#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 44;145 N jcn_only_AD CUFF.1571 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 9;75 K jcn_only_AD CUFF.1548 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 359;102 K alternative_last_exon CUFF.1571 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131799-101132017 154;188 K jcn_only_AA CUFF.1548,CUFF.1562 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 359;87 K alternative_first_exon CUFF.1573 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 289;458 K intron_retention CUFF.1573 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 9;83 K jcn_only_AA CUFF.1570 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 59;33 N cassette CUFF.1548 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 85;264 N alternative_donor CUFF.1558 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 9;104 N alternative_donor CUFF.1573 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 19;4 N alternative_acceptor CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 65;21 K jcn_only_AD CUFF.1568,CUFF.1570 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 9;37 N alternative_donor CUFF.1558 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 146;13 K alternative_acceptor CUFF.1570 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 59;24 N jcn_only_AD CUFF.1573 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 19;15 K alternative_donor CUFF.1568,CUFF.1570 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 9;41 N jcn_only_AA CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 65;48 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 15;521 K alternative_donor CUFF.1570 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 6;58 N alternative_acceptor chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 39;127 K jcn_only_AA CUFF.1556 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 285;58 K jcn_only_AA CUFF.1556 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 21;195 K intron_retention CUFF.1548 chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 11;18 N alternative_donor CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 65;1 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 15;2 N jcn_only_AD CUFF.1558 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 9;160 K jcn_only_AA CUFF.1556 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 18;417 K intron_retention CUFF.1548 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 332;23 N coord_cassette CUFF.1548 chr13 + chr13:21141396-21148518 chr13:21141396-21141808;chr13:21141925-21142023;chr13:21142137-21148518 chr13:21141809-21141924;chr13:21142024-21142136 31;20 N alternative_acceptor CUFF.1554 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 10;82 K alternative_first_exon CUFF.1570 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97647081 chr13:97646552-97646811 26;49 K alternative_last_exon CUFF.1573 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511288 4;45 K jcn_only_AA CUFF.1568 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 17;19 N jcn_only_AD CUFF.1558 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 146;10 N jcn_only_AD CUFF.1548 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 65;28 N jcn_only_AA CUFF.1554 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 10;174 K alternative_first_exon CUFF.1556 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542719 chr13:25541530-25541657 258;12 K jcn_only_AD CUFF.1570 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 6;92 N alternative_donor CUFF.1570 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133234-101133373 chr13:101133373-101133374 44;59 K cassette CUFF.1557 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 14;4 K jcn_only_AA CUFF.1562 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 16;57 K alternative_acceptor CUFF.1568 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 17;57 N cassette CUFF.1548 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 16;31 K alternative_first_exon CUFF.1568,CUFF.1572 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054195 chr13:102568803-102569074 chr13:102527536-102527646 11;21 N alternative_donor CUFF.1571 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 9;101 K intron_retention CUFF.1568 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 9;9 N jcn_only_AA chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 39;56 N jcn_only_AA CUFF.1477 chr12 - chr12:48272899-48298737;chr12:48276558-48298737 chr12:48293742-48298737 538;93 N jcn_only_AD CUFF.1532 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 136;10 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 23;4 N coord_cassette CUFF.1462 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 26;181 N cassette CUFF.1450 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 40;162 K cassette CUFF.1544 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 91;126 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 11;774 K jcn_only_AA CUFF.1462,CUFF.1500 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 23;42 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 42;3 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 256;15 K intron_retention CUFF.1518 chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 24;827 K cassette CUFF.1513 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 41;195 K coord_cassette CUFF.1467 chr12 - chr12:25702481-25801427 chr12:25702481-25710172;chr12:25710304-25735355;chr12:25735398-25801427 chr12:25710173-25710303;chr12:25735356-25735397 57;29 N jcn_only_AA CUFF.1436 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 802;181 N jcn_only_AA chr12 - chr12:48272899-48293619 chr12:48276558-48293619 11;57 K intron_retention CUFF.1518 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 21;864 N alternative_donor CUFF.1521 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 86;75 N jcn_only_AD CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 566;17 K intron_retention CUFF.1513 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 126;178 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 64;246 N alternative_donor chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 26;32 K cassette CUFF.1513 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 35;261 K intron_retention CUFF.1450 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 386;18 K jcn_only_AA CUFF.1544 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 63;2 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 695;176 K jcn_only_AA CUFF.1542 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 39;47 N jcn_only_AD CUFF.1462 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 121;176 N intron_retention chr12 - chr12:52407560-52407655 chr12:52407559-52407560;chr12:52407655-52407656 9;147 K intron_retention CUFF.1532 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 32;27 K cassette CUFF.1485 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 76;242 N intron_retention chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 68;108 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 603;99 K cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 64;156 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 56;122 K intron_retention CUFF.1455 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 998;107 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 77;272 N cassette CUFF.1544 chr12 - chr12:120204987-120210573 chr12:120204987-120208588;chr12:120208715-120210573 chr12:120208589-120208714 4;20 N alternative_donor CUFF.1500 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 611;88 N coord_cassette CUFF.1521 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 51;129 N jcn_only_AD CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 23;11 K intron_retention CUFF.1528 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 826;23 K alternative_first_exon CUFF.1467 chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 51;131 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 54;75 N alternative_first_exon CUFF.1469 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205425-26205929 63;161 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 35;35 N cassette CUFF.1467 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 21;125 N jcn_only_AD CUFF.1480,CUFF.1531 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 90;42 K intron_retention CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 666;284 N alternative_donor CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 23;8 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 220;281 K jcn_only_AA CUFF.1467 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 47;111 N coord_cassette CUFF.1471 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 22;249 N jcn_only_AA chr12 + chr12:57854339-57858455 chr12:57854339-57857447 34;18 K jcn_only_AA CUFF.1544 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 127;210 N alternative_donor chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 193;27 N jcn_only_AA chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 196;16 K jcn_only_AD CUFF.1477 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 540;137 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 172;44 K jcn_only_AA CUFF.1469 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 114;49 N jcn_only_AD CUFF.1500 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 611;53 N jcn_only_AD CUFF.1466 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 238;79 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 16;50 N jcn_only_AD chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 165;79 N alternative_donor CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 566;9 K alternative_first_exon CUFF.1516 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853825-57853984 chr12:57854200-57854338 18;13 N alternative_donor CUFF.1480,CUFF.1531 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 90;6 N alternative_donor CUFF.1466 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 238;50 N cassette CUFF.1436 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 66;355 N alternative_donor CUFF.1532 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 136;4 K alternative_first_exon CUFF.1444 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444657-4444817 50;56 N jcn_only_AD CUFF.1436,CUFF.1450 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 203;34 N jcn_only_AD CUFF.1437 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 183;273 K intron_retention CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 31;494 N jcn_only_AD CUFF.1462 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 260;36 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 23;22 N intron_retention CUFF.1436 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 54;731 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 56;246 N jcn_only_AD CUFF.1437 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 374;82 K jcn_only_AD CUFF.1531 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 408;572 N alternative_acceptor CUFF.1436 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 351;20 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 193;4 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 21;31 K alternative_donor CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 334;661 K intron_retention CUFF.1513 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 29;83 K cassette CUFF.1450 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 127;38 N jcn_only_AD CUFF.1466 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 75;12 K jcn_only_AA CUFF.1500 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 293;471 N cassette CUFF.1480 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48398019 chr12:48393702-48393908 24;80 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 196;75 N cassette CUFF.1455 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 79;1094 K cassette CUFF.1451 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 31;23 N jcn_only_AD CUFF.1544 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 110;26 K intron_retention CUFF.1455 chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 252;252 N alternative_acceptor CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 217;4 N coord_cassette CUFF.1455 chr12 + chr12:13349807-13366614 chr12:13349807-13364402;chr12:13364523-13366412;chr12:13366510-13366614 chr12:13364403-13364522;chr12:13366413-13366509 11;1033 N cassette CUFF.1466 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 35;175 K alternative_acceptor CUFF.1469 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 114;50 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 115;97 N cassette CUFF.1485 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 22;135 N alternative_acceptor chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 71;31 K intron_retention chr12 - chr12:56709027-56709604 chr12:56709026-56709027;chr12:56709604-56709605 457;8 N mutually_exclusive CUFF.1450 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 64;115 K intron_retention CUFF.1521 chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 54;124 N coord_cassette CUFF.1485 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 22;176 N intron_retention chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 97;252 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 337;12 N intron_retention CUFF.1531 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 17;6 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 84;325 K alternative_donor CUFF.1531 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 408;309 N cassette CUFF.1443 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 948;169 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 31;228 K alternative_last_exon CUFF.1453 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743304 chr12:11716635-11717337 117;42 K alternative_acceptor CUFF.1544 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 63;13 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 786;85 N jcn_only_AD chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 26;52 K alternative_donor CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 348;161 K intron_retention CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 334;265 N alternative_donor CUFF.1455 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 1722;3 K intron_retention CUFF.1518 chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 553;846 N alternative_first_exon CUFF.1516 chr12 + chr12:57857875-57858455;chr12:57853985-57858455 chr12:57854339-57858455 chr12:57853825-57853984 chr12:57854200-57854338 104;23 N cassette CUFF.1521 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 195;197 K intron_retention CUFF.1500 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 448;197 N jcn_only_AD chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 21;7 K jcn_only_AD CUFF.1528 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 334;826 K jcn_only_AD CUFF.1547 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 18;358 N jcn_only_AD CUFF.1521 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 86;314 K intron_retention CUFF.1544 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 437;46 K intron_retention CUFF.1491 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 388;140 N jcn_only_AA CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 566;24 N cassette CUFF.1518 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 44;1233 N cassette CUFF.1493 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 64;9 K intron_retention CUFF.1453 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 44;34 N jcn_only_AD CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 217;16 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 488;90 N cassette CUFF.1521 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 80;261 K intron_retention CUFF.1513 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 326;91 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 172;25 N alternative_acceptor CUFF.1469,CUFF.1516 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 45;11 N alternative_acceptor CUFF.1436 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 802;96 N jcn_only_AD CUFF.1455 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 1722;7 N alternative_donor CUFF.1541 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 86;298 N coord_cassette CUFF.1521 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 315;109 N intron_retention CUFF.1544 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 26;67 K cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 64;139 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 16;112 N alternative_donor CUFF.1444 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 92;5 K cassette CUFF.1471 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 102;238 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 327;22 K alternative_acceptor CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 666;207 N coord_cassette CUFF.1500 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 94;236 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 324;611 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 122;457 N intron_retention CUFF.1436 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 51;59 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 547;31 N jcn_only_AD CUFF.1437 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 356;101 N jcn_only_AA CUFF.1469 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 48;1469 N alternative_donor CUFF.1436 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 170;34 K intron_retention CUFF.1477 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 379;9 N coord_cassette CUFF.1521 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 54;48 K alternative_donor CUFF.1547 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 18;177 N jcn_only_AA CUFF.1436 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 177;21 N jcn_only_AA chr12 + chr12:21229508-21242846 chr12:21229508-21242844 2;2 N alternative_donor CUFF.1518 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 21;56 N cassette CUFF.1521 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 177;404 K alternative_first_exon CUFF.1491 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404237-52404346 73;218 K intron_retention chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 691;42 K intron_retention CUFF.1452 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 203;65 K alternative_donor CUFF.1477 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 540;129 K intron_retention CUFF.1450 chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 129;11 K intron_retention CUFF.1513 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 74;147 N jcn_only_AD chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 60;177 K alternative_acceptor CUFF.1544 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 50;29 K cassette CUFF.1467 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 15;45 N alternative_donor CUFF.1462 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 18;0 K cassette CUFF.1513 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 410;106 N alternative_first_exon CUFF.1469 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164622-26164754 35;231 K alternative_last_exon CUFF.1469,CUFF.1516 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26221674 20;151 K cassette CUFF.1513 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 198;79 N alternative_acceptor CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 566;13 N jcn_only_AD CUFF.1436 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 170;54 N alternative_acceptor CUFF.1444,CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 88;2 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 12;15 N cassette CUFF.1443 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 940;741 K coord_cassette CUFF.1450 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 123;204 K cassette CUFF.1454 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 6;32 N cassette CUFF.1500 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 522;271 N cassette CUFF.1467 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 13;170 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 306;43 N jcn_only_AA CUFF.1541 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 66;1525 N jcn_only_AA CUFF.1444,CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 88;65 N jcn_only_AD CUFF.1443 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 1292;18 N jcn_only_AA CUFF.1477 chr12 - chr12:48293742-48298737;chr12:48276558-48298737 chr12:48272899-48298737 472;159 N jcn_only_AD chr12 + chr12:66187084-66451370 chr12:66232792-66451370 2;3 N coord_cassette CUFF.1518 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 11;13 N mutually_exclusive CUFF.1466 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 21;25 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 16;49 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 15;76 K alternative_last_exon CUFF.1437,CUFF.1455 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756378 chr12:1748850-1749142 64;177 N cassette CUFF.1515 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 25;487 N alternative_acceptor CUFF.1437 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 86;310 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 90;162 K jcn_only_AA CUFF.1544 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 50;52 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 15;112 K intron_retention CUFF.1544 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 16;51 K cassette CUFF.1443 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665669-4668022 chr12:4665519-4665668 26;755 N alternative_donor CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 217;2 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 260;611 N cassette CUFF.1521 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 40;197 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 25;199 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 36;117 N jcn_only_AD CUFF.1518 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 21;104 K alternative_acceptor CUFF.1542 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 39;52 N jcn_only_AD CUFF.1532 chr12 - chr12:102796345-102809481;chr12:102796345-102811732 chr12:102796345-102813286 136;18 N jcn_only_AA CUFF.1436 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 351;165 N alternative_donor CUFF.1466 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 75;3 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 127;70 K jcn_only_AA CUFF.1516 chr12 + chr12:57853985-57858455 chr12:57853985-57857447 114;28 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 170;43 K alternative_acceptor CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 85;259 N alternative_acceptor CUFF.1541 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 66;760 K intron_retention CUFF.1518 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 