 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 385;93 K alternative_first_exon CUFF.297 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73298168,chr2:73285726-73302708;chr2:73285726-73298732 chr2:73285726-73286136 chr2:73298733-73299029 chr2:73286137-73286301 2121;485 N alternative_acceptor CUFF.360 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 99;25 N alternative_donor CUFF.287 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1218;570 K alternative_last_exon CUFF.392 chr2 - chr2:204306804-204309590;chr2:204259813-204309590 chr2:204306137-204309590 chr2:204306763-204306803;chr2:204259068-204259812 chr2:204304158-204306136 732;1169 K jcn_only_AA CUFF.355 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 90;16 N cassette CUFF.320 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 20;576 N alternative_acceptor CUFF.352 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 116;182 K jcn_only_AD CUFF.341 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 80;15 K intron_retention CUFF.193 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 152;192 N alternative_acceptor CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268061-73285656 chr2:73268791-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 2771;62 K intron_retention CUFF.297 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 467;148 N jcn_only_AD CUFF.278 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 375;58 N jcn_only_AD CUFF.323 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 44;121 N intron_retention chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 89;25 K intron_retention CUFF.421 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 682;257 N jcn_only_AA CUFF.370 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 44;81 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 16;719 N alternative_donor CUFF.195 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 289;310 N jcn_only_AD CUFF.421 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1126;20 N cassette CUFF.422 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 38;2940 N jcn_only_AD CUFF.198 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 490;195 N alternative_donor CUFF.294,CUFF.312 chr2 - chr2:69870407-69901154;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69870706 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 401;988 N alternative_donor chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 401;213 N alternative_donor CUFF.396 chr2 - chr2:207989129-208013705;chr2:207989129-208030190;chr2:207989129-207998790 chr2:207989129-208031863 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 1889;38 N jcn_only_AD CUFF.226 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 1335;26 K intron_retention CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 415;74 N alternative_donor CUFF.287 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1000;788 N intron_retention CUFF.336 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 31;97 N alternative_acceptor CUFF.195,CUFF.403 chr2 + chr2:219449445-219452308 chr2:219449445-219452027 chr2:219452028-219452308 chr2:219452308-219452309 149;62 N alternative_donor CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 639;554 N jcn_only_AA CUFF.226 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 1646;205 K intron_retention CUFF.283 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 237;478 N alternative_acceptor CUFF.222 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 124;78 N alternative_acceptor CUFF.227 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 385;276 K intron_retention CUFF.283 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 4216;66 N jcn_only_AD CUFF.360 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 99;20 N mutually_exclusive CUFF.297 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 54;130 N alternative_acceptor CUFF.389 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 392;45 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 739;38 K intron_retention CUFF.194 chr2 + chr2:677474-680043 chr2:677473-677474;chr2:680043-680044 207;14 N jcn_only_AD CUFF.422 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 447;36 N cassette CUFF.190 chr2 - chr2:263373-264781 chr2:263373-263563;chr2:263763-264781 chr2:263564-263762 110;2847 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 978;628 K cassette CUFF.411 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 15;15 N alternative_acceptor CUFF.269,CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 25;579 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 93;412 N jcn_only_AA CUFF.226 chr2 - chr2:27676381-27676848 chr2:27676607-27676848 89;221 N jcn_only_AD CUFF.396 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 162;453 N jcn_only_AD CUFF.195 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 113;694 N jcn_only_AD CUFF.347 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 144;91 N alternative_donor chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 160;70 N cassette CUFF.389 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 30;437 N intron_retention chr2 - chr2:61764723-61765272 chr2:61764722-61764723;chr2:61765272-61765273 37;66 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 159;144 N jcn_only_AD CUFF.269 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1926;339 N coord_cassette CUFF.278 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 12;1087 N alternative_donor CUFF.222 chr2 - chr2:25180844-25186273 chr2:25180844-25181415 chr2:25181416-25186273 chr2:25186273-25186274 699;658 N intron_retention chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 538;694 N jcn_only_AD CUFF.350 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 290;43 K intron_retention CUFF.307 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 119;1306 N jcn_only_AD CUFF.202,CUFF.297 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 161;138 K cassette CUFF.354 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 221;799 N alternative_acceptor CUFF.347 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 144;512 N alternative_donor CUFF.226 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 1170;846 N alternative_donor CUFF.396 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 566;48 N alternative_donor CUFF.202,CUFF.297 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 161;1552 N alternative_donor CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 21;900 N jcn_only_AD CUFF.198 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 1733;55 N jcn_only_AD CUFF.380 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 36;68 N alternative_donor CUFF.422 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 1561;234 N jcn_only_AA CUFF.198,CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 298;417 K alternative_last_exon CUFF.336 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936000-110936124 chr2:110936325-110936512 264;1131 K intron_retention CUFF.198 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 768;125 N coord_cassette CUFF.422 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242590679-242590750;chr2:242591299-242591389;chr2:242592722-242592784 38;1436 N mutually_exclusive CUFF.350 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 709;462 N alternative_donor CUFF.222,CUFF.371 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 699;274 N jcn_only_AD CUFF.312 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 138;53 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 98;513 K alternative_acceptor CUFF.320 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 313;136 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 73;498 K intron_retention CUFF.316 chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 12;19 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 8;161 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 360;508 N cassette CUFF.213 chr2 - chr2:11587901-11593707 chr2:11587901-11591327;chr2:11591933-11593707 chr2:11591328-11591932 24;4788 K cassette CUFF.202 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 16;819 N jcn_only_AA CUFF.360 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 288;4 K cassette CUFF.354 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 867;146 N alternative_acceptor CUFF.190 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 1194;1842 N intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 286;773 N jcn_only_AD CUFF.195 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 577;43 K alternative_donor CUFF.249 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 246;95 N mutually_exclusive CUFF.371 chr2 - chr2:175689247-175742567,chr2:175742857-175779785 chr2:175689247-175711607,chr2:175711686-175779785 chr2:175742568-175742856 chr2:175711608-175711685 392;285 N mutually_exclusive CUFF.307 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 56;373 N alternative_donor chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 243;912 N jcn_only_AA CUFF.198,CUFF.380 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 1733;50 N intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 66;456 N alternative_donor CUFF.364 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 695;378 N coord_cassette CUFF.360 chr2 + chr2:171300557-171371430 chr2:171300557-171319877;chr2:171319956-171323015;chr2:171323222-171355101;chr2:171355214-171356155;chr2:171356319-171371430 chr2:171319878-171319955;chr2:171323016-171323221;chr2:171355102-171355213;chr2:171356156-171356318 7;689 N alternative_acceptor CUFF.190 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 98;878 K cassette CUFF.213 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 442;955 N alternative_donor CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 298;178 K cassette CUFF.336 chr2 - chr2:110959072-110962476 chr2:110959072-110959949;chr2:110960057-110962476 chr2:110959950-110960056 660;957 K alternative_donor CUFF.341 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 80;15 N alternative_acceptor CUFF.364 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 695;344 K cassette CUFF.269 chr2 + chr2:38177739-38201182 chr2:38177739-38178375;chr2:38179345-38201182 chr2:38178376-38179344 760;3968 N coord_cassette CUFF.382 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 93;227 N intron_retention chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 33;459 N alternative_acceptor CUFF.226 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 303;125 N cassette CUFF.421 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 811;2201 N jcn_only_AD CUFF.190 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 1194;727 N jcn_only_AD CUFF.396 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 371;42 N jcn_only_AA CUFF.371 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 699;253 N intron_retention chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 1626;152 N intron_retention chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 91;545 N jcn_only_AD CUFF.222,CUFF.371 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 699;274 N jcn_only_AD chr2 - chr2:207989129-208013705;chr2:207989129-207998790;chr2:207989129-208031863 chr2:207989129-208030190 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 224;523 N jcn_only_AA CUFF.389 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 392;45 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 61;535 K cassette CUFF.403 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 292;713 K alternative_acceptor CUFF.355 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 90;21 K cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 60;951 K intron_retention CUFF.397 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 15;99 N cassette CUFF.307 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 19;2105 N alternative_donor CUFF.297,CUFF.336 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 740;395 N jcn_only_AD CUFF.195 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 761;246 N jcn_only_AA CUFF.360 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 126;116 N alternative_donor CUFF.283 chr2 - chr2:61749819-61753554;chr2:61749819-61753555 chr2:61749819-61752404 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 5696;4162 N jcn_only_AD CUFF.190 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 1869;100 N jcn_only_AD CUFF.222 chr2 - chr2:25180844-25186273 chr2:25180844-25181415 chr2:25181416-25186273 chr2:25186273-25186274 699;138 N jcn_only_AD CUFF.226 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 1170;62 N cassette CUFF.226 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 81;3815 N alternative_donor CUFF.394 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630487-207631367 chr2:207630243-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 474;55 N jcn_only_AD CUFF.198 chr2 + chr2:3453249-3461391;chr2:3447663-3461391 chr2:3461001-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 2109;109 N cassette CUFF.371 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 119;365 K alternative_first_exon CUFF.312,CUFF.421 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88913242-88913371 chr2:88895269-88895462 27;186 N jcn_only_AA CUFF.403 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 230;343 N alternative_donor CUFF.375 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 180;327 N jcn_only_AD CUFF.193,CUFF.222 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 124;66 N alternative_donor CUFF.403 chr2 + chr2:219449445-219452308 chr2:219452124-219452308 chr2:219449445-219452123 chr2:219449444-219449445 149;54 N alternative_acceptor CUFF.396 chr2 - chr2:207989129-208030190 chr2:208013925-208030190 chr2:207989129-208013924 chr2:207989128-207989129 523;256 N cassette CUFF.198 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 151;1273 K cassette CUFF.277 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 120;2109 K intron_retention CUFF.193 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 22;169 K alternative_last_exon CUFF.392 chr2 - chr2:204306137-204309590;chr2:204306804-204309590 chr2:204259813-204309590 chr2:204304158-204306136;chr2:204306763-204306803 chr2:204259068-204259812 1472;429 N cassette CUFF.297 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 72;437 N jcn_only_AD CUFF.294,CUFF.312 chr2 - chr2:69870407-69901154;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69870706 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 218;297 K alternative_first_exon CUFF.418 chr2 + chr2:241381924-241398446,chr2:241392512-241398446,chr2:241394438-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241396887-241398446 chr2:241375088-241375501;chr2:241397347-241397534 chr2:241396785-241396886 1136;369 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 40;37 N jcn_only_AD CUFF.294 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870874 chr2:69870407-69870923 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 477;38 N alternative_acceptor CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 415;83 N cassette CUFF.371 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 111;819 N jcn_only_AD CUFF.195 