15;23 K cassette CUFF.1500 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 157;667 K intron_retention CUFF.1466 chr12 - chr12:22697114-22697253 chr12:22697113-22697114;chr12:22697253-22697254 186;63 N cassette CUFF.1518 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 11;286 K alternative_first_exon CUFF.1503 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393875-54394510 91;100 K intron_retention CUFF.1495 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 42;147 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 156;56 N intron_retention chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 83;149 N cassette CUFF.1466 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 27;326 K coord_cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 64;196 N jcn_only_AD CUFF.1462 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 18;5 N jcn_only_AD chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 193;32 N jcn_only_AD CUFF.1480 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 37;3 K intron_retention CUFF.1455 chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 1135;146 N alternative_acceptor CUFF.1462 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 591;29 K intron_retention CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 85;186 N intron_retention chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 86;84 N intron_retention chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 16;266 N jcn_only_AD CUFF.1469 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 85;36 N intron_retention CUFF.1443 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 18;291 K intron_retention CUFF.1491 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 284;68 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 742;193 N cassette CUFF.1541 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 15;337 K cassette CUFF.1493 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 190;64 N jcn_only_AA chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 71;6 K intron_retention CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 438;245 N mutually_exclusive CUFF.1500 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 407;40 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 624;459 N alternative_donor CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 88;7 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 7;4 N jcn_only_AA chr12 - chr12:351921-352844 chr12:351932-352844 121;72 N alternative_donor CUFF.1443 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 97;13 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 518;201 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 222;496 K intron_retention CUFF.1513 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 377;60 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 38;7 N alternative_donor chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 21;17 N coord_cassette CUFF.1443 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 135;115 K jcn_only_AA CUFF.1547 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 85;198 N jcn_only_AD CUFF.1444 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 92;24 K intron_retention CUFF.1488 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 154;45 N alternative_acceptor CUFF.1436 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 177;4 N intron_retention chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 165;12 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 47;533 N alternative_donor CUFF.1544 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 42;3 N jcn_only_AD CUFF.1443 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 97;108 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 129;87 N alternative_donor CUFF.1480 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 145;5 K intron_retention CUFF.1493 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 224;83 K intron_retention chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 534;86 K alternative_acceptor CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 438;694 N jcn_only_AD CUFF.1544 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 42;6 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 19;8 N jcn_only_AD CUFF.1528 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 88;41 K cassette CUFF.1518 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 553;19 K intron_retention CUFF.1531 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 566;6 N alternative_acceptor chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 136;97 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173471 51;430 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 14;97 K alternative_donor CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 31;1070 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 318;90 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 53;230 N cassette CUFF.1485 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 16;81 N jcn_only_AD CUFF.1436 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 211;26 K intron_retention CUFF.1441 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 78;196 K jcn_only_AD CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 348;284 K jcn_only_AA CUFF.1455 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 666;252 K alternative_first_exon CUFF.1535 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834568-111834677 29;68 N alternative_donor chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 165;19 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 32;425 K alternative_last_exon CUFF.1500 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53873190-53874983 chr12:53868653-53869850 503;325 N jcn_only_AD CUFF.1480 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 145;3 N jcn_only_AA chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 136;84 N jcn_only_AA CUFF.1469,CUFF.1516 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 45;21 K intron_retention CUFF.1531 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 480;59 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 112;89 N alternative_donor CUFF.1469 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 85;1 N alternative_last_exon CUFF.1532 chr12 - chr12:102796345-102813286 chr12:102811782-102813286 chr12:102789597-102796344 chr12:102811267-102811781 5;109 N alternative_donor CUFF.1544 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 110;3 N jcn_only_AA CUFF.1462 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 591;40 N jcn_only_AD CUFF.1541 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 37;38 N cassette CUFF.1500 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 112;515 K intron_retention CUFF.1518 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 1579;58 K alternative_donor CUFF.1487 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 225;207 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 54;35 N jcn_only_AA CUFF.1495 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 217;27 N jcn_only_AD CUFF.1532 chr12 - chr12:102796345-102811732;chr12:102796345-102813286 chr12:102796345-102809481 74;80 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 32;13 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 90;181 N jcn_only_AA CUFF.1437 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 86;534 K intron_retention CUFF.1507 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 59;26 K intron_retention CUFF.1495 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 182;68 N coord_cassette CUFF.1521 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 195;97 N cassette CUFF.1466 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 60;139 N alternative_donor CUFF.1443 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 1292;2 K jcn_only_AA CUFF.1518 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 438;1068 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 394;14 N jcn_only_AD chr12 - chr12:120158391-120287977 chr12:120158391-120159113 97;67 N jcn_only_AD CUFF.1541 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 86;68 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 804;131 N cassette CUFF.1500 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 140;663 K coord_cassette CUFF.1485 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 64;170 N cassette CUFF.1455 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 11;615 N jcn_only_AD chr12 - chr12:102796345-102809481;chr12:102796345-102813286 chr12:102796345-102811732 97;56 K alternative_last_exon CUFF.1542 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633226-113633694 chr12:113637848-113638618 38;102 N alternative_first_exon chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476 chr12:48298738-48298915 chr12:48276477-48276812 114;142 K alternative_acceptor CUFF.1544 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 127;104 K jcn_only_AD CUFF.1487 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 225;165 N cassette CUFF.1495 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 40;236 K intron_retention CUFF.1491 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 348;107 N alternative_acceptor CUFF.1469 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 48;238 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 123;129 K intron_retention CUFF.1436 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 351;85 K jcn_only_AD CUFF.1518 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 31;1579 N alternative_last_exon CUFF.1469,CUFF.1500 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173471 70;66 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 104;304 N coord_cassette CUFF.1521 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 56;78 N jcn_only_AD CUFF.1462 chr12 + chr12:21242864-21279041;chr12:21229504-21279041 chr12:21272562-21279041 212;85 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 64;826 N alternative_acceptor CUFF.1513 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 68;129 N alternative_donor CUFF.1541 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 37;5 K intron_retention CUFF.1513 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 122;211 K alternative_acceptor CUFF.1500 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 293;231 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 526;643 N jcn_only_AA CUFF.1477 chr12 - chr12:48272899-48298737;chr12:48293742-48298737 chr12:48276558-48298737 252;379 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 185;31 N intron_retention chr12 - chr12:56708751-56709604 chr12:56708750-56708751;chr12:56709604-56709605 25;32 K intron_retention CUFF.1450 chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 113;32 N jcn_only_AA CUFF.1513 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 68;74 N cassette CUFF.1493 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 34;292 K intron_retention CUFF.1513 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 483;88 N intron_retention chr12 + chr12:72080101-72080439 chr12:72080100-72080101;chr12:72080439-72080440 23;22 N alternative_donor CUFF.1480 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 37;0 K intron_retention CUFF.1518 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 68;834 N jcn_only_AA CUFF.1436 chr12 - chr12:332401-344255 chr12:336835-344255 26;138 K jcn_only_AD CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 193;69 K jcn_only_AD CUFF.1318 chr11 + chr11:830714-831223 chr11:831033-831223 chr11:830714-831032 chr11:830713-830714 193;56 N alternative_donor CUFF.1381 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 155;982 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 104;70 K intron_retention CUFF.1327 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 67;168 N alternative_acceptor CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 109;385 N jcn_only_AA CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 432;32 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 13;48 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 149;179 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 407;95 K alternative_acceptor CUFF.1417 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 127;198 K alternative_first_exon CUFF.1323 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785222 chr11:1783363-1783722 21;45 N jcn_only_AD CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 109;23 N cassette CUFF.1417 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 88;241 K intron_retention CUFF.1376 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 336;437 N jcn_only_AD CUFF.1335 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 92;412 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 70;127 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 179;162 K intron_retention chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 48;11 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 202;7 N cassette CUFF.1357 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 216;271 N alternative_acceptor CUFF.1409 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 48;20 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 268;10 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 11;110 N intron_retention chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 33;258 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 15;3 N intron_retention chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 28;53 K jcn_only_AD CUFF.1367 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 1109;103 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 59;354 N cassette CUFF.1344 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 24;332 K intron_retention CUFF.1316 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 403;90 K alternative_first_exon CUFF.1356 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264172 21;53 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 119;177 N mutually_exclusive CUFF.1316 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 58;222 K intron_retention CUFF.1411 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 43;109 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 212;49 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 68;14 N mutually_exclusive CUFF.1410 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 50;173 K jcn_only_AA CUFF.1318,CUFF.1426 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 34;84 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 128;38 N intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 280;298 N cassette CUFF.1331 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 12;161 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 36;28 K alternative_last_exon CUFF.1391 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 8;59 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 381;12 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 140;959 K intron_retention CUFF.1370 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 226;26 K intron_retention CUFF.1317 chr11 - chr11:556376-556491 chr11:556375-556376;chr11:556491-556492 9;42 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 32;59 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 171;10 K intron_retention CUFF.1387 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 497;323 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 471;57 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 19;145 N alternative_donor chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102959956-102962515 chr11:102962515-102962516 116;42 K intron_retention CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 21;107 K intron_retention CUFF.1381 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 1423;34 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 86;19 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 198;21 K intron_retention CUFF.1412 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 309;24 N cassette CUFF.1426 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 179;297 N cassette CUFF.1357 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 15;170 K jcn_only_AD CUFF.1418 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 389;38 K intron_retention CUFF.1339 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 323;148 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 11;13 N alternative_acceptor CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 514;56 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 29;65 K intron_retention CUFF.1317 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 11;63 K intron_retention CUFF.1422 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 61;7 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 470;57 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 471;57 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 135;39 K cassette CUFF.1344 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 35;223 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 753;66 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 21;8 K intron_retention CUFF.1370 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 60;14 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 228;163 N jcn_only_AD chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8476291-8615629 chr11:8615629-8615630 34;306 N intron_retention CUFF.1386 chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 231;785 K intron_retention CUFF.1411 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 41;35 N intron_retention chr11 - chr11:8474454-8615629 chr11:8474453-8474454;chr11:8615629-8615630 34;6 K intron_retention CUFF.1364 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 260;9 N alternative_acceptor CUFF.1387 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 423;12 N cassette CUFF.1387 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 29;959 K jcn_only_AA CUFF.1318,CUFF.1374 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 259;104 N intron_retention chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 239;180 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 228;29 N alternative_first_exon CUFF.1326 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466613-2466714 chr11:2483036-2483207 20;162 K intron_retention CUFF.1426 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 234;15 N jcn_only_AD CUFF.1339 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8494710-8615629 chr11:8615629-8615630 12;231 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 307;87 N alternative_acceptor CUFF.1316 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 174;620 N cassette CUFF.1410 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 189;36 N alternative_acceptor CUFF.1424 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 12;6 K intron_retention CUFF.1318 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 89;101 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 342;48 K alternative_donor CUFF.1318 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 162;106 N alternative_donor CUFF.1381 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 1766;29 K intron_retention CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 231;175 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 57;16 K jcn_only_AA CUFF.1347 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 299;897 N intron_retention chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 66;54 K jcn_only_AA CUFF.1318 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 203;107 K intron_retention CUFF.1402 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 77;32 K intron_retention CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 514;143 N jcn_only_AD CUFF.1370 chr11 - chr11:410028-417324 chr11:410028-417293 29;97 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 211;21 K intron_retention CUFF.1335 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 197;35 N jcn_only_AA CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 31;30 N jcn_only_AA CUFF.1381,CUFF.1387 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 890;29 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 109;65 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 10;266 N jcn_only_AD CUFF.1325 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 354;5 N cassette CUFF.1316 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 239;320 N jcn_only_AA CUFF.1317 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 19;20 K cassette CUFF.1344 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 82;201 N jcn_only_AD CUFF.1426 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 40;293 K intron_retention CUFF.1426 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 293;13 K jcn_only_AD CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 47;227 K intron_retention CUFF.1340 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 473;55 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 280;16 K intron_retention CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 174;575 N cassette CUFF.1349 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 28;45 K intron_retention CUFF.1331 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 94;66 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 1718;191 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 18;68 N cassette CUFF.1406 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 16;121 N cassette CUFF.1325 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 128;241 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 67;59 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 54;7 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 135;111 N jcn_only_AA chr11 + chr11:63656437-63662630 chr11:63656437-63657693 chr11:63657694-63662630 chr11:63662630-63662631 24;184 N jcn_only_AD CUFF.1381 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 1766;55 N intron_retention chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 26;754 N cassette CUFF.1417 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 88;225 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 102;155 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 203;29 K cassette CUFF.1406 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 344;371 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 36;82 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 99;295 K intron_retention CUFF.1316 chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 233;98 N jcn_only_AA CUFF.1349 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 44;69 K intron_retention CUFF.1349 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 35;34 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 1771;145 N alternative_acceptor CUFF.1381,CUFF.1388 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 256;486 K intron_retention CUFF.1424 chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 145;216 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 13;57 N cassette CUFF.1326 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 41;47 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 324;4 K intron_retention CUFF.1381 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 1535;56 N intron_retention chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 27;154 K intron_retention CUFF.1327 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 227;18 K jcn_only_AD CUFF.1316 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 467;233 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 105;66 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 160;21 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 69;1 N jcn_only_AD CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 1507;101 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 44;202 N jcn_only_AA CUFF.1323 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 107;27 K alternative_donor CUFF.1318 chr11 + chr11:830714-831223 chr11:831033-831223 chr11:830714-831032 chr11:830713-830714 193;136 N cassette CUFF.1349 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 45;337 K intron_retention CUFF.1432 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 101;13 N mutually_exclusive CUFF.1316 chr11 - chr11:408207-409867,chr11:410028-414822 chr11:408207-408694,chr11:408894-414822 chr11:409868-410027 chr11:408695-408893 281;37 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 71;3 N cassette CUFF.1417 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 137;830 N alternative_acceptor CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 31;10 K intron_retention CUFF.1318 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 282;71 N alternative_donor CUFF.1339 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8494710-8615629 chr11:8615629-8615630 12;3 N alternative_donor CUFF.1426 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 40;197 K intron_retention CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 18;110 K intron_retention CUFF.1318 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 301;6 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 26;622 K coord_cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 6;23 K intron_retention CUFF.1426 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 204;28 K intron_retention CUFF.1335 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 197;11 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 21;11 N intron_retention CUFF.1412 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 36;177 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 107;413 N cassette CUFF.1374 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 111;220 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 703;16 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 15;16 N jcn_only_AA CUFF.1318,CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 21;36 K intron_retention CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 432;75 K jcn_only_AA CUFF.1327 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 30;277 K alternative_donor CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 193;109 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 18;50 N coord_cassette CUFF.1417 chr11 + chr11:118403177-118404571 chr11:118403177-118403631;chr11:118403923-118404134;chr11:118404267-118404571 chr11:118403632-118403922;chr11:118404135-118404266 53;331 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 65;26 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 106;103 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 111;585 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 81;132 K cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 6;49 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 26;326 N alternative_acceptor CUFF.1381,CUFF.1387 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 890;35 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 7;210 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 22;140 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 11;7 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 26;260 K intron_retention CUFF.1335 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 81;159 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 365;73 N alternative_acceptor CUFF.1318,CUFF.1412 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 21;21 N alternative_acceptor CUFF.1357,CUFF.1376 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 1332;46 N jcn_only_AA chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 59;24 K alternative_last_exon CUFF.1392 chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74630826 chr11:74624740-74624827 88;55 K cassette CUFF.1381 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 362;1700 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 175;46 N intron_retention chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 6;28 K intron_retention CUFF.1352 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 15;266 K mutually_exclusive CUFF.1397 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 74;32 N jcn_only_AA CUFF.1357 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 159;608 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 1079;20 K intron_retention CUFF.1417 chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 63;9 N jcn_only_AD CUFF.1367 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 28;104 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 447;39 K intron_retention CUFF.1402 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 51;10 K intron_retention CUFF.1424 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 379;43 K intron_retention CUFF.1424 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 185;19 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 1889;27 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 183;145 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 63;343 N alternative_acceptor chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 68;501 K jcn_only_AA CUFF.1317 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 48;32 N cassette CUFF.1374 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 65;322 N mutually_exclusive CUFF.1349 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 41;19 N intron_retention chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 448;358 N jcn_only_AA CUFF.1357,CUFF.1376 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 1332;93 N intron_retention chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 32;43 K alternative_first_exon CUFF.1326 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798216-2798262 chr11:2798728-2799043 25;90 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 31;104 K intron_retention CUFF.1367 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 277;28 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 1;76 N intron_retention chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 101;229 N jcn_only_AA CUFF.1318,CUFF.1367 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 262;36 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 66;165 K alternative_acceptor CUFF.1318,CUFF.1426 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 34;58 K alternative_first_exon CUFF.1370,CUFF.1418 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367906 chr11:62366690-62366855 97;31 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 555;66 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999901;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999865 582;370 K cassette CUFF.1347 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 37;297 N alternative_donor CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 31;3 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 57;88 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 206;63 K intron_retention CUFF.1370 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 61;76 K intron_retention CUFF.1422 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 311;19 N cassette CUFF.1374 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 299;118 K intron_retention CUFF.1318 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 162;155 K alternative_first_exon CUFF.1424 chr11 - chr11:119291640-119295607;chr11:119291640-119293822 chr11:119291640-119292320 chr11:119293823-119294838 chr11:119292321-119292417 740;44 N cassette CUFF.1417 chr11 + chr11:118403177-118404571;chr11:118403923-118404571 chr11:118403177-118404134,chr11:118403923-118404134;chr11:118404267-118404571 chr11:118404135-118404266 543;311 K intron_retention CUFF.1318 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 203;19 N jcn_only_AD CUFF.1357 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;283 N intron_retention CUFF.1381 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 77;1375 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 533;12 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 101;70 N jcn_only_AA chr11 + chr11:36317989-36422546 chr11:36317989-36318920 77;10 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 16;346 K intron_retention CUFF.1431 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 21;50 N cassette CUFF.1422 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 21;796 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 185;634 N alternative_acceptor CUFF.1410 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 12;11 N cassette CUFF.1344 chr11 - chr11:8496614-8615290 chr11:8496614-8554894;chr11:8555044-8615290 chr11:8554895-8555043 24;78 N alternative_donor CUFF.1424 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 28;17 K alternative_acceptor CUFF.1391,CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 18;70 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-64001365 chr11:63999437-63999981 653;299 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 173;28 K intron_retention CUFF.1318 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 107;11 K cassette CUFF.1422 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 47;33 N intron_retention chr11 - chr11:65480304-65480390 chr11:65480303-65480304;chr11:65480390-65480391 4;15 N intron_retention chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 16;63 K cassette CUFF.1397 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 6;83 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 66;24 N jcn_only_AD CUFF.1412 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 32;280 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 22;103 N jcn_only_AA chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 76;22 K jcn_only_AA CUFF.1318 chr11 + chr11:830714-831223 chr11:830714-830865 chr11:830866-831223 chr11:831223-831224 193;89 N cassette CUFF.1422 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 46;1333 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 24;1 N alternative_acceptor CUFF.1318,CUFF.1417 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 583;274 N alternative_acceptor CUFF.1406 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 16;79 K alternative_first_exon CUFF.1317,CUFF.1349 chr11 - chr11:558980-560682;chr11:558980-559968 chr11:558980-559346 chr11:559969-560236 chr11:559347-559498 31;13 K cassette CUFF.1329 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 55;39 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 29;297 N coord_cassette CUFF.1331 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 94;102 K intron_retention CUFF.1432 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 90;18 K intron_retention CUFF.1318 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 193;118 N intron_retention chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 38;246 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 21;11 K mutually_exclusive CUFF.1329 chr11 + chr11:3239790-3241456,chr11:3241590-3242799 chr11:3239790-3240929,chr11:3241019-3242799 chr11:3241457-3241589 chr11:3240930-3241018 39;20 N alternative_donor CUFF.1412 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 32;165 K alternative_donor CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 47;303 N mutually_exclusive CUFF.1335 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 24;161 K intron_retention CUFF.1349 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 69;56 N alternative_acceptor chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 59;30 N alternative_last_exon CUFF.1349 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818583-10819428 chr11:10823596-10823756 76;157 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 307;22 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 115;413 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 51;112 N jcn_only_AD CUFF.1424 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 28;12 N mutually_exclusive CUFF.1417 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 19;59 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 162;81 N alternative_acceptor CUFF.1323 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 107;16 N mutually_exclusive CUFF.1357 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 14;151 K intron_retention CUFF.1376 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 239;96 K intron_retention CUFF.1339 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 597;153 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 184;73 K cassette CUFF.1409 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 120;73 K intron_retention CUFF.1432 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 81;12 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 700;119 K cassette CUFF.1329 chr11 + chr11:3239790-3242799 chr11:3239790-3240929;chr11:3241019-3242799 chr11:3240930-3241018 55;20 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 36;46 K intron_retention CUFF.1335 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 77;97 N coord_cassette CUFF.1325 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188116;chr11:2188263-2188664 chr11:2187863-2187998;chr11:2188117-2188262 128;275 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 97;255 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 152;12 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 108;39 K intron_retention CUFF.1335 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 26;74 K alternative_acceptor CUFF.1347 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 299;583 K intron_retention CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 66;40 N cassette CUFF.1424 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 53;2144 N jcn_only_AD CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 108;21 N cassette CUFF.1403 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 3;46 N mutually_exclusive CUFF.1349 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 41;19 K alternative_donor CUFF.1316 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 467;268 K intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 370;646 N alternative_acceptor chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 76;3 N cassette CUFF.1316 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 375;454 N jcn_only_AD CUFF.1381 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 155;1868 K intron_retention CUFF.1325 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 453;43 K intron_retention CUFF.1366 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 434;104 K cassette CUFF.1397 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 37;22 K intron_retention CUFF.1432 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 245;249 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 206;13 N alternative_acceptor CUFF.1349 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 44;207 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 81;464 N cassette CUFF.1331 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 147;52 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 21;39 K intron_retention CUFF.1349 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 156;20 K jcn_only_AA CUFF.1368 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 43;14 N alternative_donor CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 109;9 N cassette CUFF.1335 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 24;198 N cassette CUFF.1325 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 83;37 N jcn_only_AA CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 193;22 K jcn_only_AA CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 2055;379 K alternative_acceptor CUFF.1368 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 43;9 N alternative_acceptor chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 59;1346 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 57;177 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 202;17 N mutually_exclusive CUFF.1422 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 36;16 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 135;135 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 53;10 N intron_retention chr11 - chr11:8486370-8615629 chr11:8486369-8486370;chr11:8615629-8615630 12;20 K intron_retention CUFF.1349 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 402;254 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 60;22 N coord_cassette CUFF.1374 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 22;75 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 110;99 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 27;16 K jcn_only_AA CUFF.1340 chr11 - chr11:6623446-6624633;chr11:6623495-6624633 chr11:6622006-6624633 104;352 K intron_retention chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 68;36 N alternative_donor chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8476291-8615629 chr11:8615629-8615630 34;4 N alternative_first_exon CUFF.1417 chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401756-118401949 chr11:118402092-118402316 352;41 N alternative_donor CUFF.1340,CUFF.1386 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 250;202 N jcn_only_AA CUFF.1376 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 109;26 N alternative_first_exon CUFF.1376 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999006-63999436 chr11:64000176-64000337 65;760 N intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 299;889 N alternative_donor CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 136;53 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 37;27 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 111;1037 N mutually_exclusive CUFF.1374 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 246;40 K cassette CUFF.1344 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 32;255 N jcn_only_AA CUFF.1409 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 48;22 N jcn_only_AD CUFF.1347 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 31;27 K intron_retention CUFF.1386 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 1328;144 K intron_retention CUFF.1395 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 148;499 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 77;0 K intron_retention chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 1499;11 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 45;286 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 212;5 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 513;108 K cassette CUFF.1335 chr11 - chr11:5685404-5686885 chr11:5685404-5686398;chr11:5686626-5686885 chr11:5686399-5686625 77;174 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 51;168 K alternative_acceptor CUFF.1318 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 203;62 N alternative_donor CUFF.1367 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 28;2 N alternative_donor chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 20;258 K intron_retention CUFF.1327 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 47;105 K intron_retention chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 214;277 K jcn_only_AD CUFF.1318 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 162;47 K intron_retention CUFF.1349 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 241;187 N jcn_only_AA CUFF.1387 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 423;26 K cassette CUFF.1406 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 173;197 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 214;17 K intron_retention CUFF.1370 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 59;26 K cassette CUFF.1404 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 52;396 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 80;447 N cassette CUFF.1357 chr11 + chr11:36424929-36453402 chr11:36424929-36440804;chr11:36440854-36453402 chr11:36440805-36440853 44;238 K intron_retention CUFF.1381 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 256;1143 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 197;1718 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 6;0 K cassette CUFF.1357 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 170;91 K alternative_acceptor CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 2055;243 N jcn_only_AD chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 20;181 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 217;4 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 215;2 N jcn_only_AA CUFF.1410 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 12;84 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 12;61 N jcn_only_AD CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 231;52 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 19;239 N jcn_only_AA CUFF.1386 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 514;27 K alternative_acceptor CUFF.1317 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 48;16 K alternative_last_exon CUFF.1368 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61516015-61517214 chr11:61521489-61521917 31;106 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 36;16 N alternative_acceptor CUFF.1318,CUFF.1367 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 262;208 N jcn_only_AD chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 66;26 K intron_retention CUFF.1339 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 245;115 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 50;171 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 37;27 K intron_retention CUFF.1386 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 52;29 K alternative_acceptor CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 174;203 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 41;33 K jcn_only_AA CUFF.1340 chr11 - chr11:6623446-6624633;chr11:6622006-6624633 chr11:6623495-6624633 372;85 K cassette CUFF.1418 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 378;44 N jcn_only_AA CUFF.1406 chr11 - chr11:102937297-102953984 chr11:102953569-102953984 172;219 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 368;71 K alternative_first_exon CUFF.1370 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369406 chr11:62368495-62368818 61;21 K intron_retention CUFF.1381 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 2074;15 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 1005;94 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 