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 457;96 N alternative_acceptor CUFF.403 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 661;234 K coord_cassette CUFF.422 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 811;368 N cassette CUFF.375 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 180;2706 K intron_retention CUFF.340 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 51;81 N jcn_only_AA CUFF.198 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 2035;24 N intron_retention chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 89;120 N jcn_only_AA CUFF.202 chr2 - chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4020665-4021134 763;280 N jcn_only_AD CUFF.384 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 1852;15 N jcn_only_AA chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 243;694 N alternative_donor CUFF.396 chr2 - chr2:207989129-208030190;chr2:207989129-207998790;chr2:207989129-208031863 chr2:207989129-208013705 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 1815;112 N alternative_donor CUFF.214 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 2193;321 K intron_retention CUFF.227 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 436;136 K intron_retention CUFF.409 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 689;380 K intron_retention chr2 + chr2:99232810-99232894 chr2:99232809-99232810;chr2:99232894-99232895 250;220 N jcn_only_AA CUFF.269 chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 1735;740 N alternative_donor CUFF.231 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 90;13 N jcn_only_AA chr2 + chr2:220095073-220096981 chr2:220095073-220096649 178;286 N jcn_only_AD CUFF.294 chr2 - chr2:69870407-69870706;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69901154 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 473;42 N alternative_acceptor CUFF.226 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 1335;21 K cassette CUFF.202 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 11;1046 K alternative_acceptor CUFF.355 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 4;309 N alternative_donor CUFF.309 chr2 - chr2:86839398-86847452 chr2:86839398-86842277 chr2:86842278-86847452 chr2:86847452-86847453 139;1484 N alternative_donor CUFF.287 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1358;430 K jcn_only_AA CUFF.355 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 4;58 N alternative_acceptor CUFF.297 chr2 - chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73280681-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 2449;384 K intron_retention CUFF.227 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 486;648 K intron_retention CUFF.422 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 36;880 N cassette CUFF.307 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 19;280 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 40;402 N cassette CUFF.193 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 71;1175 N alternative_donor CUFF.294 chr2 - chr2:69870407-69870706;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69901154 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 1347;42 N jcn_only_AD CUFF.389 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 392;44 N intron_retention CUFF.402 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 117;320 N jcn_only_AD CUFF.274,CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 415;16 K alternative_last_exon CUFF.195,CUFF.198 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 680;789 N jcn_only_AA CUFF.392 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 15;703 K intron_retention CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 564;284 N jcn_only_AA CUFF.190 chr2 - chr2:231192-234159 chr2:233230-234159 chr2:231192-233229 chr2:231191-231192 1616;1256 K alternative_first_exon CUFF.191 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:287583-287892 chr2:287163-287414 1683;2782 K cassette CUFF.202 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 157;521 N alternative_donor CUFF.396 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 1214;453 K intron_retention chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 626;354 N jcn_only_AA CUFF.249 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 181;130 N jcn_only_AA CUFF.421 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 1058;89 N alternative_acceptor CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 16;50 N mutually_exclusive CUFF.371 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 263;442 K jcn_only_AD CUFF.297 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 527;517 N alternative_acceptor CUFF.198,CUFF.380 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 1733;452 K alternative_donor CUFF.333 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 603;193 N alternative_donor CUFF.360 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 99;194 N jcn_only_AD CUFF.231 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 90;13 K intron_retention CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 21;1493 K jcn_only_AA CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 151;179 K intron_retention CUFF.403 chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 343;258 N alternative_first_exon CUFF.409 chr2 + chr2:220094623-220097211 chr2:220097085-220097211 chr2:220094479-220094622 chr2:220096982-220097084 319;2029 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 317;466 N jcn_only_AA CUFF.364 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 903;68 N alternative_donor CUFF.347 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 144;91 N jcn_only_AA CUFF.336 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 639;41 N jcn_only_AA CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 564;117 K jcn_only_AA CUFF.333 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 22;1463 N jcn_only_AA chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 201;345 N alternative_donor CUFF.269 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1926;1931 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 41;74 N cassette CUFF.307 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 48;1674 N alternative_donor CUFF.323 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 44;451 K intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 1070;34 K intron_retention CUFF.409 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 417;315 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 8;4 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 21;130 N intron_retention CUFF.190 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 979;166 N cassette CUFF.297 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 203;789 N jcn_only_AD CUFF.396 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 489;126 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 8;12 N jcn_only_AA CUFF.297 chr2 - chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73280681-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1160;39 N jcn_only_AA CUFF.403 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 496;77 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4020693-4021134 chr2:4009485-4021134 882;161 N jcn_only_AA CUFF.195 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 413;54 N alternative_acceptor CUFF.360 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 126;1133 N intron_retention CUFF.190 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 17;128 N alternative_donor CUFF.198 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 1733;293 K cassette CUFF.350 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 309;263 N jcn_only_AD CUFF.323 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 8387;53 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 84;54 N intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 147;239 N jcn_only_AD CUFF.214 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 1585;264 N jcn_only_AD CUFF.323 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 31;197 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 762;776 N jcn_only_AA CUFF.226 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 303;105 N alternative_acceptor CUFF.418 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 471;39 N mutually_exclusive CUFF.422 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 179;47 K cassette CUFF.231 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 16;174 K intron_retention CUFF.283 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 199;355 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 1368;432 N alternative_last_exon CUFF.190 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234160-234272 chr2:239561-242176 178;12828 K alternative_last_exon CUFF.309 chr2 - chr2:86842381-86847452,chr2:86843915-86847452;chr2:86839398-86847452 chr2:86845137-86847452 chr2:86839282-86839397 chr2:86843554-86845136 323;1479 N alternative_acceptor CUFF.421 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 1058;196 N cassette CUFF.422 chr2 + chr2:242594063-242606059;chr2:242594759-242606059 chr2:242594759-242598522,chr2:242594063-242598522;chr2:242598603-242606059 chr2:242598523-242598602 62;1927 K mutually_exclusive CUFF.354 chr2 + chr2:169659184-169681143,chr2:169681228-169684667 chr2:169659184-169668076,chr2:169668163-169684667 chr2:169681144-169681227 chr2:169668077-169668162 991;539 N alternative_acceptor CUFF.309 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 75;1827 N alternative_donor CUFF.269 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 1596;147 N cassette CUFF.190 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 1951;549 N jcn_only_AA CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 16;8 N jcn_only_AD CUFF.190 chr2 - chr2:231192-234159 chr2:231192-233100 chr2:233101-234159 chr2:234159-234160 1616;979 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440263-242440892 chr2:242440493-242440892 347;80 K cassette CUFF.354 chr2 + chr2:169711971-169713199 chr2:169711971-169712395;chr2:169712721-169713199 chr2:169712396-169712720 902;342 N coord_cassette CUFF.190 chr2 - chr2:253116-263210 chr2:253116-260084;chr2:260703-262630;chr2:262751-263210 chr2:260085-260702;chr2:262631-262750 18;96 N jcn_only_AA CUFF.195,CUFF.249 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 416;65 N jcn_only_AA CUFF.269,CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 25;69 N jcn_only_AA CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1021;178 N intron_retention CUFF.193 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 49;87 K alternative_last_exon CUFF.269 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38201183-38201357 chr2:38177654-38177738 989;63 N cassette CUFF.297 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 98;1084 N jcn_only_AD CUFF.287 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1008;62 N intron_retention chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 359;914 N alternative_acceptor CUFF.194 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 281;328 N alternative_donor CUFF.198 chr2 + chr2:3453249-3461391;chr2:3447663-3461391 chr2:3461001-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 2168;1151 N alternative_donor CUFF.190 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 1194;771 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 319;38 K cassette CUFF.213 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 509;668 K cassette CUFF.403 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 207;234 N alternative_donor CUFF.274,CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 415;98 N jcn_only_AA CUFF.227 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 341;50 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 490;100 N jcn_only_AD CUFF.421 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1078;68 N jcn_only_AD CUFF.309 chr2 - chr2:86839398-86847452 chr2:86839398-86842277 chr2:86842278-86847452 chr2:86847452-86847453 139;72 N alternative_donor CUFF.294 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870874 chr2:69870407-69870923 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 1325;64 K alternative_first_exon CUFF.222 chr2 - chr2:25190163-25194686 chr2:25190163-25194424,chr2:25190163-25194284 chr2:25194687-25195017 chr2:25194425-25194582 427;910 N jcn_only_AD CUFF.360 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 17;15 N jcn_only_AD CUFF.396 chr2 - chr2:207989129-208030190;chr2:207989129-207998790;chr2:207989129-208031863 chr2:207989129-208013705 chr2:207998791-208013705;chr2:208013706-208030190;chr2:208030191-208031863 chr2:208013705-208013706;chr2:208030190-208030191;chr2:208031863-208031864 710;37 K alternative_last_exon CUFF.198,CUFF.412 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3469368-3469467 chr2:3464418-3464714 1284;2839 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1225;381 K jcn_only_AA CUFF.320 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 313;111 N alternative_acceptor CUFF.364 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 903;1003 K intron_retention CUFF.210 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 236;2195 N jcn_only_AD CUFF.384 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 283;77 N jcn_only_AA CUFF.297 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268061-73285656 chr2:73268791-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1137;62 N alternative_acceptor CUFF.198,CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 298;666 K alternative_acceptor CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 151;684 N jcn_only_AD CUFF.384 chr2 + chr2:191302288-191334483;chr2:191334376-191334483 chr2:191307732-191334483 chr2:191302288-191307731;chr2:191307732-191334375 chr2:191302287-191302288;chr2:191307731-191307732 134;226 N coord_cassette CUFF.297 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 72;2080 K cassette CUFF.227 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 339;303 N jcn_only_AD CUFF.333 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 429;577 N coord_cassette CUFF.371 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 143;490 N alternative_acceptor CUFF.214 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 1585;141 K alternative_first_exon CUFF.392 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204399834-204400152 chr2:204398088-204398242 1978;192 K intron_retention CUFF.277 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 1024;52 K alternative_first_exon CUFF.297 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73226078-73226143 chr2:73221975-73222187 467;656 N alternative_donor CUFF.198 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 8;128 N cassette CUFF.412 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 17;1063 K coord_cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 60;1335 K intron_retention CUFF.422 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 842;27 N intron_retention chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 190;283 N jcn_only_AD CUFF.195 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 327;680 N alternative_donor CUFF.198 chr2 + chr2:3447663-3461391;chr2:3461001-3461391 chr2:3453249-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 3186;133 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 757;20 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 38;1089 N jcn_only_AD CUFF.397 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 12;446 N jcn_only_AD chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 663;114 N alternative_acceptor CUFF.360 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 288;4 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 41;916 K cassette CUFF.202 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009394-4021134 chr2:4009360-4009393 16;784 K alternative_first_exon CUFF.350 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585520-160585686 chr2:160590460-160590593 425;64 N jcn_only_AD CUFF.195 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 289;100 N jcn_only_AD CUFF.323 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 4814;79 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 38;194 N alternative_acceptor chr2 - chr2:175816931-175869933 chr2:175869809-175869933 chr2:175816931-175869808 chr2:175816930-175816931 12;642 N alternative_acceptor CUFF.198,CUFF.413 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 510;411 N alternative_donor CUFF.389 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 392;46 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 273;1450 N alternative_donor CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 1568;38 N alternative_donor CUFF.198 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 510;387 N jcn_only_AD chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 200;213 N alternative_acceptor chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 1423;7805 N alternative_donor CUFF.396 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 1451;216 N jcn_only_AD CUFF.198 chr2 + chr2:3453249-3461391;chr2:3461001-3461391 chr2:3447663-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 183;2035 N alternative_acceptor CUFF.226 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 1646;205 N alternative_donor CUFF.307 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 1649;195 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 56;140 K intron_retention CUFF.226 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 17;1324 N jcn_only_AD CUFF.283 chr2 - chr2:61749819-61753554;chr2:61749819-61752404 chr2:61749819-61753555 chr2:61752405-61753554;chr2:61753555-61753555 chr2:61753554-61753555;chr2:61753555-61753556 5733;2 N jcn_only_AA CUFF.297 chr2 - chr2:73280681-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73269715-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 1157;42 K intron_retention CUFF.323 chr2 + chr2:101604739-101606717 chr2:101604738-101604739;chr2:101606717-101606718 481;33 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 178;348 N jcn_only_AD CUFF.283 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 658;119 N jcn_only_AD CUFF.307 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 1649;153 K alternative_last_exon CUFF.392 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204304158-204306136;chr2:204259068-204259812 chr2:204306763-204306803 1598;303 N jcn_only_AA CUFF.226 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 1335;21 K jcn_only_AD CUFF.249 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 246;95 N jcn_only_AD CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 21;29 N intron_retention chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 101;632 N jcn_only_AA CUFF.190 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 1194;808 K intron_retention CUFF.412 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 303;125 K alternative_first_exon CUFF.416 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476336-237476484 chr2:237478227-237478567 120;350 N intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 55;204 N alternative_donor CUFF.371 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 156;37 K alternative_last_exon CUFF.287 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358409-68358577 chr2:68359054-68359137 732;239 N mutually_exclusive CUFF.421 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440892,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440893-242441123 356;185 N intron_retention chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 102;184 K alternative_first_exon CUFF.249 chr2 + chr2:33335819-33359859 chr2:33359573-33359859 chr2:33335649-33335818 chr2:33359389-33359572 4;62 K cassette CUFF.135 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 151;130 K jcn_only_AD CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 115;861 N alternative_acceptor CUFF.20 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 206;5129 N jcn_only_AD CUFF.122 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 17;17 N intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 96;512 K alternative_first_exon CUFF.114,CUFF.88 chr1 - chr1:113471975-113472502,chr1:113471975-113497897,chr1:113471975-113499460;chr1:113471975-113498656 chr1:113471975-113478445 chr1:113498657-113498975 chr1:113478446-113478721 500;2178 N cassette CUFF.100 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 14;21 N alternative_donor CUFF.41 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 666;53 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 494;261 N jcn_only_AD chr1 - chr1:106132408-106145898;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106146784 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 290;148 K intron_retention CUFF.45 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 73;199 K alternative_donor CUFF.134 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 54;157 N alternative_donor CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106145898 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 5525;706 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 28;108 N jcn_only_AD CUFF.122 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 19;68 K alternative_last_exon CUFF.18 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383804 chr1:16382917-16383003 16;237 N alternative_acceptor CUFF.166 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 305;252 K intron_retention CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963195-22963196;chr1:22964102-22964103 439;124 N alternative_acceptor CUFF.4 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 379;5271 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11713447;chr1:11710892-11714375 chr1:11710892-11715696 chr1:11713448-11713684;chr1:11714376-11714776 chr1:11715697-11715938 1151;600 K cassette CUFF.4 chr1 + chr1:2075781-2077465 chr1:2075781-2076827;chr1:2076951-2077465 chr1:2076828-2076950 1842;1345 K alternative_first_exon CUFF.155 chr1 - chr1:202894336-202897608 chr1:202894336-202896216 chr1:202897609-202897843 chr1:202896217-202896390 300;35 N mutually_exclusive CUFF.57 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 542;503 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 684;1224 N cassette CUFF.90 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 166;364 N alternative_donor CUFF.111 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 314;559 K cassette CUFF.180 chr1 + chr1:245222761-245245384 chr1:245222761-245238875;chr1:245238914-245245384 chr1:245238876-245238913 777;2058 N jcn_only_AA chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 140;64 K cassette CUFF.141 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 7;1195 N cassette CUFF.4 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 182;1242 N alternative_donor CUFF.135 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 448;153 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 chr1:153923736-153924080 32;296 N alternative_donor CUFF.114 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 30;270 K alternative_first_exon CUFF.49 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 21;386 N jcn_only_AA CUFF.135,CUFF.180 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 229;25 N jcn_only_AD CUFF.106 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 18;57 N jcn_only_AA CUFF.157,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 77;24 N cassette CUFF.4 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 62;4130 K intron_retention CUFF.49 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 19;432 N alternative_acceptor CUFF.92 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 8;4 K alternative_first_exon CUFF.161 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556062-211556267 chr1:211563990-211564012 821;82 N jcn_only_AD CUFF.41 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 277;402 K cassette CUFF.135 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 199;327 K coord_cassette CUFF.6 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 188;720 K cassette CUFF.127 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 31;103 K jcn_only_AD CUFF.134 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 54;70 K alternative_first_exon CUFF.172 chr1 + chr1:224363650-224377278;chr1:224371534-224377278 chr1:224371121-224377278 chr1:224363372-224363649;chr1:224371364-224371533 chr1:224370815-224371120 395;271 N jcn_only_AD CUFF.4 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 731;50 K alternative_first_exon CUFF.166 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817624-222817928 102;1020 N coord_cassette CUFF.44 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 25;1803 N alternative_acceptor CUFF.135,CUFF.180 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 229;111 K cassette CUFF.134 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 70;114 N coord_cassette CUFF.4 chr1 + chr1:2075781-2080310 chr1:2075781-2076827;chr1:2076951-2077465;chr1:2077548-2080310 chr1:2076828-2076950;chr1:2077466-2077547 62;1875 N alternative_donor CUFF.135 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 359;229 N alternative_donor CUFF.180 chr1 + chr1:245246786-245246923 chr1:245246787-245246923 chr1:245246786-245246786 chr1:245246785-245246786 2;2370 K alternative_last_exon CUFF.173 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613752 378;3156 K intron_retention CUFF.110 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 chr1:153924873-153924922;chr1:153925047-153925111 298;139 K alternative_first_exon CUFF.118,CUFF.28 chr1 - chr1:26231230-26231634,chr1:26231230-26232342,chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26231539 chr1:26232880-26233045 chr1:26231540-26231647 549;355 N jcn_only_AA CUFF.132 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 14;183 K alternative_first_exon CUFF.151 chr1 + chr1:196913069-196919981 chr1:196918780-196919981 chr1:196912896-196913068 chr1:196918585-196918779 21;106 N jcn_only_AA CUFF.2 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 256;12 N alternative_acceptor CUFF.41 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 17;198 K alternative_first_exon CUFF.34 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656738-28656886 936;1058 N alternative_donor CUFF.4 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 592;110 K cassette CUFF.172 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 169;72 K alternative_acceptor CUFF.48 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 90;200 N jcn_only_AA CUFF.72 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 205;151 N jcn_only_AD CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143891 chr1:106132408-106143252 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 356;82 N alternative_donor CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143252 chr1:106132408-106143891 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 3815;2416 N alternative_acceptor CUFF.44 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 594;21 K alternative_last_exon CUFF.147 chr1 - chr1:174084782-174124764,chr1:174091331-174124764;chr1:174084788-174124764 chr1:174090925-174124764 chr1:174084438-174084787 chr1:174090760-174090924 1514;320 N cassette CUFF.142 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 184;543 N alternative_donor CUFF.4 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 731;50 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11715697-11715938;chr1:11714376-11714776 chr1:11713448-11713684 952;799 K intron_retention chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 139;615 N jcn_only_AA CUFF.41 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 17;6 N cassette CUFF.135 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 80;670 K intron_retention CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 130;78 N jcn_only_AD CUFF.57 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 245;51 N alternative_acceptor chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 157;807 N jcn_only_AA CUFF.92 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 8;4 N intron_retention chr1 + chr1:110212198-110213911 chr1:110212197-110212198;chr1:110213911-110213912 3;81 N alternative_first_exon CUFF.174 chr1 + chr1:230203154-230338882 chr1:230314058-230338882 chr1:230202929-230203153 chr1:230313964-230314057 115;163 K intron_retention CUFF.45 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 138;282 K intron_retention CUFF.163 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 106;46 K jcn_only_AD CUFF.153 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 400;251 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 34;121 K cassette CUFF.157 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 82;50 N alternative_first_exon CUFF.183 chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246924-245246990 chr1:245270523-245270599 87;73 N alternative_acceptor CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 645;96 N jcn_only_AA CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 351;110 N jcn_only_AD CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143252 chr1:106132408-106143891 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 370;68 N jcn_only_AD CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 1121;17 K alternative_donor CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 439;1055 N alternative_acceptor CUFF.157,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 77;52 N jcn_only_AD CUFF.41 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 627;52 N jcn_only_AD CUFF.4 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 777;92 N jcn_only_AA CUFF.4 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 731;66 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 1614;223 N alternative_donor CUFF.188 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 16;1411 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11076179;chr1:11076312-11076900 chr1:11076180-11076311 793;179 K cassette CUFF.102 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 324;479 N jcn_only_AD CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 351;131 K coord_cassette CUFF.135 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 18;246 K intron_retention CUFF.174 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 249;221 N alternative_acceptor