224;688 N intron_retention chr11 - chr11:67789001-67795523 chr11:67789000-67789001;chr11:67795523-67795524 3;335 N mutually_exclusive CUFF.1417 chr11 + chr11:118403177-118404134,chr11:118404267-118404571 chr11:118403177-118403631,chr11:118403923-118404571 chr11:118404135-118404266 chr11:118403632-118403922 48;441 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 26;220 N jcn_only_AD CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 66;11 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 63;215 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 13;12 N cassette CUFF.1387 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 115;736 N alternative_donor CUFF.1426 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 66;33 K cassette CUFF.1335 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 197;143 N alternative_donor CUFF.1325 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 354;198 K intron_retention CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 193;99 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 13;12 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118402960 224;45 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 504;23 N jcn_only_AA chr11 - chr11:409102-409867 chr11:409309-409867 68;34 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 476;69 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 83;8 K intron_retention CUFF.1370 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 73;16 N jcn_only_AD chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102959956-102962515 chr11:102962515-102962516 116;340 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 272;36 N intron_retention chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 417;82 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 179;81 K alternative_first_exon CUFF.1340 chr11 - chr11:6622006-6624633 chr11:6622006-6622155 chr11:6624634-6624942 chr11:6622156-6622860 429;138 K intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 65;64 N jcn_only_AA CUFF.1406 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 16;65 K intron_retention CUFF.1349 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 3;466 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 156;7 N intron_retention chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 32;97 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 1889;26 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 225;53 N intron_retention chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 9;328 N jcn_only_AA chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 68;73 N alternative_acceptor CUFF.1325 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 432;50 N mutually_exclusive CUFF.1316 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 58;222 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 46;135 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 136;35 K alternative_acceptor CUFF.1318,CUFF.1374 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 259;51 N cassette CUFF.1418 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 49;206 N cassette CUFF.1339 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 111;357 N jcn_only_AA CUFF.1318,CUFF.1417 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 583;545 K intron_retention CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 136;121 N alternative_donor CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 1507;63 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 283;25 K cassette CUFF.1325 chr11 - chr11:2187999-2188664 chr11:2187999-2188116;chr11:2188263-2188664 chr11:2188117-2188262 77;288 K jcn_only_AA CUFF.1367 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 387;225 N intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 27;14 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 622;44 K intron_retention CUFF.1323 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 56;29 K intron_retention CUFF.1349 chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 381;167 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 52;195 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 174;447 N alternative_donor CUFF.1357 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;10 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 71;55 K intron_retention CUFF.1412 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 280;19 N jcn_only_AD CUFF.1365 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 9;387 N alternative_first_exon CUFF.1357 chr11 + chr11:36322621-36415395;chr11:36383732-36415395 chr11:36398255-36415395 chr11:36383626-36383731 chr11:36397861-36398254 72;242 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 58;12 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 120;210 N intron_retention chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 47;15 K intron_retention CUFF.1318 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 47;122 K jcn_only_AA CUFF.1391,CUFF.1411 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 18;43 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 211;179 N alternative_acceptor chr11 + chr11:63656437-63662630 chr11:63656437-63657693 chr11:63657694-63662630 chr11:63662630-63662631 24;8 K intron_retention CUFF.1349 chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 137;30 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 16;134 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 76;1 N jcn_only_AA chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 59;1517 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 193;103 K intron_retention chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 324;119 N jcn_only_AA CUFF.1381,CUFF.1388 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 256;77 N jcn_only_AD CUFF.1327 chr11 - chr11:408894-409859 chr11:408894-409216 20;29 K intron_retention CUFF.1339 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 251;151 K jcn_only_AA CUFF.1434 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 12;98 N jcn_only_AA CUFF.1392 chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 243;27 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 120;188 N jcn_only_AA CUFF.1316 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 174;1037 K jcn_only_AA CUFF.1417 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 127;400 K cassette CUFF.1422 chr11 - chr11:118926880-118927730 chr11:118926880-118926990;chr11:118927117-118927730 chr11:118926991-118927116 79;843 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 27;240 K intron_retention CUFF.1316 chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 467;191 N alternative_donor chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 66;24 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 54;37 N jcn_only_AD chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124767622-124768293 chr11:124768293-124768294 68;12 N jcn_only_AD CUFF.1340,CUFF.1386 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 250;231 N jcn_only_AD CUFF.1331 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 136;11 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 114;12 N alternative_donor CUFF.1426 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 108;37 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 144;295 N jcn_only_AA CUFF.1424 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 12;8 K cassette CUFF.1349 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 137;448 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 40;34 K alternative_first_exon CUFF.1318 chr11 + chr11:827460-828229;chr11:826267-828229 chr11:827712-828229 chr11:826066-826266 chr11:827543-827711 112;96 N alternative_acceptor CUFF.1349 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 193;69 N alternative_donor CUFF.1426 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 231;112 K alternative_acceptor CUFF.1434 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 12;86 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 32;374 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 41;233 K jcn_only_AA CUFF.1395 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 174;148 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 53;21 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 40;79 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 94;10 N alternative_donor chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124767622-124768293 chr11:124768293-124768294 68;129 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 6;0 K alternative_acceptor CUFF.1318 chr11 + chr11:830714-831223 chr11:830714-830865 chr11:830866-831223 chr11:831223-831224 193;186 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 55;6 K jcn_only_AA CUFF.1340 chr11 - chr11:6622006-6624633;chr11:6623495-6624633 chr11:6623446-6624633 437;20 N intron_retention chr11 - chr11:118927717-118927742 chr11:118927716-118927717;chr11:118927742-118927743 1;59 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 10;8 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 17;41 K intron_retention CUFF.1426 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 223;7 K intron_retention CUFF.1424 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 2055;129 N intron_retention CUFF.1349 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 34;454 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 1073;26 K intron_retention CUFF.1318 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 249;63 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 166;15 K alternative_acceptor CUFF.1327 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 30;137 N jcn_only_AD chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 63;28 N cassette CUFF.1316 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 61;566 K alternative_first_exon CUFF.1388 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819514-67819908 135;153 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 11;30 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 232;98 K intron_retention CUFF.1422 chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 928;14 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-63999981 chr11:63999437-64001365 894;59 N alternative_acceptor CUFF.1317 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 19;12 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 29;76 N alternative_donor CUFF.1365 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 9;222 K intron_retention CUFF.1318 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 56;147 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 0;6 N jcn_only_AA CUFF.1376 chr11 + chr11:63999437-63999865;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999901 729;224 K intron_retention CUFF.1381 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 1507;149 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 7;21 N coord_cassette CUFF.1242 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158027;chr10:46158130-46158989 chr10:46148432-46148507;chr10:46158028-46158129 30;185 N alternative_acceptor CUFF.1265 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 383;22 N jcn_only_AA CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 564;5 N alternative_first_exon CUFF.1234 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35415719-35416121 chr10:35416353-35416495 344;126 K cassette CUFF.1251 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 393;27 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 19;18 K mutually_exclusive CUFF.1285 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 31;14 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 23;234 N jcn_only_AD CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 336;8 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 4;314 N alternative_acceptor CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 428;1 N alternative_acceptor CUFF.1270 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 314;0 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 38;98 N jcn_only_AA CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96954435-96961197 chr10:96961198-96961741 chr10:96961741-96961742 369;10 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 125;0 N alternative_acceptor CUFF.1246 chr10 + chr10:60029065-60036876 chr10:60029065-60035877 chr10:60035878-60036876 chr10:60036876-60036877 49;2 K alternative_first_exon CUFF.1228 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 83;39 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 189;2 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 198;187 N jcn_only_AA CUFF.1270 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 314;9 K cassette CUFF.1280 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 72;340 K alternative_acceptor CUFF.1251 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 32;51 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 25;12 N jcn_only_AA chr10 + chr10:124186548-124189139 chr10:124186548-124187791 44;80 K coord_cassette CUFF.1251 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 28;18 N jcn_only_AD CUFF.1256 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 189;30 N jcn_only_AD CUFF.1257 chr10 - chr10:73956748-73963184;chr10:73956748-73958206 chr10:73956748-73972944 817;38 K alternative_donor CUFF.1280 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 9;188 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 54;95 K cassette CUFF.1242 chr10 - chr10:46148508-46158989 chr10:46148508-46158027;chr10:46158130-46158989 chr10:46158028-46158129 61;201 K intron_retention CUFF.1258 chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 114;81 N cassette CUFF.1224 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 113;214 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 143;38 N jcn_only_AA CUFF.1205 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 30;77 N alternative_donor CUFF.1242 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 150;1 N cassette CUFF.1224 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 76;206 N alternative_acceptor CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 336;0 K intron_retention CUFF.1306 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 15;19 N coord_cassette CUFF.1224 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 43;158 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 316;2 N jcn_only_AA CUFF.1265 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 198;110 N coord_cassette CUFF.1287 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 22;21 K coord_cassette CUFF.1208 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 5;440 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 62;135 K alternative_last_exon CUFF.1201 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370573-370959 2;187 N alternative_donor CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 336;1 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 30;7 N jcn_only_AD chr10 - chr10:341565-804067 chr10:341565-804065 91;3 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 302;45 K coord_cassette CUFF.1205 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5122937;chr10:5123094-5138601 chr10:5120062-5120169;chr10:5122938-5123093 107;24 K cassette CUFF.1205 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5138601 chr10:5120062-5120169 107;91 K cassette CUFF.1273 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 7;37 N jcn_only_AD CUFF.1220,CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 564;6 N alternative_donor CUFF.1256 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 189;3 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 211;31 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 191;18 N cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 28;222 N cassette CUFF.1208 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 49;255 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 488;212 K intron_retention CUFF.1309 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 18;28 N jcn_only_AD chr10 + chr10:124187833-124189139;chr10:124187937-124189139 chr10:124186548-124189139 78;44 K intron_retention CUFF.1306 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 3;6 N intron_retention chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 3;34 N alternative_donor CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 299;0 K alternative_first_exon CUFF.1222,CUFF.1261 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290405 chr10:76289051-76289201 54;67 N jcn_only_AA CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 299;5 N alternative_donor CUFF.1257 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 640;11 N alternative_donor CUFF.1265 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 36;89 N coord_cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27059451;chr10:27059470-27065993;chr10:27066171-27112066 chr10:27059452-27059469;chr10:27065994-27066170 28;72 N alternative_acceptor CUFF.1233 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 221;28 K cassette CUFF.1201 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 3;93 N jcn_only_AA CUFF.1234 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 1973;612 N mutually_exclusive CUFF.1308 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 29;43 K cassette CUFF.1201 chr10 - chr10:410523-412214 chr10:410523-410754;chr10:410962-412214 chr10:410755-410961 12;15 N jcn_only_AA CUFF.1242 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 310;12 K alternative_first_exon CUFF.1308 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123688409 chr10:123687359-123687623 124;71 N alternative_donor CUFF.1257,CUFF.1265 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 735;10 N jcn_only_AA CUFF.1220 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 31;16 K cassette CUFF.1251 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 28;166 K alternative_first_exon CUFF.1283 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491946-101492166 38;486 K intron_retention CUFF.1229 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 18;14 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 125;0 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 347;163 N jcn_only_AA CUFF.1265 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 336;5 N cassette CUFF.1224 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 26;148 N jcn_only_AD CUFF.1201 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 115;2 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 15;118 N cassette CUFF.1242 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 30;144 K alternative_first_exon CUFF.1312 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 34;27 N cassette CUFF.1308 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 21;61 N cassette CUFF.1208 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 5;306 N jcn_only_AA chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 16;133 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 107;88 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 470;40 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 185;57 N cassette CUFF.1234 chr10 + chr10:35464634-35477127 chr10:35464634-35468061;chr10:35468205-35477127 chr10:35468062-35468204 346;926 N jcn_only_AD CUFF.1257,CUFF.1265 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 735;294 N jcn_only_AD chr10 + chr10:124186548-124189139;chr10:124187937-124189139 chr10:124187833-124189139 88;34 N jcn_only_AA CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 428;18 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 89;10 N coord_cassette CUFF.1205 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 63;175 K mutually_exclusive CUFF.1224 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 50;27 N coord_cassette CUFF.1234 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 62;333 N jcn_only_AD CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96961279-96961741 chr10:96954435-96961278 chr10:96954434-96954435 369;16 N cassette CUFF.1221 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 13;48 N alternative_acceptor chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 16;26 N jcn_only_AD chr10 + chr10:124187833-124189139;chr10:124186548-124189139 chr10:124187937-124189139 78;44 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 183;1 K intron_retention CUFF.1258 chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 10;113 K jcn_only_AA CUFF.1233 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 29;159 K cassette CUFF.1208 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 6;444 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 145;36 N jcn_only_AD CUFF.1220,CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 428;18 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 0;125 N coord_cassette CUFF.1234 chr10 + chr10:35464634-35477127 chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127 chr10:35467817-35467914;chr10:35468062-35468204 346;869 K mutually_exclusive CUFF.1265 chr10 - chr10:78729826-78761164,chr10:78761339-78771724 chr10:78729826-78734244,chr10:78734332-78771724 chr10:78761165-78761338 chr10:78734245-78734331 172;64 N alternative_acceptor CUFF.1234 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 1973;685 K cassette CUFF.1287 chr10 + chr10:106976881-106982873 chr10:106976881-106977601;chr10:106977724-106982873 chr10:106977602-106977723 14;22 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 120;640 K jcn_only_AA CUFF.1208 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 436;4 N alternative_donor CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124166190-124172435 chr10:124157491-124166189 chr10:124157490-124157491 22;3 N alternative_acceptor CUFF.1205 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 30;2 N jcn_only_AD CUFF.1242,CUFF.1258 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 310;36 N jcn_only_AA CUFF.1270 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 6;480 N cassette CUFF.1308 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 56;182 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 121;17 K alternative_acceptor CUFF.1251 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 24;80 N jcn_only_AA CUFF.1233 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 221;85 K jcn_only_AD CUFF.1223 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 2;2 K alternative_first_exon CUFF.1208 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186881-6186976 chr10:6244735-6245299 17;608 N jcn_only_AD chr10 - chr10:73956748-73972944;chr10:73956748-73958206 chr10:73956748-73963184 205;650 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 71;25 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 185;6 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 650;156 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 107;12 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 46;53 K alternative_last_exon CUFF.1220 chr10 - chr10:17636383-17645558 chr10:17641411-17645558 chr10:17636204-17636382 chr10:17641265-17641410 13;34 K cassette CUFF.1283 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 520;86 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 262;110 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 610;90 K cassette CUFF.1314 chr10 - chr10:135060555-135061294 chr10:135060555-135061057;chr10:135061206-135061294 chr10:135061058-135061205 18;323 K alternative_first_exon CUFF.1238 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572428-43572779 chr10:43606655-43606913 51;15 N cassette CUFF.1308 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 30;82 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 53;86 N jcn_only_AA chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 25;60 N jcn_only_AD CUFF.1265,CUFF.1312 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 545;9 K jcn_only_AD CUFF.1287 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 26;10 K jcn_only_AD CUFF.1280 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 9;369 K alternative_acceptor CUFF.1233 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 29;71 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 232;183 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 8;183 N alternative_acceptor chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 25;2 N jcn_only_AA CUFF.1257 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 722;38 N cassette CUFF.1308 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 30;98 N alternative_acceptor CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 299;0 N cassette CUFF.1234 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 616;1381 K jcn_only_AA CUFF.1221 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 14;45 N jcn_only_AA CUFF.1265 chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 27;12 K mutually_exclusive CUFF.1308 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 73;82 N jcn_only_AD CUFF.1265 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 36;27 K cassette CUFF.1251 chr10 + chr10:70661228-70666466 chr10:70661228-70665981;chr10:70666094-70666466 chr10:70665982-70666093 20;139 N intron_retention chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 54;84 N cassette CUFF.1257 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 77;293 N jcn_only_AD CUFF.1257 chr10 - chr10:73956748-73963184;chr10:73956748-73972944 chr10:73956748-73958206 688;167 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 646;54 K jcn_only_AD CUFF.1220 chr10 - chr10:17636383-17645558 chr10:17636383-17641288 20;40 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 187;56 K jcn_only_AA CUFF.1282 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 52;87 N jcn_only_AD CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124166190-124172435 chr10:124157491-124166189 chr10:124157490-124157491 22;165 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 391;91 K cassette CUFF.1248 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 284;288 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 141;101 K alternative_first_exon CUFF.1256,CUFF.1257 chr10 - chr10:73515224-73520624 chr10:73515224-73517334 chr10:73520625-73520681 chr10:73517335-73517480 3;23 N alternative_donor CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96961279-96961741 chr10:96954435-96961278 chr10:96954434-96954435 369;0 N alternative_donor CUFF.1257 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 354;54 N cassette CUFF.1208 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 20;427 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 426;274 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 140;9 N alternative_donor CUFF.1242,CUFF.1258 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 310;24 K cassette CUFF.1246 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 101;240 N jcn_only_AA CUFF.1257 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 678;82 N alternative_donor CUFF.1201 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 115;0 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 208;104 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 504;6 K cassette CUFF.1233 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 51;155 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 287;25 K alternative_donor CUFF.1223 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 2;3 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 15;5 N jcn_only_AA CUFF.1257 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 735;129 N alternative_donor CUFF.1308 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 6;37 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 629;71 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 104;45 K alternative_first_exon CUFF.1222 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833374 23;37 K alternative_first_exon CUFF.1201,CUFF.1258 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:428587-428701 chr10:418953-419225 34;15 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 227;125 N cassette CUFF.1221 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 13;36 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 326;20 K alternative_donor CUFF.1287 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 26;6 N coord_cassette CUFF.1234 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 198;399 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 168;314 N mutually_exclusive CUFF.1208 chr10 + chr10:6265984-6268154,chr10:6268329-6274857 chr10:6265984-6266111,chr10:6266177-6274857 chr10:6268155-6268328 chr10:6266112-6266176 6;60 K intron_retention CUFF.1233 chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 45;8 K alternative_last_exon CUFF.1259 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476873-75476950 chr10:75477773-75477923 16;47 N jcn_only_AA CUFF.1233 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 23;15 N cassette CUFF.1234 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 28;896 K alternative_donor CUFF.1258,CUFF.1261 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 10;128 N alternative_acceptor CUFF.1308 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 274;1 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 483;27 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 236;274 N intron_retention chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 11;172 K cassette CUFF.1261 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 71;38 N coord_cassette CUFF.1224 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 28;174 K jcn_only_AA CUFF.1251 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 32;96 K alternative_acceptor CUFF.1221 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 14;22 N alternative_acceptor CUFF.1265 chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 27;6 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 65;281 N jcn_only_AD CUFF.1224 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 299;5 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 1721;894 N cassette CUFF.1208 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 77;393 N mutually_exclusive CUFF.1308 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 32;46 K jcn_only_AA CUFF.1238 chr10 + chr10:43572780-43607546 chr10:43572780-43595906 55;9 K cassette CUFF.1308 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 49;119 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 208;144 K jcn_only_AD CUFF.1258,CUFF.1261 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 10;114 K alternative_acceptor CUFF.1208 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 436;3 K cassette CUFF.1248 chr10 - chr10:69583151-69597691 chr10:69583151-69587299;chr10:69587442-69597691 chr10:69587300-69587441 432;57 N alternative_acceptor CUFF.1280 chr10 + chr10:96954435-96961741 chr10:96954435-96961197 chr10:96961198-96961741 chr10:96961741-96961742 369;2 N alternative_acceptor CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 564;1 N alternative_donor CUFF.1265,CUFF.1312 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 545;3 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 316;2 N jcn_only_AD CUFF.1308 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 6;694 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 262;46 N jcn_only_AA CUFF.1308 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 274;136 N alternative_acceptor CUFF.1257 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 735;18 K cassette CUFF.1205 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 123;49 N alternative_acceptor CUFF.1220 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 31;0 K jcn_only_AA CUFF.1251 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 24;58 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 184;0 K alternative_acceptor CUFF.1282 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 52;43 K cassette CUFF.1265 chr10 - chr10:78729826-78771724 chr10:78729826-78734244;chr10:78734332-78771724 chr10:78734245-78734331 66;69 N alternative_acceptor CUFF.1270 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 6;5 N alternative_acceptor CUFF.1233 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 23;1 N jcn_only_AD CUFF.1257 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 640;82 K alternative_first_exon CUFF.1246 chr10 + chr10:60035973-60036876;chr10:60029065-60036876 chr10:60033245-60036876 chr10:60028724-60029064 chr10:60033098-60033244 70;196 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 73;107 N alternative_donor CUFF.1220,CUFF.1270 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 564;1 N intron_retention chr10 + chr10:124134364-124152696 chr10:124134363-124134364;chr10:124152696-124152697 22;63 N alternative_acceptor CUFF.1238,CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124157491-124159858 chr10:124159859-124172435 chr10:124172435-124172436 22;3 N jcn_only_AA CUFF.1246 chr10 + chr10:60029065-60036876 chr10:60029065-60035877 chr10:60035878-60036876 chr10:60036876-60036877 49;15 K jcn_only_AA CUFF.1312 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 25;19 N jcn_only_AD CUFF.1242 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 150;21 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 40;169 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 346;69 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 63;36 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 902;547 N jcn_only_AD CUFF.1257 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 354;143 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 1;183 N jcn_only_AA CUFF.1238,CUFF.1309 chr10 + chr10:124157491-124172435 chr10:124157491-124159858 chr10:124159859-124172435 chr10:124172435-124172436 22;209 N alternative_acceptor CUFF.1242 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 310;16 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 426;70 K alternative_first_exon CUFF.1240 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274351 chr10:44274030-44274137 22;18 K intron_retention CUFF.1249 chr10 + chr10:69921510-69925458 chr10:69921509-69921510;chr10:69925458-69925459 13;12 N intron_retention chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 90;30 N coord_cassette CUFF.1234 chr10 + chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35490378;chr10:35490415-35495822 chr10:35477128-35477316;chr10:35490379-35490414 460;629 K cassette CUFF.1221 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 25;10 N coord_cassette CUFF.1308 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 21;87 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 129;183 N jcn_only_AA CUFF.1265 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 383;23 K alternative_first_exon CUFF.1278 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833630-94833880 87;26 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 269;83 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 405;77 N jcn_only_AD chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 69;60 N alternative_donor chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 69;0 K intron_retention CUFF.1257 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 274;179 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 186;22 K jcn_only_AD CUFF.1249 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 2;125 K cassette CUFF.1259 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 54;30 N alternative_first_exon chr10 - chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73975965-73976148 chr10:73975540-73975694 310;134 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 252;163 N intron_retention chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 212;35 N jcn_only_AA chr10 - chr10:78737397-78771724 chr10:78755467-78771724 11;16 N jcn_only_AA chr10 - chr10:27048168-27054146 chr10:27052890-27054146 189;35 N alternative_acceptor CUFF.1257 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 650;48 N jcn_only_AD chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 103;36 K cassette CUFF.1251 chr10 + chr10:70661228-70666466 chr10:70661228-70666039;chr10:70666094-70666466 chr10:70666040-70666093 20;122 N cassette CUFF.1224 chr10 - chr10:27059275-27065993 chr10:27059275-27059451;chr10:27059470-27065993 chr10:27059452-27059469 26;61 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 189;53 N cassette CUFF.1308 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 39;165 K cassette CUFF.1306 chr10 - chr10:119774622-119798482 chr10:119774622-119793492;chr10:119793553-119798482 chr10:119793493-119793552 3;25 K cassette CUFF.1265 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 66;172 N alternative_donor CUFF.1220,CUFF.1265 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 428;3 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 327;6 K alternative_donor CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 244;587 N coord_cassette CUFF.1960 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 21;95 K jcn_only_AD CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 34;115 N jcn_only_AD CUFF.1954 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 17;696 N jcn_only_AA CUFF.1964 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 154;77 K coord_cassette CUFF.1967 chr17 - chr17:79354385-79358928 chr17:79354385-79355676;chr17:79355741-79358745;chr17:79358833-79358928 chr17:79355677-79355740;chr17:79358746-79358832 37;575 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 225;456 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 859;31 N jcn_only_AD CUFF.1890 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 393;27 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 91;118 K intron_retention CUFF.1954 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 151;129 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 5;271 N jcn_only_AA CUFF.1889 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 2;52 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 762;11 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 51;104 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 70;585 N jcn_only_AA CUFF.1889 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 240;63 N alternative_donor CUFF.1944 chr17 + chr17:61905570-61907211 chr17:61906924-61907211 chr17:61905570-61906923 chr17:61905569-61905570 38;514 K intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 108;8 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 756;57 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 14;186 N jcn_only_AA CUFF.1890 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 456;35 N alternative_acceptor chr17 + chr17:61905570-61907211 chr17:61905570-61906853 chr17:61906854-61907211 chr17:61907211-61907212 38;171 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 443;13 K intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 121;158 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 57;100 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 51;148 K alternative_last_exon CUFF.1975 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993734-79993939 33;682 N cassette CUFF.1875 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 46;88 N cassette CUFF.1924 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 34;156 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 493;296 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 61;22 N jcn_only_AA CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 443;226 N alternative_acceptor CUFF.1968 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 26;342 K alternative_acceptor CUFF.1899 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 93;79 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 266;57 K jcn_only_AD CUFF.1889 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 210;20 K jcn_only_AA CUFF.1908 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 122;217 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 319;848 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 307;26 K cassette CUFF.1889 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 141;104 N jcn_only_AD CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 443;172 N intron_retention CUFF.1944 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 122;61 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 22;0 N alternative_donor CUFF.1954 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 17;385 N jcn_only_AA CUFF.1964 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 71;115 N jcn_only_AA CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 94;393 N alternative_first_exon CUFF.1944 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61907972-61908295 36;1579 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 11;147 N cassette CUFF.1972 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 92;267 K intron_retention CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 468;103 N alternative_donor CUFF.1898 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 74;0 K intron_retention CUFF.1922 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 35;22 N alternative_acceptor CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 578;36 N alternative_acceptor CUFF.1964 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 71;21 N alternative_acceptor CUFF.1954 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 527;16 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 682;22 N coord_cassette CUFF.1960 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 65;156 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 162;39 N cassette CUFF.1912 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 21;180 N jcn_only_AD CUFF.1936 chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 63;40 K intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 148;91 K intron_retention CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 172;92 N jcn_only_AA chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 33;441 K alternative_first_exon CUFF.1889 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5407909 chr17:5403351-5404517 121;275 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 687;203 N alternative_donor CUFF.1936 chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 63;6 K intron_retention CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 34;46 N alternative_acceptor CUFF.1907 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 11;1 K intron_retention CUFF.1881 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 399;52 K coord_cassette CUFF.1912 chr17 + chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704;chr17:29584745-29585361 chr17:29579956-29580018;chr17:29584705-29584744 21;291 N mutually_exclusive CUFF.1967 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 15;50 N alternative_acceptor CUFF.1972 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 48;501 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 138;409 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 182;161 K intron_retention CUFF.1975 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 1267;143 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 521;47 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 79;21 K intron_retention CUFF.1960 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 237;12 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 242;81 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 49;179 N alternative_donor CUFF.1924 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 173;3 K intron_retention CUFF.1976 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 373;44 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 80;45 N intron_retention chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 2;50 N alternative_acceptor CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 547;125 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 26;68 N jcn_only_AA chr17 + chr17:29706042-29708890 chr17:29706042-29706123 22;12 N jcn_only_AD chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 86;136 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 48;173 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 378;327 K alternative_donor CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 chr17:46993438-46993549 97;74 N alternative_last_exon CUFF.1899 chr17 - chr17:15492542-15499827 chr17:15498141-15499827,chr17:15498205-15499827 chr17:15491700-15492541 chr17:15498062-15498140 37;154 N intron_retention CUFF.1954 chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 50;36 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 195;48 N jcn_only_AA CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 578;101 N intron_retention chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 95;101 K intron_retention CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 287;55 K jcn_only_AD CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416394-80417867 chr17:80416385-80416393 chr17:80416384-80416385 86;234 N jcn_only_AA chr17 - chr17:15580592-15580888 chr17:15580595-15580888 39;40 N jcn_only_AD chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 121;381 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 490;191 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 447;121 N jcn_only_AA CUFF.1975 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1051;46 N jcn_only_AD chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 121;79 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 52;131 N alternative_acceptor CUFF.1889 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 2;55 K cassette CUFF.1912 chr17 + chr17:29687722-29701030 chr17:29687722-29694242;chr17:29694297-29701030 chr17:29694243-29694296 241;53 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 29;567 K cassette CUFF.1921 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 54;156 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 28;22 K cassette CUFF.1900 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 26;69 K alternative_acceptor CUFF.1908 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 122;212 N intron_retention chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 86;654 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 89;488 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 51;85 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 788;228 