CUFF.18,CUFF.41 chr1 + chr1:31783012-31791955 chr1:31783012-31791013 chr1:31791014-31791955 chr1:31791955-31791956 660;61 K jcn_only_AA CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 134;60 N alternative_donor CUFF.142,CUFF.147 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 134;104 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 143;1215 K intron_retention CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 102;279 K jcn_only_AA CUFF.135,CUFF.144 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 28;497 K coord_cassette CUFF.134 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 70;188 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 76;7 N cassette CUFF.41 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 36;1069 N alternative_acceptor CUFF.104 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 312;38 K alternative_first_exon CUFF.156 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601169 chr1:205594760-205594885 235;137 K jcn_only_AD CUFF.34 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 39;632 N jcn_only_AD CUFF.41 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 454;225 N coord_cassette CUFF.57 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 184;959 N jcn_only_AD CUFF.180 chr1 + chr1:245246786-245246923 chr1:245246787-245246923 chr1:245246786-245246786 chr1:245246785-245246786 2;2370 N alternative_acceptor CUFF.114 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 10;123 N cassette CUFF.57 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 257;4110 N jcn_only_AD CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 121;72 K cassette CUFF.163 chr1 - chr1:213181809-213188954 chr1:213181809-213186434;chr1:213186761-213188954 chr1:213186435-213186760 136;468 N cassette CUFF.44 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 90;1570 N alternative_donor CUFF.147 chr1 - chr1:174084788-174124764 chr1:174084788-174091221 chr1:174091222-174124764 chr1:174124764-174124765 428;69 N jcn_only_AA CUFF.110 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 135;99 N alternative_donor CUFF.69 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 312;33 K intron_retention CUFF.110 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 chr1:153923736-153924142;chr1:153924494-153924738 227;100 N coord_cassette CUFF.135 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 205;192 N jcn_only_AD chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 19;33 N alternative_acceptor CUFF.116 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 121;193 K alternative_last_exon CUFF.188 chr1 - chr1:247320706-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247301437-247302059;chr1:247285277-247287173 chr1:247320436-247320519 1640;162 N alternative_donor CUFF.122 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 17;17 K alternative_donor CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 115;1371 K intron_retention CUFF.118 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 chr1:158584043-158584096 383;204 K intron_retention CUFF.110 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 chr1:153925047-153925111;chr1:153925281-153925310 96;53 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 143;641 N cassette CUFF.111 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 34;567 K jcn_only_AA CUFF.110 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 chr1:153925281-153925310;chr1:153925047-153925111 96;197 K alternative_last_exon CUFF.56 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387223-54387440 334;390 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 200;916 N alternative_donor CUFF.114 chr1 - chr1:156449139-156449376;chr1:156449139-156449377 chr1:156449139-156450625 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 779;72 N alternative_last_exon CUFF.54 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53902700-53904721 191;3283 N jcn_only_AA chr1 - chr1:156449139-156450625 chr1:156449589-156450625 72;19 N cassette CUFF.32 chr1 - chr1:27436269-27480473 chr1:27436269-27440316;chr1:27440778-27480473 chr1:27440317-27440777 27;1002 N mutually_exclusive CUFF.90 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 24;404 K alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 102;585 N intron_retention chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 34;21 N alternative_last_exon chr1 + chr1:10494748-10511433 chr1:10494748-10500403 chr1:10511434-10512210 chr1:10500404-10500470 497;290 N alternative_acceptor CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 351;1284 N jcn_only_AD chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174128025-174129054 chr1:174129054-174129055 57;735 N alternative_acceptor CUFF.44 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 chr1:32542165-32557272 chr1:32557272-32557273 138;490 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 25;527 K cassette CUFF.49 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 106;1245 K jcn_only_AD CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 439;653 N jcn_only_AD CUFF.4 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 592;45 K alternative_acceptor CUFF.18 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 271;21 N alternative_donor CUFF.122 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 19;92 N jcn_only_AA CUFF.49 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 145;421 K cassette CUFF.134 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 33;136 N jcn_only_AD CUFF.114 chr1 - chr1:156449139-156449377;chr1:156449139-156450625 chr1:156449139-156449376 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 355;2 K alternative_last_exon CUFF.188 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247320436-247320519;chr1:247301437-247302059 chr1:247285277-247287173 1544;258 K intron_retention CUFF.172 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 127;46 N jcn_only_AA CUFF.54 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 94;94 K alternative_first_exon CUFF.153 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877582-200877677 390;164 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 103;441 N alternative_donor CUFF.4 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 777;92 N jcn_only_AD chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 103;164 K cassette CUFF.166 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 429;121 N jcn_only_AD CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106145898 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 298;140 N intron_retention chr1 + chr1:155180419-155182175 chr1:155180418-155180419;chr1:155182175-155182176 34;60 N alternative_donor chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 103;513 K alternative_acceptor CUFF.45 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 148;232 K intron_retention CUFF.116 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 65;125 K alternative_first_exon CUFF.180 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245133007-245133100 chr1:245133631-245133745 1625;1812 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 39;2271 K cassette CUFF.97 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 55;1313 K alternative_first_exon CUFF.153 chr1 + chr1:200860830-200867434;chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860088-200860530 chr1:200863869-200864215 247;1247 K intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 164;180 K cassette CUFF.126 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 432;44 N alternative_last_exon CUFF.180 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245285221 chr1:245246991-245254795 chr1:245250547-245251139;chr1:245285222-245290467 chr1:245254796-245255091 9296;211 N jcn_only_AD chr1 + chr1:32541856-32542363 chr1:32542248-32542363 23;86 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 44;2442 K alternative_first_exon CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072320-11072485 chr1:11072671-11072800 451;382 N alternative_donor CUFF.188 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 238;1426 K alternative_acceptor CUFF.188 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 217;209 K intron_retention CUFF.147 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 125;414 N jcn_only_AD CUFF.180 chr1 + chr1:245245464-245246743 chr1:245245465-245246743 chr1:245245464-245245464 chr1:245245463-245245464 3;2563 N jcn_only_AA CUFF.18,CUFF.41 chr1 + chr1:31783012-31791955 chr1:31783012-31791013 chr1:31791014-31791955 chr1:31791955-31791956 660;61 K cassette CUFF.120 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 199;3171 N alternative_first_exon chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941710 chr1:156939790-156939835 5;569 N jcn_only_AA CUFF.4 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 379;620 N alternative_donor CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 121;159 K intron_retention CUFF.4 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 666;65 N jcn_only_AD CUFF.54,CUFF.88 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 94;193 N cassette CUFF.142 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 99;635 K intron_retention CUFF.120 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 229;239 K alternative_acceptor CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 130;1136 N jcn_only_AA chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 157;448 N alternative_acceptor chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 140;269 N alternative_donor CUFF.4 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 547;1263 K alternative_donor CUFF.86 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 146;1008 K alternative_last_exon CUFF.86 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110215825-110216147;chr1:110224431-110224456 chr1:110251103-110252171 2605;266 K alternative_first_exon CUFF.48,CUFF.84 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642250 644;185 K alternative_acceptor CUFF.135 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 98;288 K intron_retention CUFF.88 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 1050;91 N alternative_donor CUFF.111 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 157;163 K intron_retention CUFF.153 chr1 + chr1:200883188-200883601 chr1:200883187-200883188;chr1:200883601-200883602 63;67 K jcn_only_AA CUFF.135 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 98;45 N alternative_acceptor CUFF.72 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 205;151 N jcn_only_AA CUFF.68,CUFF.86 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 515;78 N alternative_acceptor CUFF.132 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 14;183 N alternative_donor chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 19;37 N alternative_acceptor CUFF.180,CUFF.6 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 1803;2731 K intron_retention CUFF.28 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 869;761 K intron_retention CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 134;268 K intron_retention CUFF.49 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 386;222 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 44;2271 K jcn_only_AD CUFF.104 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 158;121 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 793;330 N intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 120;108 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11713447 chr1:11710892-11714375 chr1:11715697-11715938;chr1:11713448-11713684 chr1:11714376-11714776 1399;352 K alternative_acceptor CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 134;305 N cassette CUFF.20 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 13;420 K alternative_acceptor CUFF.122,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 212;1651 K alternative_last_exon CUFF.122,CUFF.86 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160156066-160156157 chr1:160152482-160152527 1191;120 K intron_retention CUFF.97 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 152;66 N alternative_first_exon chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612240 chr1:120572529-120572610 19;12 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 44;152 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 76;12 N coord_cassette CUFF.57 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 73;959 N alternative_last_exon CUFF.180 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245254795 chr1:245246991-245285221 chr1:245250547-245251139;chr1:245254796-245255091 chr1:245285222-245290467 8482;1025 N jcn_only_AD CUFF.111 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 157;163 N jcn_only_AD CUFF.4 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 666;26 K alternative_first_exon CUFF.172 chr1 + chr1:224371121-224377278;chr1:224371534-224377278 chr1:224363650-224377278 chr1:224370815-224371120;chr1:224371364-224371533 chr1:224363372-224363649 340;326 N alternative_donor chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 78;352 N jcn_only_AD CUFF.147 chr1 - chr1:174084788-174124764 chr1:174084788-174091221 chr1:174091222-174124764 chr1:174124764-174124765 428;63 K alternative_first_exon CUFF.2 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1655951-1656202 chr1:1663953-1664283 447;788 N alternative_first_exon chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905648 chr1:53905100-53905337 184;639 N alternative_donor CUFF.44 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 594;28 N jcn_only_AA chr1 + chr1:106012919-106148564 chr1:106012919-106148550 17;3 K alternative_donor CUFF.104 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 158;321 N jcn_only_AD CUFF.111 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 314;34 K intron_retention CUFF.110 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 chr1:153927349-153927465;chr1:153927541-153927642 217;233 N jcn_only_AA CUFF.44 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 chr1:32542165-32557272 chr1:32557272-32557273 138;88 K intron_retention CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 645;389 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 8;180 K intron_retention CUFF.153 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 65;139 K alternative_last_exon CUFF.6 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512210 chr1:10502322-10502866 1013;1858 K jcn_only_AA CUFF.188 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 217;104 N alternative_last_exon CUFF.180 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245254795;chr1:245246991-245285221 chr1:245246991-245250546 chr1:245254796-245255091;chr1:245285222-245290467 chr1:245250547-245251139 1454;8053 N jcn_only_AA CUFF.20 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 37;74 K alternative_first_exon CUFF.4 chr1 + chr1:2005369-2066700,chr1:2005715-2066700,chr1:2043257-2066700,chr1:2006573-2066700,chr1:2013900-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:1991031-2066700 chr1:2066526-2066700 chr1:1990980-1991030 chr1:2066250-2066525 1779;987 K alternative_first_exon CUFF.104 chr1 - chr1:151158427-151167754 chr1:151158427-151162599,chr1:151158427-151162480 chr1:151167755-151167886 chr1:151162600-151162664 75;279 K intron_retention CUFF.56 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 465;287 K cassette CUFF.166 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 118;5869 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 23;136 N alternative_acceptor CUFF.49 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 145;1199 K alternative_last_exon CUFF.188 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247320436-247320519;chr1:247285277-247287173 chr1:247301437-247302059 498;1304 K alternative_acceptor CUFF.135,CUFF.144 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 28;1022 N alternative_acceptor chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 102;78 N jcn_only_AA CUFF.180,CUFF.6 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 1803;959 N alternative_last_exon CUFF.28 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226591-26227578 397;5733 N jcn_only_AD chr1 - chr1:156449139-156449376;chr1:156449139-156450625 chr1:156449139-156449377 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 74;283 K cassette CUFF.155 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 12;253 N jcn_only_AD chr1 - chr1:156453223-156470277 chr1:156453223-156469223 102;44 K intron_retention CUFF.118 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 chr1:158589012-158589124 7;61 N alternative_donor CUFF.106 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 18;68 K cassette CUFF.51 chr1 + chr1:47139892-47152344 chr1:47139892-47147852;chr1:47147937-47152344 chr1:47147853-47147936 443;83 N alternative_donor CUFF.180 chr1 + chr1:245245464-245246743 chr1:245245465-245246743 chr1:245245464-245245464 chr1:245245463-245245464 3;2563 N cassette CUFF.135 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 9;1536 N coord_cassette CUFF.166 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 33;696 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 122;44 K alternative_first_exon CUFF.163,CUFF.49 chr1 - chr1:213186761-213188954 chr1:213186761-213188567 chr1:213188955-213189263 chr1:213188568-213188883 23;374 K intron_retention CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 121;27 N jcn_only_AD CUFF.188 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 16;16 K alternative_acceptor CUFF.110 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 chr1:153925281-153925310;chr1:153925047-153925111 96;222 N jcn_only_AA CUFF.44 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 594;20 K intron_retention CUFF.134 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 106;50 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 35;357 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076179;chr1:11076312-11076900;chr1:11077065-11078789 chr1:11076180-11076311;chr1:11076901-11077064 25;277 K cassette CUFF.68 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 618;236 N jcn_only_AA CUFF.104 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 312;27 N alternative_donor chr1 - chr1:156449139-156449376;chr1:156449139-156450625 chr1:156449139-156449377 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 79;772 N alternative_acceptor CUFF.54 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 94;129 N alternative_acceptor CUFF.20 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 5306;29 N alternative_last_exon chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230338883-230339036 chr1:230227336-230227780 63;1673 K intron_retention CUFF.118 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 chr1:158589960-158590256 6;229 N jcn_only_AD CUFF.142,CUFF.147 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 134;24 K intron_retention CUFF.116 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 92;17 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930771 chr1:153927541-153927642 317;355 K cassette CUFF.16 chr1 + chr1:15753781-15755088 chr1:15753781-15754393;chr1:15754506-15755088 chr1:15754394-15754505 34;120 N jcn_only_AD CUFF.4 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 547;119 N alternative_acceptor CUFF.2 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 256;2046 K intron_retention CUFF.32 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 198;52 N cassette CUFF.84 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 54;2769 N jcn_only_AD CUFF.135 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 359;60 K alternative_last_exon CUFF.86 chr1 + chr1:110214206-110217368;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110215824 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110215825-110216147 405;2466 K intron_retention CUFF.180 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 34;443 N jcn_only_AA CUFF.20 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 82;29 K jcn_only_AA CUFF.48 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 90;113 N alternative_donor CUFF.4 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 666;458 K alternative_first_exon CUFF.6 chr1 + chr1:10490626-10493898 chr1:10491459-10493898 chr1:10490061-10490625 chr1:10490851-10491458 467;787 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 37;101 K alternative_first_exon CUFF.110 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 chr1:153925742-153925845 368;264 N jcn_only_AD CUFF.41 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 666;28 N jcn_only_AD CUFF.135 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 448;126 K intron_retention CUFF.104 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 325;65 N jcn_only_AA CUFF.116 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 121;34 K intron_retention CUFF.27 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 345;566 N alternative_donor chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174128025-174129054 chr1:174129054-174129055 57;1865 K cassette CUFF.110 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 chr1:153920934-153921120;chr1:153921591-153921860 287;287 K jcn_only_AA CUFF.45 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 148;199 K alternative_first_exon CUFF.171 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401076 chr1:224397943-224398212 2542;661 K cassette CUFF.57 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 1590;709 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26230304 chr1:26219005-26219098 419;40 K intron_retention CUFF.97 chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 56;183 K alternative_last_exon CUFF.84 chr1 - chr1:106143382-106146784;chr1:106132408-106146784 chr1:106146181-106146784 chr1:106132302-106132407 chr1:106144755-106146180 256;6216 N mutually_exclusive CUFF.44 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 215;129 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 314;104 N alternative_acceptor CUFF.4 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 777;94 K alternative_first_exon CUFF.44 chr1 + chr1:32538700-32540551,chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551 chr1:32537632-32538053 chr1:32538450-32538652 236;1135 N cassette CUFF.86 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 10;1159 N jcn_only_AA CUFF.166 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 305;93 N alternative_acceptor CUFF.20 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 5158;177 N alternative_donor CUFF.84 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143891 chr1:106132408-106143252 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 3270;2961 N jcn_only_AD CUFF.116,CUFF.28 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 32;11 K intron_retention CUFF.110 chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 chr1:153925047-153925126;chr1:153925281-153925310 197;61 K cassette CUFF.151 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 40;330 K intron_retention CUFF.166 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 118;451 N alternative_donor CUFF.54,CUFF.88 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 94;228 N cassette CUFF.180 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 186;5008 K alternative_last_exon CUFF.153 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877291 855;117 N alternative_acceptor CUFF.4 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 731;66 N jcn_only_AA chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 102;56 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 26;73 N alternative_donor CUFF.49 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 48;368 N alternative_donor CUFF.41 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 343;1485 K intron_retention chr1 - chr1:114423763-114424394 chr1:114423762-114423763;chr1:114424394-114424395 240;21 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 8;180 K alternative_first_exon CUFF.110,CUFF.159 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207995549-207996083 chr1:207992307-207992491 147;107 N cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 25;2258 K cassette CUFF.163 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 169;701 N jcn_only_AA CUFF.20 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 103;8 N jcn_only_AD CUFF.188 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 238;31 K intron_retention CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 212;534 K jcn_only_AA CUFF.18 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 271;21 N jcn_only_AA CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 645;35 K cassette CUFF.68 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 100;245 N alternative_donor CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 351;131 N coord_cassette CUFF.135 chr1 + chr1:167353189-167365522 chr1:167353189-167356417;chr1:167356485-167358824;chr1:167358999-167365522 chr1:167356418-167356484;chr1:167358825-167358998 80;503 N alternative_donor CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 1121;503 K cassette CUFF.72 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 495;1110 N alternative_donor CUFF.57 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 245;92 K jcn_only_AA CUFF.122,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 212;402 N jcn_only_AA CUFF.114 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 10;74 N cassette CUFF.135 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 223;578 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 122;1784 N cassette CUFF.44 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 107;1035 N jcn_only_AD CUFF.49 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 48;56 N jcn_only_AD CUFF.114 chr1 - chr1:156449139-156449376;chr1:156449139-156449377 chr1:156449139-156450625 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 285;72 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 19;1035 N jcn_only_AD CUFF.69 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 312;6 K jcn_only_AD CUFF.86 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 146;916 K cassette CUFF.27 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 62;806 N alternative_donor CUFF.41 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 1603;225 K cassette CUFF.33 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 120;451 K intron_retention CUFF.34 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 209;1582 N jcn_only_AD CUFF.44 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 594;27 K cassette CUFF.174 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 49;353 K jcn_only_AA CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 130;1121 N alternative_donor CUFF.41 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 1710;118 N jcn_only_AA CUFF.4 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 777;94 K alternative_first_exon CUFF.172 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224370815-224371120;chr1:224363372-224363649 chr1:224371364-224371533 597;69 K alternative_first_exon CUFF.118,CUFF.13 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158582607-158582751 chr1:158581576-158581911 chr1:158580496-158581179 249;959 K alternative_first_exon CUFF.116 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933651 167;74 K jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 102;494 N cassette CUFF.110 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 chr1:153921591-153921860;chr1:153924494-153924738 88;1748 N alternative_donor CUFF.116,CUFF.28 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 32;69 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 122;85 N alternative_acceptor CUFF.68,CUFF.86 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 515;153 N jcn_only_AD CUFF.114 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 30;95 N intron_retention CUFF.116 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 72;30 N jcn_only_AD chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 78;59 K cassette CUFF.114 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 77;228 K intron_retention CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 1121;80 K alternative_donor CUFF.34 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 39;1338 K alternative_last_exon CUFF.86 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110215825-110216147;chr1:110251103-110252171 chr1:110224431-110224456 2765;106 K intron_retention CUFF.9 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 402;278 N alternative_donor chr1 - chr1:106132408-106145898;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106146784 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 6083;148 N alternative_donor CUFF.114 chr1 - chr1:156449139-156449377;chr1:156449139-156450625 chr1:156449139-156449376 chr1:156449377-156449377;chr1:156449378-156450625 chr1:156449377-156449378;chr1:156450625-156450626 844;7 N jcn_only_AA chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 67;676 K cassette CUFF.1119 chr9 - chr9:15214248-15225914 chr9:15214248-15224357;chr9:15224504-15225914 chr9:15224358-15224503 657;486 N cassette CUFF.1136 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 16;52 K cassette CUFF.1163 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 39;62 N alternative_donor CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 14;68 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 50;3366 K intron_retention CUFF.1200 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 chr9:139744465-139744589 775;140 K alternative_last_exon CUFF.1178 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125636065-125637647 737;4009 K alternative_last_exon CUFF.1157 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000273-100000367 908;59 N alternative_donor CUFF.1136 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 57;34 K alternative_last_exon CUFF.1185 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017544 chr9:131016288-131016441 3081;122 K jcn_only_AD CUFF.1148 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 13;14 N jcn_only_AD CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 90;360 N alternative_donor CUFF.1198 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 226;741 K cassette CUFF.1170 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 144;857 K alternative_donor CUFF.1168 