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 30;32 N intron_retention chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 63;80 K cassette CUFF.1895 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 23;38 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 260;756 N intron_retention chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 46;153 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 765;125 K intron_retention CUFF.1881 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 237;53 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 573;85 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 648;34 K alternative_donor CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416394-80417867 chr17:80416385-80416393 chr17:80416384-80416385 86;120 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 522;136 N cassette CUFF.1898 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 57;162 N coord_cassette CUFF.1908 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 15;409 N cassette CUFF.1953 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 10;32 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 453;3 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 367;422 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 498;70 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 211;32 N alternative_donor CUFF.1929 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 22;15 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 63;59 K cassette CUFF.1878 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 688;513 N jcn_only_AA CUFF.1889 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 231;28 K intron_retention CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 743;37 K intron_retention CUFF.1944 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 979;43 K intron_retention CUFF.1889 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 52;255 K intron_retention CUFF.1964 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 197;165 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 57;162 K intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 125;145 N intron_retention chr17 - chr17:5487280-5487612 chr17:5487279-5487280;chr17:5487612-5487613 2;191 N jcn_only_AD CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 52;24 N intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 43;23 N jcn_only_AD CUFF.1899 chr17 - chr17:15562191-15584178 chr17:15562191-15580489 105;52 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 46;216 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 5;26 N cassette CUFF.1908 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 11;202 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 625;83 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 124;438 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 240;468 N jcn_only_AA CUFF.1954 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 527;33 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 316;7 K intron_retention CUFF.1912 chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 348;9 K cassette CUFF.1942 chr17 + chr17:61562734-61563917 chr17:61562734-61563719;chr17:61563733-61563917 chr17:61563720-61563732 254;108 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 48;154 N cassette CUFF.1921 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 4;36 N intron_retention chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 191;244 N jcn_only_AD chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 17;43 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 769;121 N cassette CUFF.1942 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 45;553 N jcn_only_AD chr17 - chr17:36345479-36348510 chr17:36345479-36346437 1;2 N jcn_only_AD CUFF.1881 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 488;4 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 432;23 K intron_retention CUFF.1936 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 106;159 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 764;49 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 440;30 K intron_retention CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 2157;66 K jcn_only_AD CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 chr17:46993438-46993549 97;98 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 328;5 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 22;0 K intron_retention CUFF.1975 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 1191;86 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 621;87 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 143;756 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 742;148 N jcn_only_AA CUFF.1954 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 33;86 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 536;105 N cassette CUFF.1942 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 52;271 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 560;17 N jcn_only_AD CUFF.1953 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 7;20 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 21;30 K jcn_only_AD CUFF.1936 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 373;42 N alternative_donor chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 17;20 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 383;138 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 201;20 K intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 100;389 K intron_retention CUFF.1926 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 121;82 N jcn_only_AA CUFF.1964 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 24;127 N alternative_acceptor chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 422;19 N cassette CUFF.1912 chr17 + chr17:29677337-29683477 chr17:29677337-29679274;chr17:29679433-29683477 chr17:29679275-29679432 47;172 K cassette CUFF.1977 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 332;763 N jcn_only_AA CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 172;29 K coord_cassette CUFF.1960 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 158;196 K jcn_only_AD CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 244;85 N alternative_donor CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 578;29 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 54;2 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 488;32 K intron_retention chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 419;233 N alternative_donor CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 443;27 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 70;574 N alternative_acceptor CUFF.1889 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 240;2 K jcn_only_AD CUFF.1912 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 51;240 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 33;312 N cassette CUFF.1977 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 36;362 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 439;82 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 13;182 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 644;246 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 167;0 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 534;44 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 754;11 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 416;781 K intron_retention CUFF.1881 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 241;81 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 645;60 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 72;51 N alternative_donor CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 13;1 N jcn_only_AA CUFF.1977 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 139;488 N alternative_acceptor CUFF.1977 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 139;470 N cassette CUFF.1967 chr17 - chr17:79354385-79358928;chr17:79355741-79358928 chr17:79355741-79358745,chr17:79354385-79358745;chr17:79358833-79358928 chr17:79358746-79358832 84;580 N cassette CUFF.1960 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 21;547 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 217;17 K cassette CUFF.1932 chr17 - chr17:47302494-47304008 chr17:47302494-47303017;chr17:47303140-47304008 chr17:47303018-47303139 88;20 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 498;5 K alternative_last_exon CUFF.1899 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491700-15492541 11;77 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 525;48 N cassette CUFF.1972 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 94;419 K coord_cassette CUFF.1972 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 73;299 N alternative_acceptor CUFF.1936 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 48;128 K jcn_only_AA CUFF.1917 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 117;210 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 754;11 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 98;241 N intron_retention chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 14;68 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 9;33 N alternative_last_exon CUFF.1890 chr17 + chr17:6352728-6353681,chr17:6352728-6353347 chr17:6352728-6353023 chr17:6353682-6353826 chr17:6353024-6353290 329;358 K cassette CUFF.1902 chr17 + chr17:17380580-17394592 chr17:17380580-17388613;chr17:17388748-17394592 chr17:17388614-17388747 12;34 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 494;9 N cassette CUFF.1912 chr17 + chr17:29576138-29584704 chr17:29576138-29579955;chr17:29580019-29584704 chr17:29579956-29580018 29;297 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 556;84 N jcn_only_AD CUFF.1977 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 786;23 K cassette CUFF.1930 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 chr17:46987662-46988242;chr17:46993438-46993549 103;141 N alternative_donor CUFF.1960 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 202;3 K cassette CUFF.1941 chr17 + chr17:60783831-60813446 chr17:60783831-60784792;chr17:60784969-60813446 chr17:60784793-60784968 41;197 N intron_retention chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 23;2 N alternative_acceptor CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 2157;92 K intron_retention CUFF.1944 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 61;140 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 557;8 K intron_retention CUFF.1912 chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 310;5 N cassette CUFF.1967 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 51;614 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 672;36 N jcn_only_AD chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 62;20 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 72;162 K cassette CUFF.1930 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 chr17:46987662-46988242;chr17:46993438-46993549 103;155 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 274;34 K coord_cassette CUFF.1924 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 326;187 K intron_retention CUFF.1878 chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 244;545 N alternative_donor chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 39;599 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 374;191 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 76;95 K intron_retention CUFF.1875 chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 51;109 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 480;160 K intron_retention CUFF.1878 chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 85;133 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 361;141 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 770;20 K intron_retention CUFF.1930 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 chr17:46993438-46993549 97;85 N jcn_only_AD CUFF.1929 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 22;26 N cassette CUFF.1942 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 34;318 N alternative_donor CUFF.1881 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 488;43 K intron_retention CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 45;94 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 26;212 N jcn_only_AD CUFF.1881 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 14;382 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 15;136 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 21;148 K intron_retention CUFF.1912 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 342;9 K intron_retention CUFF.1908 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 273;6 N alternative_acceptor CUFF.1942,CUFF.1977 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 310;65 N alternative_donor CUFF.1881 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 14;238 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 932;185 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 14;42 N alternative_acceptor CUFF.1890 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 456;13 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 102;20 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 70;48 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 129;8 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 519;138 N jcn_only_AA CUFF.1907 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 11;3 K intron_retention CUFF.1900 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 49;19 K jcn_only_AA CUFF.1942 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 163;89 K alternative_donor CUFF.1932 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 34;71 N alternative_donor CUFF.1953 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 7;1 K intron_retention CUFF.1905 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 179;77 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 431;210 K intron_retention CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 547;90 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 37;296 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 80;20 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 41;9 N jcn_only_AD CUFF.1898 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 74;19 N intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 82;178 K alternative_first_exon CUFF.1911 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421849-29422387 chr17:29455478-29455525 105;36 N jcn_only_AD CUFF.1977 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 387;405 K alternative_last_exon CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75557027-75559326 chr17:75544053-75544076 24;10 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 84;9 N jcn_only_AD CUFF.1881 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 302;50 N jcn_only_AD CUFF.1958 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 13;4 N intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 831;55 N alternative_acceptor chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 33;52 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 446;127 K intron_retention CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 52;104 N jcn_only_AA CUFF.1898 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 547;37 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 346;468 K jcn_only_AA CUFF.1975 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 419;304 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 15;488 N alternative_acceptor CUFF.1912 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 22;0 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 57;34 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 129;296 K intron_retention CUFF.1954 chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 145;66 N jcn_only_AA CUFF.1942,CUFF.1977 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 310;72 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 609;48 K alternative_donor CUFF.1889 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 210;10 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 882;17 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 28;171 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 469;104 N cassette CUFF.1977 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 375;384 N intron_retention chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 13;3 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 227;115 K cassette CUFF.1942 chr17 + chr17:61560051-61560820 chr17:61560051-61560389;chr17:61560535-61560820 chr17:61560390-61560534 80;118 N cassette CUFF.1908 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 132;165 N jcn_only_AA chr17 + chr17:61905570-61907211 chr17:61905570-61906853 chr17:61906854-61907211 chr17:61907211-61907212 38;496 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 32;1016 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 404;66 N intron_retention chr17 + chr17:80416707-80417875 chr17:80416706-80416707;chr17:80417875-80417876 52;4 K alternative_first_exon CUFF.1928 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339533 29;140 K cassette CUFF.1900 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 21;66 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 220;301 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 34;58 K intron_retention CUFF.1968 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 518;5 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 71;52 K intron_retention CUFF.1909 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 45;29 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 41;59 K alternative_donor CUFF.1912 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 51;148 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 0;22 K cassette CUFF.1889 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 90;116 N jcn_only_AD chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 39;1051 K coord_cassette CUFF.1912 chr17 + chr17:29664899-29667522 chr17:29664899-29665042;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665043-29665157;chr17:29665722-29665823 57;136 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 38;86 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 118;82 N alternative_donor CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 743;8 N jcn_only_AA CUFF.1881,CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 86;24 K alternative_acceptor CUFF.1975 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 419;314 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 502;1 K intron_retention CUFF.1881 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 16;47 K intron_retention CUFF.1944 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 770;47 K intron_retention chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 239;18 N jcn_only_AD CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6353393-6353681 94;172 K coord_cassette CUFF.1960 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 158;156 K cassette CUFF.1908 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 206;356 N jcn_only_AD CUFF.1960 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 202;35 K cassette CUFF.1900 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 73;18 N jcn_only_AD CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 60;32 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 162;5 N jcn_only_AA CUFF.1889 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 257;3 N mutually_exclusive CUFF.1972 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 18;12 N jcn_only_AA chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 422;26 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 44;12 K intron_retention CUFF.1975 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 891;282 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 564;9 K intron_retention CUFF.1908 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 434;22 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 261;209 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 312;283 N alternative_acceptor CUFF.1878 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 466;82 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 79;127 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 274;104 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 159;163 N cassette CUFF.1924 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 39;38 K coord_cassette CUFF.1900 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 26;67 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 94;74 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 400;70 N jcn_only_AA CUFF.1908 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 307;21 K intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 246;118 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 259;63 N jcn_only_AD CUFF.1924 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 173;74 N alternative_donor chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 86;605 N alternative_donor CUFF.1890 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 393;14 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 23;135 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 873;16 K jcn_only_AA CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 287;16 K cassette CUFF.1926 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 68;123 N alternative_acceptor CUFF.1975 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1051;129 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 106;17 N cassette CUFF.1898 chr17 - chr17:15546131-15562115;chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15580489,chr17:15555261-15562115 chr17:15554405-15555260 101;123 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 802;23 N alternative_donor CUFF.1977 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 786;120 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 39;176 N intron_retention CUFF.1954 chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 7;39 K intron_retention CUFF.1967 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 891;8 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 316;109 N cassette CUFF.1881 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 90;256 N cassette CUFF.1911 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 19;89 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 4;28 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 42;51 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 247;76 N cassette CUFF.1919 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 76;43 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 674;34 N alternative_donor CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 468;220 K intron_retention CUFF.1975 chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 304;91 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 16;154 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 408;296 N cassette CUFF.1898 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 134;171 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 167;0 N jcn_only_AA CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 