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 143;568 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667713 chr9:125655188-125655305 75;501 N jcn_only_AD CUFF.1186 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 545;1370 K intron_retention CUFF.1186 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 537;96 N cassette CUFF.1188 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 155;2029 N cassette CUFF.1185 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 366;964 N coord_cassette CUFF.1186 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 89;3847 K cassette CUFF.1188 chr9 + chr9:133320383-133327610 chr9:133320383-133325658;chr9:133325721-133327610 chr9:133325659-133325720 92;1986 N alternative_donor chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 37;310 N intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 3360;198 K intron_retention CUFF.1186 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 2199;634 N alternative_donor CUFF.1175 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125027218-125028059 chr9:125027217-125027218 chr9:125033232-125033354;chr9:125026792-125027217 759;242 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 1997;1195 N jcn_only_AA CUFF.1192 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 27;14 N alternative_donor CUFF.1178 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 70;666 N alternative_donor CUFF.1178,CUFF.1192 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 55;40 N jcn_only_AD CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131009403-131009653 chr9:131008783-131009402 chr9:131008782-131008783 847;9 N jcn_only_AA CUFF.1136 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 149;62 N alternative_donor CUFF.1188 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 1323;593 K cassette CUFF.1152 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 36;706 K cassette CUFF.1175 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 chr9:125033232-125033354;chr9:125047448-125047566 36;4275 N jcn_only_AD CUFF.1159 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 279;12 K alternative_last_exon CUFF.1130 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35078100-35078340 104;1615 N jcn_only_AD CUFF.1186 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 1838;77 N intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 52;1059 K intron_retention CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 462;439 N alternative_acceptor CUFF.1170 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 26;846 N cassette CUFF.1139 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 54;50 K cassette CUFF.1148 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 89;243 K intron_retention CUFF.1185 chr9 + chr9:131010215-131010861 chr9:131010214-131010215;chr9:131010861-131010862 674;272 N jcn_only_AA CUFF.1185 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 266;67 N alternative_donor CUFF.1185 chr9 + chr9:130994404-130996299;chr9:130988453-130996299 chr9:130986669-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 482;451 N alternative_donor CUFF.1186 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 2171;513 N jcn_only_AD CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 89;26 N cassette CUFF.1186 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 115;2526 N intron_retention CUFF.1186 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 77;176 K alternative_first_exon CUFF.1198 chr9 + chr9:139784995-139793164;chr9:139780732-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139784801-139784994;chr9:139780485-139780731;chr9:139777119-139777162 chr9:139780903-139780993 915;71 N jcn_only_AD CUFF.1185 chr9 + chr9:130986669-130996299;chr9:130988453-130996299 chr9:130994404-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 717;52 K intron_retention CUFF.1118 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 192;11 N jcn_only_AD CUFF.1178 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 70;666 K alternative_donor CUFF.1170,CUFF.1186 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 322;433 N alternative_acceptor CUFF.1187 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 916;29 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 3693;50 K coord_cassette CUFF.1175 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 chr9:125047448-125047566;chr9:125054028-125054119 840;930 N jcn_only_AA CUFF.1187 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 449;219 N jcn_only_AA chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 92;108 K jcn_only_AD CUFF.1168 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 143;203 K intron_retention CUFF.1186 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 1370;209 N alternative_donor CUFF.1186 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 6665;50 K cassette CUFF.1131 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 20;744 N jcn_only_AA CUFF.1136 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 153;58 N cassette CUFF.1192 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 21;74 N jcn_only_AD CUFF.1185 chr9 + chr9:130994404-130996299;chr9:130986669-130996299 chr9:130988453-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 503;266 N jcn_only_AD CUFF.1148 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 389;27 K jcn_only_AA CUFF.1178 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 113;330 N jcn_only_AA CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 847;133 K intron_retention CUFF.1129 chr9 + chr9:34990810-34993196 chr9:34990809-34990810;chr9:34993196-34993197 78;101 K jcn_only_AD CUFF.1170,CUFF.1186 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 322;118 K mutually_exclusive CUFF.1129 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 163;876 N jcn_only_AD CUFF.1185 chr9 + chr9:130994404-130996299;chr9:130988453-130996299 chr9:130986669-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 318;451 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 3733;10 N jcn_only_AD CUFF.1186 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 1447;468 K intron_retention CUFF.1129 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 318;114 K jcn_only_AA CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 491;234 N jcn_only_AA CUFF.1186 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 316;3413 K intron_retention CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 491;428 N cassette CUFF.1136 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 65;137 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 3470;273 N alternative_acceptor CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 14;47 N alternative_donor CUFF.1185 chr9 + chr9:130986669-130996299;chr9:130988453-130996299 chr9:130994404-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 830;103 N jcn_only_AD CUFF.1119 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 102;142 N jcn_only_AD CUFF.1131 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 17;49 N alternative_acceptor CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 21;20 N intron_retention CUFF.1187 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 59;404 N jcn_only_AA CUFF.1119 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 65;624 K intron_retention CUFF.1128 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 39;192 N alternative_donor CUFF.1119 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 1635;5080 K alternative_last_exon CUFF.1170 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514246-123515589 chr9:123526445-123527125 984;1040 N alternative_acceptor CUFF.1187 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 667;278 N alternative_acceptor CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 90;254 N alternative_acceptor CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 462;60 K alternative_acceptor CUFF.1166 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 305;51 N alternative_acceptor CUFF.1185 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 266;830 N jcn_only_AA CUFF.1119 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 641;48 N intron_retention chr9 - chr9:130948009-130952997 chr9:130948008-130948009;chr9:130952997-130952998 3;1222 K alternative_last_exon CUFF.1177 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906340-124906657 1939;146 K cassette CUFF.1166 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 320;194 N alternative_acceptor chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 92;1245 K alternative_last_exon CUFF.1166 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 356;45 N alternative_donor CUFF.1185 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 772;404 K jcn_only_AA CUFF.1166 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 353;103 K cassette CUFF.1200 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 chr9:139744465-139744589;chr9:139745207-139745335 1179;1711 N mutually_exclusive CUFF.1186 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 147;58 N intron_retention CUFF.1200 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 chr9:139744465-139744589 60;144 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 383;3360 N jcn_only_AA CUFF.1178 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 29;320 K intron_retention CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 137;366 N jcn_only_AD chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 37;259 N alternative_donor CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 89;1059 N alternative_donor CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131009403-131009653 chr9:131008783-131009402 chr9:131008782-131008783 847;123 N alternative_acceptor CUFF.1187 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 307;638 K alternative_last_exon CUFF.1136 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43822518-43822779 chr9:43819610-43821366 150;1648 K jcn_only_AA CUFF.1166 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 305;51 N alternative_acceptor CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 847;245 N jcn_only_AA chr9 + chr9:43853617-43854068;chr9:43853617-43861005 chr9:43853617-43861002 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 120;91 N jcn_only_AA CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 90;221 N jcn_only_AA CUFF.1185 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 314;426 K intron_retention CUFF.1178 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 267;300 N alternative_donor CUFF.1186 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 5130;1585 K alternative_first_exon CUFF.1198 chr9 + chr9:139780994-139793164;chr9:139780732-139793164;chr9:139777163-139793164 chr9:139784995-139793164 chr9:139780903-139780993;chr9:139780485-139780731;chr9:139777119-139777162 chr9:139784801-139784994 714;272 N jcn_only_AA CUFF.1170 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 26;322 N jcn_only_AD CUFF.1178,CUFF.1192 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 55;19 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 245;876 N jcn_only_AA CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 14;46 N alternative_donor CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 491;93 K jcn_only_AD CUFF.1130 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 71;317 K intron_retention CUFF.1187 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 33;423 N alternative_acceptor CUFF.1136 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 349;58 K cassette CUFF.1193 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 11;99 N cassette CUFF.1159 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 5;12 K intron_retention CUFF.1130 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 457;4129 N intron_retention chr9 - chr9:130948015-130953003 chr9:130948014-130948015;chr9:130953003-130953004 3;1184 K mutually_exclusive CUFF.1160 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 169;113 N alternative_acceptor CUFF.1192 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 27;14 N intron_retention chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 26;607 N intron_retention chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 393;186 K intron_retention CUFF.1175 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 chr9:125047448-125047566 292;213 K intron_retention CUFF.1186 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 468;502 K alternative_last_exon CUFF.1152 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592055 765;226 N alternative_donor CUFF.1198 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 941;26 N alternative_acceptor CUFF.1185 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 314;624 K alternative_last_exon CUFF.1129,CUFF.1152 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600587 49;90 N jcn_only_AD CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 491;59 K cassette CUFF.1166 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 15;846 N alternative_donor CUFF.1185 chr9 + chr9:130994404-130996299;chr9:130986669-130996299 chr9:130988453-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 554;379 N cassette CUFF.1131 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 85;779 N alternative_donor CUFF.1159 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 279;44 N jcn_only_AD CUFF.1170 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 17;971 N cassette CUFF.1131 chr9 + chr9:35259048-35295692 chr9:35259048-35291065;chr9:35291102-35295692 chr9:35291066-35291101 31;51 N alternative_acceptor chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 67;1545 K mutually_exclusive CUFF.1129 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990495,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990496-34990608 163;502 N jcn_only_AA CUFF.1187 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 639;29 N alternative_donor CUFF.1186 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 981;1703 N alternative_donor CUFF.1131 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 17;137 N jcn_only_AD CUFF.1136 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 57;17 K alternative_first_exon CUFF.1198 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780732-139793164 chr9:139780903-139780993;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780485-139780731 585;401 N alternative_acceptor chr9 + chr9:43853617-43854068;chr9:43853617-43861005 chr9:43853617-43861002 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 316;91 N jcn_only_AD CUFF.1198 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 46;741 N alternative_donor CUFF.1186 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 2216;468 K intron_retention CUFF.1140 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 49;150 K jcn_only_AD CUFF.1119,CUFF.1158 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 34;57 K intron_retention CUFF.1130 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 167;93 N alternative_donor CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 90;393 N jcn_only_AA CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 906;63 N alternative_acceptor CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 906;133 N cassette CUFF.1175 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 chr9:125047448-125047566 124;709 K alternative_acceptor CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 491;832 N cassette CUFF.1186 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 169;2841 K intron_retention CUFF.1188 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 92;127 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 161;1560 N jcn_only_AA chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 chr9:125033232-125033354 41;35 K intron_retention CUFF.1130 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 266;1720 N jcn_only_AA CUFF.1119 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 672;17 K intron_retention CUFF.1175 chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 85;193 N jcn_only_AA CUFF.1187 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 248;420 N cassette CUFF.1186 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 27;6177 K alternative_first_exon CUFF.1119 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15267912-15267946 chr9:15232230-15232565 624;662 N jcn_only_AA CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 462;22 K alternative_first_exon CUFF.1188 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351721-133351776 1235;41 N jcn_only_AD CUFF.1188 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 1323;494 K intron_retention CUFF.1170 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 148;377 K alternative_acceptor CUFF.1166 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 353;271 N jcn_only_AD CUFF.1186 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 192;52 N coord_cassette CUFF.1148 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 24;82 K cassette CUFF.1194 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 99;331 N alternative_donor CUFF.1198 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 767;200 N jcn_only_AD CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 906;60 K intron_retention CUFF.1187 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 234;49 K alternative_first_exon CUFF.1144 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161598 chr9:71160845-71161126 83;149 N cassette CUFF.1198 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 121;275 K cassette CUFF.1166 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 382;33 N jcn_only_AD CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 21;23 K intron_retention CUFF.1198 chr9 + chr9:139794973-139802521 chr9:139794972-139794973;chr9:139802521-139802522 741;20 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 26;180 N jcn_only_AD CUFF.1185 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 772;145 K intron_retention CUFF.1178 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 171;202 K cassette CUFF.1160 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 136;34 K intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 142;507 N jcn_only_AD CUFF.1186 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 194;50 N jcn_only_AD CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 14;30 K jcn_only_AA CUFF.1192 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 70;667 N jcn_only_AD chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 3693;50 K intron_retention CUFF.1136 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 24;161 K jcn_only_AD CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 137;148 N jcn_only_AD CUFF.1198 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 758;29 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 10;158 K alternative_first_exon CUFF.1198 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139780732-139793164 chr9:139777163-139793164 chr9:139780903-139780993;chr9:139784801-139784994;chr9:139780485-139780731 chr9:139777119-139777162 744;242 N cassette CUFF.1175 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 chr9:125047448-125047566;chr9:125054028-125054119 840;474 K alternative_acceptor CUFF.1178 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 113;337 N jcn_only_AA CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 21;20 N jcn_only_AD CUFF.1175 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125027218-125028059 chr9:125027217-125027218 chr9:125033232-125033354;chr9:125026792-125027217 759;41 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 245;163 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990495;chr9:34990609-34993196 chr9:34990496-34990608 245;502 K alternative_donor CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 137;307 K alternative_last_exon CUFF.1148 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506210-86506416 chr9:86513565-86513863 71;231 N alternative_donor CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 21;23 K cassette CUFF.1119 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 250;1264 N cassette CUFF.1175 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 chr9:125054028-125054119;chr9:125084819-125085779 129;2716 N alternative_acceptor CUFF.1186 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 316;3441 N alternative_donor CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 906;60 K cassette CUFF.1175 chr9 + chr9:125027218-125033142 chr9:125027218-125027740;chr9:125027825-125033142 chr9:125027741-125027824 chr9:125026792-125027217 677;236 N alternative_acceptor CUFF.1136 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 149;258 N coord_cassette CUFF.1136 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 40;155 N jcn_only_AD CUFF.1198 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 770;17 K intron_retention CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 89;119 N alternative_acceptor chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 chr9:125033232-125033354 41;731 K intron_retention CUFF.1200 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 chr9:139743084-139743232;chr9:139743563-139744042 210;585 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 48;1355 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81130703 chr8:80976829-81083255 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1178;13 N jcn_only_AD CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75263702-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 535;25 N alternative_first_exon CUFF.1098 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542531-118543066 101;445 N alternative_donor CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75263702-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75233481-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 1288;117 K jcn_only_AA CUFF.1060,CUFF.1089 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 187;77 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 31;134 K alternative_donor CUFF.1082 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 426;649 K cassette CUFF.1082 chr8 - chr8:80963864-80965516 chr8:80963864-80964840;chr8:80964911-80965516 chr8:80964841-80964910 1291;1116 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 82;133 K alternative_last_exon CUFF.1060 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27528460 41;16 N cassette CUFF.1082 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 31;1926 N alternative_acceptor CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56652778-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 5982;370 K intron_retention CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 222;115 N alternative_acceptor CUFF.1074,CUFF.1102 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 89;366 N jcn_only_AD chr8 - chr8:99055004-99057574;chr8:99055004-99057054 chr8:99055004-99057170 133;282 N alternative_donor chr8 - chr8:56652778-56657619;chr8:56652778-56656039 chr8:56652778-56663522 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 1254;82 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81130703 chr8:80976829-81083255 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5498;22 N alternative_acceptor CUFF.1090 chr8 - chr8:99054947-99057170;chr8:99055004-99057170 chr8:99037967-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 947;34 N mutually_exclusive CUFF.1082 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 286;48 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255 chr8:80976829-81130703 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5467;53 K intron_retention CUFF.1056 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 279;87 N jcn_only_AA CUFF.1071 chr8 - chr8:56663717-56675193 chr8:56668971-56675193 chr8:56663717-56668970 chr8:56663716-56663717 157;722 N jcn_only_AA CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 217;47 K intron_retention CUFF.1059 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 381;172 K alternative_acceptor CUFF.1060,CUFF.1089 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 187;77 N intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 52;132 K jcn_only_AA CUFF.1056 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 86;174 N jcn_only_AA CUFF.1059 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 88;131 N jcn_only_AA CUFF.1071 chr8 - chr8:56652778-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56657681-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 2740;491 N alternative_last_exon chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74895019 chr8:74891314-74891406 70;635 N jcn_only_AD CUFF.1064 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10587706-10683661 chr8:10683661-10683662 22;259 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 82;1385 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81070671 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5398;122 K cassette CUFF.1104 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 40;1267 N jcn_only_AD CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371;chr8:75262814-75272371 chr8:75263557-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 366;194 N jcn_only_AA CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56637819-56663522 chr8:56656180-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 2961;270 K cassette CUFF.1101 chr8 - chr8:120807872-120809901 chr8:120807872-120809229;chr8:120809344-120809901 chr8:120809230-120809343 666;16 N cassette CUFF.1071 chr8 - chr8:56668971-56676494 chr8:56668971-56675193;chr8:56675588-56676494 chr8:56675194-56675587 99;5333 N jcn_only_AD CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 195;64 K jcn_only_AD CUFF.1082,CUFF.1104 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 71;333 N alternative_acceptor CUFF.1059 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 900;208 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357364 chr8:144356973-144357147 797;82 N jcn_only_AD CUFF.1104 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 133;86 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 157;1351 K cassette CUFF.1065 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 236;89 N alternative_donor CUFF.1116 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 9;82 K coord_cassette CUFF.1092 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 42;151 N cassette CUFF.1092 chr8 + chr8:106370866-106431371 chr8:106370866-106427102;chr8:106427235-106431371 chr8:106427103-106427234 25;261 N alternative_acceptor CUFF.1047 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 20;30 N jcn_only_AD CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371;chr8:75263557-75272371 chr8:75262814-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 501;59 N alternative_acceptor chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 50;1869 K cassette CUFF.1101 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 21;274 N alternative_donor CUFF.1083 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 253;180 N alternative_acceptor CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56637819-56663522 chr8:56656180-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 5076;1276 N jcn_only_AD CUFF.1071 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 425;550 N jcn_only_AA CUFF.1111 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 550;75 N alternative_donor CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75263702-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 1169;236 N jcn_only_AD chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 270;181 K jcn_only_AD CUFF.1082 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 426;485 N coord_cassette CUFF.1094 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 87;704 N intron_retention chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 51;1001 N cassette CUFF.1094 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 101;326 N jcn_only_AA chr8 - chr8:56663717-56668802 chr8:56664106-56668802 943;315 N jcn_only_AD CUFF.1077 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 388;14 N alternative_donor CUFF.1064 chr8 - chr8:30657272-30667505;chr8:30657272-30671402 chr8:30657272-30669835 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 2736;674 N alternative_donor CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 217;63 K intron_retention chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 49;226 N alternative_acceptor CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 217;106 K intron_retention CUFF.1056 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 303;67 N jcn_only_AD CUFF.1111 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 497;46 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81083659 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5399;121 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 211;363 K alternative_first_exon CUFF.1064 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648831 chr8:30643948-30644093 1671;1249 N jcn_only_AD chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 178;362 N alternative_donor CUFF.1077 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 548;170 N alternative_donor CUFF.1094 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 668;126 N alternative_donor CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 195;93 N alternative_acceptor CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 897;656 N jcn_only_AD CUFF.1092 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 155;8 N alternative_last_exon CUFF.1112 chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552501 chr8:118542962-118543066 59;55 K alternative_donor CUFF.1082,CUFF.1104 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 71;942 K intron_retention CUFF.1090 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 1345;114 N alternative_donor chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 270;794 N alternative_acceptor CUFF.1090 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 82;9193 K jcn_only_AD CUFF.1054 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 48;206 K cassette CUFF.1085 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 17;500 K alternative_first_exon CUFF.1065 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008916 chr8:38006594-38006724 372;133 N alternative_acceptor CUFF.1059 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 899;209 N jcn_only_AA CUFF.1074,CUFF.1102 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 89;123 N jcn_only_AA CUFF.1090 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 297;282 N jcn_only_AA chr8 + chr8:144356973-144358066;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358172 831;48 N jcn_only_AD chr8 - chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-80992549 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 398;793 N jcn_only_AD chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 706;269 N jcn_only_AA CUFF.1059 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 374;55 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 298;461 N alternative_acceptor CUFF.1074,CUFF.1116 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 32;95 K intron_retention CUFF.1065 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 82;75 K jcn_only_AA CUFF.1074 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 138;80 K alternative_first_exon CUFF.1094 chr8 + chr8:107670414-107691437,chr8:107630412-107691437,chr8:107670314-107691437;chr8:107531368-107691437 chr8:107593480-107691437 chr8:107531171-107531367 chr8:107593127-107593479 337;1508 N jcn_only_AD CUFF.1064 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 878;550 K jcn_only_AA CUFF.1061 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 169;71 N cassette CUFF.1059 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 51;626 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 30;536 N alternative_donor chr8 - chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-80992549 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 631;4889 N jcn_only_AA CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56652778-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 3149;82 N alternative_acceptor CUFF.1090 chr8 - chr8:99055004-99057170;chr8:99037967-99057170 chr8:99054947-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 628;353 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 263;1267 K alternative_last_exon CUFF.1112 chr8 + chr8:144351691-144356889;chr8:144351691-144356873 chr8:144351691-144354565 chr8:144356874-144357816 chr8:144354566-144354644 7216;181 K alternative_acceptor CUFF.1074 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 138;93 N alternative_donor chr8 - chr8:30657272-30667505;chr8:30657272-30669835 chr8:30657272-30671402 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 2878;532 K alternative_acceptor CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 222;155 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81083441 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1139;52 N alternative_donor CUFF.1071 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 931;550 N jcn_only_AD CUFF.1064 chr8 - chr8:30657272-30667505;chr8:30657272-30671402 chr8:30657272-30669835 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 1082;346 K alternative_acceptor CUFF.1056 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 86;213 N cassette CUFF.1071 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 211;649 K alternative_first_exon CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888392-74888726 1225;2446 N intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 208;1654 N jcn_only_AD CUFF.1073 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69224379-69243541 chr8:69243541-69243542 73;40 N alternative_acceptor CUFF.1071 chr8 - chr8:56663717-56675193 chr8:56668971-56675193 chr8:56663717-56668970 chr8:56663716-56663717 157;3066 K jcn_only_AA CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 222;82 N jcn_only_AD chr8 - chr8:30657272-30667505;chr8:30657272-30669835 chr8:30657272-30671402 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 896;532 N intron_retention CUFF.1082 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 86;193 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 82;1493 N jcn_only_AA CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 195;36 N alternative_donor CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371;chr8:75262814-75272371 chr8:75263557-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 741;664 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81032049 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1061;130 N jcn_only_AD CUFF.1094 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 57;19 N jcn_only_AD CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 217;5 N jcn_only_AD CUFF.1101 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 9;71 N cassette CUFF.1082 chr8 - chr8:80956444-80963761 chr8:80956444-80962580;chr8:80962707-80963761 chr8:80962581-80962706 27;1802 K intron_retention CUFF.1065 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 47;105 K alternative_last_exon CUFF.1094 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107691438-107691520 chr8:107617010-107617438 540;1291 K intron_retention CUFF.1064 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 170;510 N cassette CUFF.1078 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 152;1207 N jcn_only_AA CUFF.1059 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 221;208 N jcn_only_AA CUFF.1074,CUFF.1116 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 32;47 N jcn_only_AA CUFF.1090 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 82;1345 K jcn_only_AD CUFF.1114 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 73;226 N jcn_only_AA CUFF.1059 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 263;166 N intron_retention CUFF.1071 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 88;196 K alternative_first_exon CUFF.1094 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726051-107726213 chr8:107738243-107738485 143;366 K alternative_last_exon CUFF.1078 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401107 chr8:75276220-75276525 469;2014 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255 chr8:80976829-81130703 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1138;53 N alternative_donor CUFF.1064 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10587706-10683661 chr8:10683661-10683662 22;981 N cassette CUFF.1082 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 892;1110 N alternative_donor CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371;chr8:75263557-75272371 chr8:75262814-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 1202;203 N jcn_only_AA CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 897;39 N cassette CUFF.1056 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 5;725 K intron_retention CUFF.1065 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 42;128 K alternative_first_exon CUFF.1114 chr8 + chr8:144374455-144375141;chr8:144373029-144375141 chr8:144373781-144375141,chr8:144373938-144375141 chr8:144372915-144373028 chr8:144373065-144373780 206;1064 N cassette CUFF.1082 chr8 - chr8:80956444-80963761;chr8:80954904-80963761;chr8:80954904-80963486 chr8:80954904-80962679,chr8:80956444-80962679;chr8:80962707-80963486,chr8:80962707-80963761 chr8:80962680-80962706 967;1685 N alternative_acceptor CUFF.1071 chr8 - chr8:56652778-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56657681-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 4034;2318 K intron_retention CUFF.1082 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 806;80 N jcn_only_AD CUFF.1078 chr8 + chr8:75233481-75272371;chr8:75263702-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75233824-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 395;165 N intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 541;923 N alternative_acceptor CUFF.1094 chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 54;1860 N jcn_only_AA CUFF.1094 chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 54;323 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 1385;96 N jcn_only_AD CUFF.1071 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 819;156 K intron_retention CUFF.1065 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 236;111 N alternative_donor CUFF.1094 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 57;47 N jcn_only_AD chr8 - chr8:99055004-99057170;chr8:99055004-99057054 chr8:99055004-99057574 333;82 N alternative_donor chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 1098;383 N intron_retention chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 90;854 N jcn_only_AD CUFF.1077 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 351;51 N jcn_only_AD CUFF.1078 chr8 + chr8:75233824-75272371;chr8:75263702-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75233481-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 443;117 N jcn_only_AA CUFF.1090 chr8 - chr8:99054947-99057170;chr8:99055004-99057170 chr8:99037967-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 545;34 N jcn_only_AD CUFF.1094 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 668;110 N alternative_donor CUFF.1104 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 133;1101 N alternative_donor CUFF.1101 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 9;170 N alternative_acceptor CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 195;72 N intron_retention chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 491;223 N alternative_donor CUFF.1071 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 933;548 N jcn_only_AA CUFF.1089,CUFF.1114 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 226;35 N jcn_only_AA chr8 - chr8:56652778-56657619 chr8:56656180-56657619 96;181 N alternative_donor CUFF.1092 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 155;9 N alternative_acceptor CUFF.1111 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 550;312 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 82;1577 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81083441 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5437;83 N jcn_only_AD CUFF.1083 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 253;41 K alternative_donor CUFF.1114 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 73;657 N alternative_donor chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 307;1029 K jcn_only_AA CUFF.1074 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 188;616 K alternative_first_exon CUFF.1056,CUFF.1087 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085486 chr8:96084945-96085148 168;19 N alternative_acceptor CUFF.1090 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 387;594 N alternative_donor chr8 - chr8:56652778-56663522;chr8:56652778-56656039 chr8:56652778-56657619 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 1111;225 N alternative_donor CUFF.1078 chr8 + chr8:75233481-75272371;chr8:75263702-75272371;chr8:75263557-75272371;chr8:75262814-75272371 chr8:75233824-75272371 chr8:75233481-75233823;chr8:75233824-75262813;chr8:75262814-75263556;chr8:75263557-75263701 chr8:75233480-75233481;chr8:75233823-75233824;chr8:75262813-75262814;chr8:75263556-75263557 1220;185 N jcn_only_AD chr8 - chr8:56652778-56657619;chr8:56652778-56656039 chr8:56652778-56663522 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 458;82 N jcn_only_AD CUFF.1077 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 65;337 N jcn_only_AD CUFF.1065 chr8 - chr8:99055004-99057170;chr8:99055004-99057574 chr8:99055004-99057054 364;51 N alternative_donor CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81083659;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81032049 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 5290;230 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357147 chr8:144356973-144357364 671;208 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81070671;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81083659 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1109;82 N alternative_donor CUFF.1064 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30667506-30669835;chr8:30669836-30671402 chr8:30669835-30669836;chr8:30671402-30671403 1206;2204 N alternative_acceptor CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56656180-56663522 chr8:56637819-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 3964;2388 N jcn_only_AA CUFF.1090 chr8 - chr8:99055004-99057170;chr8:99037967-99057170 chr8:99054947-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 316;263 K jcn_only_AA CUFF.1102 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 100;77 N alternative_acceptor CUFF.1089,CUFF.1114 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 226;49 N jcn_only_AD CUFF.1116 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 9;58 N alternative_donor CUFF.1073 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69224379-69243541 chr8:69243541-69243542 73;61 N jcn_only_AA chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 50;405 N jcn_only_AD chr8 - chr8:56652778-56663522;chr8:56652778-56656039 chr8:56652778-56657619 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 444;96 K cassette CUFF.1114 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 313;150 K cassette CUFF.1059 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 262;417 N jcn_only_AD CUFF.1077 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 548;27 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 722;462 N intron_retention chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 82;165 N jcn_only_AA CUFF.1071 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56656180-56663522 chr8:56637819-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 843;2388 K intron_retention CUFF.1091 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 428;185 N cassette CUFF.1112 chr8 + chr8:144349655-144356873 chr8:144349655-144351529;chr8:144351691-144356873 chr8:144351530-144351690 48;2346 K alternative_first_exon CUFF.1061,CUFF.1087 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605704 chr8:29592687-29592739 127;164 N jcn_only_AD CUFF.1082 chr8 - chr8:80976829-80992549;chr8:80976829-81032049;chr8:80976829-81083659;chr8:80976829-81083441;chr8:80976829-81083255;chr8:80976829-81130703 chr8:80976829-81070671 chr8:80992550-81032049;chr8:81032050-81070671;chr8:81070672-81083255;chr8:81083256-81083441;chr8:81083442-81083659;chr8:81083660-81130703 chr8:81032049-81032050;chr8:81070671-81070672;chr8:81083255-81083256;chr8:81083441-81083442;chr8:81083659-81083660;chr8:81130703-81130704 1123;68 N cassette CUFF.1094 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 87;680 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358066 338;541 N alternative_donor CUFF.1111 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 497;65 K intron_retention CUFF.1082 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 1291;275 N jcn_only_AA CUFF.1047 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 20;30 N alternative_acceptor CUFF.1059 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 417;691 N intron_retention chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 282;1179 K alternative_donor CUFF.1054 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 48;206 K alternative_first_exon CUFF.1061,CUFF.1110 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855379 184;1232 K alternative_last_exon CUFF.1082 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80947834-80950470 561;14501