60;18 N alternative_first_exon CUFF.1932 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496809 34;94 K intron_retention chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 271;13 K intron_retention CUFF.1977 chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 332;89 N intron_retention CUFF.1890 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 29;95 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 8;230 N jcn_only_AD CUFF.1942 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 394;29 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 290;49 N jcn_only_AA CUFF.1975 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 451;280 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 738;51 N cassette CUFF.1944 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 80;751 N jcn_only_AD CUFF.1968 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 578;80 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 30;743 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 5;162 N intron_retention chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 39;232 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 288;285 K alternative_last_exon CUFF.1977 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436676-80436794 chr17:80436447-80436469 266;12 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 24;32 N alternative_acceptor CUFF.1964 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 154;23 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 422;3 N alternative_donor CUFF.1977 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 387;43 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 31;19 N jcn_only_AA chr17 + chr17:18604759-18625549 chr17:18604759-18607931 3;4 N jcn_only_AD CUFF.1944 chr17 + chr17:61905570-61907211 chr17:61906924-61907211 chr17:61905570-61906923 chr17:61905569-61905570 38;881 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 482;86 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 80;163 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 408;17 N intron_retention CUFF.1924 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 74;26 N alternative_acceptor CUFF.1881 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 52;325 N alternative_donor CUFF.1964 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 52;131 N alternative_acceptor chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 274;57 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 292;31 K intron_retention CUFF.1944 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 881;41 N jcn_only_AD CUFF.1977 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 743;9 N jcn_only_AA CUFF.1912 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 22;14 N intron_retention chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 49;63 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 139;89 K intron_retention CUFF.1944 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 897;50 K intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 381;228 N intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 496;186 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 11;66 K cassette CUFF.1964 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 131;53 K alternative_acceptor CUFF.1917 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 117;104 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 35;790 N jcn_only_AA CUFF.1936 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 48;106 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 26;143 N alternative_acceptor CUFF.1964 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 24;121 N intron_retention chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 37;56 N coord_cassette CUFF.1960 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 96;169 N alternative_acceptor CUFF.1908 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 307;2 K intron_retention chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 1051;215 N alternative_acceptor CUFF.1890 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 172;73 K intron_retention CUFF.1928 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 19;19 K jcn_only_AA CUFF.1899 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 93;125 N cassette CUFF.1960 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 762;201 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 277;381 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 578;63 N cassette CUFF.1953 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 34;15 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 290;33 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 74;49 N alternative_donor CUFF.1942 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 394;361 K intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 203;122 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 441;15 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 179;55 N intron_retention chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 136;242 N alternative_acceptor CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 60;6 N jcn_only_AA CUFF.1878 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 466;22 N jcn_only_AA CUFF.1975 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 593;138 N alternative_acceptor CUFF.1890 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 94;227 K intron_retention CUFF.1912 chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 285;3 K cassette CUFF.1900 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 86;86 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 548;29 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 227;95 N alternative_donor CUFF.1912 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 60;13 N jcn_only_AA CUFF.1889 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 31;229 N alternative_donor CUFF.1881 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 302;19 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 47;586 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 756;57 N intron_retention chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 9;186 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 22;4 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 557;100 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 42;40 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 22;743 K intron_retention CUFF.1895 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 31;43 N alternative_donor chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 121;692 N jcn_only_AA CUFF.1944 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 2157;122 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 441;57 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 294;162 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 199;366 N jcn_only_AA CUFF.1975 chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 419;312 N jcn_only_AA CUFF.1881 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 52;659 N jcn_only_AD CUFF.1944 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 468;274 K alternative_acceptor CUFF.1881 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 287;34 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 814;12 K coord_cassette CUFF.1898 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 134;163 K intron_retention CUFF.1975 chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 280;284 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 11;116 N intron_retention CUFF.1944 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 79;77 N alternative_acceptor CUFF.1954 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 443;69 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 285;38 K intron_retention CUFF.1881 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 591;140 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 985;32 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 632;182 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 291;49 N intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 34;135 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 167;0 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 649;8 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 375;95 N jcn_only_AA CUFF.1968 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 26;565 N intron_retention CUFF.1898 chr17 - chr17:15584268-15586174 chr17:15584267-15584268;chr17:15586174-15586175 51;11 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 121;640 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 754;19 K cassette CUFF.1943 chr17 - chr17:61843555-61850771 chr17:61843555-61850136;chr17:61850224-61850771 chr17:61850137-61850223 101;34 N jcn_only_AA CUFF.1972 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 48;1049 K alternative_donor CUFF.1936 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 373;27 N cassette CUFF.1960 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 967;231 N jcn_only_AD CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 45;831 N alternative_donor CUFF.1944 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 45;391 K intron_retention CUFF.1936 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 215;73 K alternative_acceptor CUFF.1942 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 163;110 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 66;57 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 60;33 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 167;0 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 324;244 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 621;19 N alternative_acceptor CUFF.1881,CUFF.1977 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 86;12 N intron_retention CUFF.1944 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 57;110 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 34;112 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 217;239 K cassette CUFF.1927 chr17 - chr17:42113669-42114779 chr17:42113669-42114229;chr17:42114471-42114779 chr17:42114230-42114470 15;127 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 238;419 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 773;126 K jcn_only_AA CUFF.1815 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 160;403 K cassette CUFF.1784 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 61;128 N alternative_donor CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 393;123 N alternative_donor CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 571;210 K intron_retention CUFF.1819 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 231;33 N alternative_acceptor CUFF.1855,CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 223;87 K alternative_acceptor CUFF.1768,CUFF.1783 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 44;181 K jcn_only_AD CUFF.1819 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 273;38 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 130;5 N alternative_acceptor CUFF.1866 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 5;50 K intron_retention CUFF.1836 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 175;59 N intron_retention CUFF.1800 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 161;116 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 6;352 N cassette CUFF.1783 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 36;719 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 452;125 N jcn_only_AD CUFF.1861 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 214;46 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 40;723 N alternative_acceptor CUFF.1800 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 705;11 K alternative_last_exon CUFF.1768 chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:597559-598287 chr16:596817-597392 189;51 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 697;106 N alternative_donor CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63565209-63566720 chr16:63566721-63651596 chr16:63651596-63651597 227;0 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 560;312 N alternative_acceptor CUFF.1768 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 6;10 K intron_retention CUFF.1874 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 568;106 K intron_retention CUFF.1874 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 530;37 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77776186 chr16:77769725-77770146 89;317 K intron_retention CUFF.1829 chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 120;39 K intron_retention CUFF.1860 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 28;18 K alternative_acceptor CUFF.1873 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 30;10 N jcn_only_AA chr16 + chr16:21976827-22352970 chr16:21976827-21979948 chr16:21979949-22352970 chr16:22352970-22352971 2;143 K alternative_first_exon CUFF.1819 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695667-21695873 20;169 N jcn_only_AD chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 143;40 N cassette CUFF.1800 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 106;374 N coord_cassette CUFF.1815 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 47;602 N intron_retention chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 12;68 N jcn_only_AA CUFF.1860 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 7;84 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 76;187 N alternative_acceptor CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 340;1 K intron_retention CUFF.1861 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 109;56 N intron_retention chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 82;30 N jcn_only_AA CUFF.1815 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 377;98 N mutually_exclusive CUFF.1783 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 19;14 N alternative_donor CUFF.1777 chr16 + chr16:2201611-2201695 chr16:2201612-2201695 chr16:2201611-2201611 chr16:2201610-2201611 1;145 N alternative_acceptor CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1837;8 N intron_retention chr16 - chr16:57513601-57521042 chr16:57513600-57513601;chr16:57521042-57521043 37;95 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 566;11 K intron_retention CUFF.1836 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 378;78 N jcn_only_AD CUFF.1873 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 81;108 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 322;39 N alternative_acceptor CUFF.1860 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 7;38 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 186;124 K intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 347;92 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 539;40 N cassette CUFF.1815 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 14;191 N intron_retention CUFF.1861 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 91;2 N alternative_donor CUFF.1768 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 36;0 N alternative_donor CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 340;1 K alternative_acceptor CUFF.1767,CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 93;208 K cassette CUFF.1767 chr16 + chr16:105883-106538 chr16:105883-106320;chr16:106421-106538 chr16:106321-106420 629;27 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 20;0 K intron_retention CUFF.1836 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 571;18 K alternative_donor CUFF.1874 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 332;104 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 167;143 N jcn_only_AD CUFF.1768 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 36;6 N cassette CUFF.1863 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 49;38 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 567;10 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 141;209 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 19;90 K intron_retention CUFF.1773 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 148;93 N jcn_only_AD CUFF.1855 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 57;159 K intron_retention CUFF.1863 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 95;51 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 157;38 N mutually_exclusive CUFF.1861 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 70;18 K intron_retention chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 143;11 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 839;33 N intron_retention CUFF.1838 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 7;22 N intron_retention CUFF.1829 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 214;276 K intron_retention CUFF.1874 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 346;44 N mutually_exclusive CUFF.1783 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 10;38 N coord_cassette CUFF.1783 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 25;1179 N alternative_acceptor chr16 + chr16:21976827-22352970 chr16:21976827-21979948 chr16:21979949-22352970 chr16:22352970-22352971 2;0 N jcn_only_AA CUFF.1856 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 81;525 K intron_retention CUFF.1767 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 36;100 K alternative_first_exon CUFF.1874 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89787907-89788253 226;192 K jcn_only_AA CUFF.1768,CUFF.1783 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 44;93 N coord_cassette CUFF.1821 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 34;39 N jcn_only_AD CUFF.1860 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 59;7 K alternative_acceptor CUFF.1855 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 23;423 N cassette CUFF.1813 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 51;135 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 59;140 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 17;210 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 392;83 N mutually_exclusive CUFF.1855 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 37;22 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 301;264 N cassette CUFF.1838 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 8;34 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6328435-6400445;chr16:6093174-6400445 chr16:6028174-6400445 448;3 N cassette CUFF.1813 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 15;159 K intron_retention CUFF.1777 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 256;89 K alternative_donor CUFF.1819 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 273;53 K alternative_first_exon CUFF.1833 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523453 chr16:28518102-28518155 29;44 K intron_retention CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 393;275 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 374;498 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 3;231 N cassette CUFF.1856 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 103;47 K cassette CUFF.1856 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 175;125 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 49;33 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6328435-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6028179-6400445 450;2 N cassette CUFF.1821 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 65;72 N alternative_donor CUFF.1855 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 57;79 K alternative_acceptor CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 101;255 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 15;231 K cassette CUFF.1866 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 177;27 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 30;55 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 177;19 N cassette CUFF.1801 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 22;293 K intron_retention CUFF.1856 chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 344;43 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 862;11 N jcn_only_AD chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 296;671 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 12;124 K intron_retention CUFF.1819 chr16 + chr16:21730513-21730707 chr16:21730512-21730513;chr16:21730707-21730708 336;3 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 14;95 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 205;17 K intron_retention CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 22;98 N cassette CUFF.1783 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 42;1349 N jcn_only_AD CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 571;161 N cassette CUFF.1861 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 112;203 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 678;394 K intron_retention CUFF.1800 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 1114;86 N alternative_donor CUFF.1860 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 132;5 K intron_retention CUFF.1858 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 50;54 N jcn_only_AD CUFF.1829 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 393;214 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 114;487 K jcn_only_AA CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 22;195 N coord_cassette CUFF.1800 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 145;649 N jcn_only_AD CUFF.1860 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 132;9 N cassette CUFF.1838 chr16 + chr16:31374696-31382404 chr16:31374696-31381301;chr16:31381420-31382404 chr16:31381302-31381419 15;2 K intron_retention chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 13;47 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6328435-6400445;chr16:6028174-6400445 chr16:6093174-6400445 15;437 K jcn_only_AA CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 101;344 N alternative_acceptor CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 110;14 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 203;316 N alternative_first_exon chr16 - chr16:4254636-4289634;chr16:4254636-4292007 chr16:4254636-4256727 chr16:4292008-4292076 chr16:4256728-4258105 21;34 N cassette CUFF.1800 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 100;932 K alternative_first_exon CUFF.1777 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190709-2190950 chr16:2198573-2198979 65;219 K jcn_only_AD CUFF.1855 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 724;185 N cassette CUFF.1861 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 21;120 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 153;424 N jcn_only_AA CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1837;25 K intron_retention CUFF.1874 chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 372;11 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 799;393 N jcn_only_AA CUFF.1800 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 705;112 N cassette CUFF.1863 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 16;67 N jcn_only_AD chr16 + chr16:6028179-6400445;chr16:6328435-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6093177-6400445 444;8 N jcn_only_AA CUFF.1865 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170264-76174301 chr16:76170263-76170264 103;753 K alternative_acceptor CUFF.1815 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 160;199 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 59;90 N jcn_only_AA CUFF.1768 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 6;8 N jcn_only_AA CUFF.1856 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 794;21 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 854;19 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 235;12 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 85;267 K cassette CUFF.1777 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 188;116 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 81;110 K intron_retention CUFF.1856 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 101;154 K intron_retention chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 31;195 N jcn_only_AD CUFF.1800 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 5;100 N cassette CUFF.1815 chr16 + chr16:19659205-19663297 chr16:19659205-19661703;chr16:19661782-19663297 chr16:19661704-19661781 82;183 N cassette CUFF.1783 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 47;1238 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 588;714 K intron_retention CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 223;48 N alternative_acceptor CUFF.1815 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 377;134 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 237;65 N jcn_only_AD CUFF.1863 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 74;7 K intron_retention CUFF.1861 chr16 + chr16:70398549-70398919 chr16:70398548-70398549;chr16:70398919-70398920 269;2 N coord_cassette CUFF.1863 chr16 - chr16:75576582-75589701 chr16:75576582-75579249;chr16:75579394-75579723;chr16:75579853-75589701 chr16:75579250-75579393;chr16:75579724-75579852 49;34 N alternative_donor CUFF.1860 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 59;4 N jcn_only_AA CUFF.1855,CUFF.1861 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 223;91 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 1;19 N coord_cassette CUFF.1815 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 57;163 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 17;88 N alternative_acceptor CUFF.1800 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 47;21 N jcn_only_AA CUFF.1866 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 5;273 N jcn_only_AA CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 340;7 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 1253;49 K intron_retention CUFF.1768 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 20;87 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 570;7 N alternative_acceptor CUFF.1865 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170264-76174301 chr16:76170263-76170264 103;32 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 1605;219 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 409;394 N jcn_only_AD CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63565209-63566720 chr16:63566721-63651596 chr16:63651596-63651597 227;19 N mutually_exclusive CUFF.1815 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 46;107 N alternative_donor CUFF.1861 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 214;8 N coord_cassette CUFF.1836 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 82;257 N alternative_donor chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 296;38 K alternative_donor CUFF.1829,CUFF.1860 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 53;6 K alternative_first_exon CUFF.1815 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19612986-19613045 chr16:19619037-19619183 304;637 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 22;28 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 57;139 N jcn_only_AA CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63566836-63651596 chr16:63565209-63566835 chr16:63565208-63565209 227;44 N cassette CUFF.1841 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 26;21 K alternative_donor CUFF.1855 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 724;92 N jcn_only_AA CUFF.1849 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 146;347 N alternative_first_exon chr16 - chr16:4445341-4447318,chr16:4445341-4466785;chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466460-4466665 chr16:4455492-4455568 301;500 N cassette CUFF.1849 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 133;876 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 628;175 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 332;314 N jcn_only_AA CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 110;7 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 670;1151 K intron_retention CUFF.1767 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 629;89 N cassette CUFF.1855 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 45;782 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 19;1 K intron_retention CUFF.1856 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 83;119 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 20;18 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 297;266 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 834;59 N jcn_only_AD CUFF.1856 chr16 - chr16:4466963-4475478 chr16:4466963-4470359 54;57 N cassette CUFF.1800 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 46;587 K intron_retention CUFF.1861 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 203;32 N alternative_acceptor CUFF.1849 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 146;255 K intron_retention CUFF.1800 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 1127;33 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 83;241 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 5;323 K jcn_only_AA CUFF.1873 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 30;22 N cassette CUFF.1861 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 72;118 K jcn_only_AA CUFF.1815 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 194;138 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 675;128 K intron_retention CUFF.1767 chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 29;121 N jcn_only_AA CUFF.1800 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 47;816 K cassette CUFF.1853 chr16 + chr16:66613796-66620899 chr16:66613796-66613928;chr16:66614088-66620899 chr16:66613929-66614087 chr16:66613351-66613795;chr16:66620900-66621001 63;314 N alternative_donor CUFF.1863 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 74;1 K alternative_last_exon CUFF.1821,CUFF.1825 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22470676-22470812 chr16:22466771-22466821 54;1 N jcn_only_AD chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 61;539 K intron_retention CUFF.1829 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 716;26 K cassette CUFF.1836 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 201;29 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 53;237 K alternative_donor CUFF.1873 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 57;22 K jcn_only_AA CUFF.1767,CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 93;372 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 394;125 K intron_retention CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 571;107 K intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 714;41 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 17;45 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 376;41 K intron_retention CUFF.1800 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 517;71 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 1023;49 N alternative_donor CUFF.1800 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 5;5 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 53;198 N jcn_only_AD CUFF.1777 chr16 + chr16:2201611-2201695 chr16:2201612-2201695 chr16:2201611-2201611 chr16:2201610-2201611 1;291 K alternative_last_exon CUFF.1805 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660295-5660675 36;275 K intron_retention CUFF.1858 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 72;64 N coord_cassette CUFF.1861 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 72;130 K intron_retention CUFF.1821 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 639;31 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 129;6 N cassette CUFF.1861 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 71;224 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 40;378 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 1248;451 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 763;539 K jcn_only_AD CUFF.1873 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 57;26 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 39;9 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 384;91 N jcn_only_AD CUFF.1819 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 340;5 K jcn_only_AA CUFF.1858 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 146;103 N intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 146;91 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 740;332 K intron_retention CUFF.1801 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 431;109 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 11;64 N alternative_acceptor CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 571;97 K alternative_acceptor CUFF.1858 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 146;56 K intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 315;89 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 13;1685 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 76;146 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 31;84 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 1109;83 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 516;49 K intron_retention CUFF.1777 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 195;49 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 49;343 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 140;91 N intron_retention chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 13;28 K cassette CUFF.1821 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 501;158 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 31;17 N jcn_only_AD CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1837;17 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 500;393 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 476;716 K jcn_only_AD CUFF.1829,CUFF.1860 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 53;12 K intron_retention CUFF.1813 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 15;130 K intron_retention CUFF.1874 chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 93;36 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 1265;41 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 203;445 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 17;10 N alternative_donor CUFF.1860 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 34;6 N alternative_donor chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 143;20 K jcn_only_AD CUFF.1874 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 332;227 N cassette CUFF.1783 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 132;933 N alternative_donor CUFF.1825 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 148;16 K intron_retention chr16 + chr16:19584564-19586419 chr16:19584563-19584564;chr16:19586419-19586420 358;19 N cassette CUFF.1815 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 196;643 N jcn_only_AD CUFF.1825 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 148;26 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 25;148 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 26;22 K alternative_donor CUFF.1774 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 159;235 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 13;925 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 267;43 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028179-6400445;chr16:6028174-6400445;chr16:6093174-6400445 chr16:6328435-6400445 449;2 N cassette CUFF.1838 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 6;18 K intron_retention CUFF.1777 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 112;128 K jcn_only_AA CUFF.1855 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 23;901 K intron_retention CUFF.1861 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 55;29 N alternative_acceptor CUFF.1856 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 794;11 K intron_retention CUFF.1784 chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 22;40 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 313;252 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 125;292 N alternative_donor CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 117;22 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 59;152 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 232;2 N intron_retention chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 39;177 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 233;1 N mutually_exclusive CUFF.1783 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 10;38 N alternative_donor chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 61;416 N jcn_only_AD CUFF.1860 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 34;13 K intron_retention CUFF.1858 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 204;57 N cassette CUFF.1866 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 43;216 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 831;227 K jcn_only_AD CUFF.1774 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 159;478 K intron_retention CUFF.1800 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 837;172 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 53;221 N cassette CUFF.1815 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 63;247 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 22;157 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 333;84 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 774;297 K intron_retention CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 117;22 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 209;43 K intron_retention CUFF.1853 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 612;112 K intron_retention CUFF.1838 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 110;23 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 59;169 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 63;52 K alternative_acceptor CUFF.1777 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 22;162 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 8;17 N alternative_acceptor CUFF.1852 chr16 - chr16:63565209-63651596 chr16:63566836-63651596 chr16:63565209-63566835 chr16:63565208-63565209 227;4 N alternative_donor CUFF.1849 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1837;4 K alternative_first_exon CUFF.1815 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566562-19566642 chr16:19566681-19567068 113;291 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 243;4 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 422;53 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 163;59 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 124;134 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 452;441 N jcn_only_AD CUFF.1863 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 117;42 N jcn_only_AA chr16 - chr16:4466963-4475478 chr16:4470555-4475478 54;56 N jcn_only_AA CUFF.1800 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 571;141 K alternative_first_exon CUFF.1813 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15188002-15188245 chr16:15187809-15187959 84;66 N cassette CUFF.1810 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 47;158 N cassette CUFF.1779 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 35;14 K alternative_last_exon CUFF.1784 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3195669-3195779 chr16:3194985-3195168 15;155 K cassette CUFF.1687 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 347;80 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 163;49 N alternative_donor CUFF.1717 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 218;5 K intron_retention CUFF.1735 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 54;104 N jcn_only_AD CUFF.1704 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 1246;54 K intron_retention CUFF.1672 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 43;71 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 1953;1 N alternative_donor CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 203;1 N cassette CUFF.1737 chr15 - chr15:78487069-78526712 chr15:78487069-78518796;chr15:78518948-78526712 chr15:78518797-78518947 20;117 K alternative_acceptor CUFF.1704 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 18;670 N alternative_donor CUFF.1704 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 266;44 K intron_retention chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 366;52 K intron_retention CUFF.1720 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 27;44 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 1951;3 N coord_cassette CUFF.1697 chr15 - chr15:55485032-55488550 chr15:55485032-55486350;chr15:55486382-55486493;chr15:55486558-55488550 chr15:55486351-55486381;chr15:55486494-55486557 29;26 N cassette CUFF.1659 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 34;533 N alternative_donor CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 101;7 N cassette CUFF.1681 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 24;205 N alternative_acceptor CUFF.1732 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 32;7 N jcn_only_AA CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78807450-78810929 chr15:78810930-78819721 chr15:78819721-78819722 189;25 N cassette CUFF.1737 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 20;81 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 16;307 K cassette CUFF.1686 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 20;48 N cassette CUFF.1758 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 96;18 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 8;10 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 8;254 N cassette CUFF.1697 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 29;21 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 70;124 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 1912;12 N jcn_only_AD CUFF.1663 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 36;75 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 30;254 N cassette CUFF.1681 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 124;190 N coord_cassette CUFF.1721 chr15 - chr15:64658275-64673156 chr15:64658275-64665896;chr15:64665964-64668941;chr15:64669105-64673156 chr15:64665897-64665963;chr15:64668942-64669104 11;17 K cassette CUFF.1764 chr15 - chr15:102194934-102197124 chr15:102194934-102196069;chr15:102196224-102197124 chr15:102196070-102196223 121;29 N cassette CUFF.1734 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577421-77578764 chr15:77577300-77577420 3;230 K coord_cassette CUFF.1686 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47685518;chr15:47685683-47687757 chr15:47672654-47672792;chr15:47685519-47685682 20;15 N jcn_only_AD CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 101;21 N alternative_donor CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24825478-24832713 chr15:24820151-24825477 chr15:24820150-24820151 51;0 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 138;9 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 669;8 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 44;103 K intron_retention CUFF.1743 chr15 - chr15:83348982-83349223 chr15:83348981-83348982;chr15:83349223-83349224 27;11 N intron_retention chr15 - chr15:84873269-84873351 chr15:84873268-84873269;chr15:84873351-84873352 3;5 N jcn_only_AA CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 101;24 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 260;2 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 1129;71 N alternative_acceptor chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 38;35 N cassette CUFF.1683 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 45;153 N mutually_exclusive CUFF.1681 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 47;20 N jcn_only_AD CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 90;20 N alternative_acceptor CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 203;1 N jcn_only_AA CUFF.1737 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 83;2 K intron_retention CUFF.1720 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 7;27 N cassette CUFF.1734 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 64;288 N alternative_donor CUFF.1758 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 33;7 N cassette CUFF.1662 chr15 + chr15:30771397-30776704 chr15:30771397-30772944;chr15:30773111-30776704 chr15:30772945-30773110 11;37 K cassette CUFF.1671 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 237;100 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 12;209 N alternative_donor CUFF.1723 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 565;26 N alternative_acceptor CUFF.1757 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 45;382 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 50;20 K jcn_only_AD CUFF.1655 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 85;159 K cassette CUFF.1665 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 45;96 N jcn_only_AD CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 351;32 N jcn_only_AD CUFF.1723 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 565;19 N jcn_only_AD CUFF.1704 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 1877;139 N cassette CUFF.1659 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 10;258 N alternative_donor CUFF.1683 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 142;26 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 112;35 K alternative_last_exon CUFF.1757 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408691-90408925 436;136 N cassette CUFF.1699 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 171;39 N alternative_acceptor CUFF.1737 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 83;1 K alternative_donor CUFF.1735 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 235;579 K cassette CUFF.1721 chr15 - chr15:64658275-64668941 chr15:64658275-64665896;chr15:64665964-64668941 chr15:64665897-64665963 323;15 K cassette CUFF.1699 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 47;246 N cassette CUFF.1723 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 110;499 K cassette CUFF.1704 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 717;175 K alternative_first_exon CUFF.1667 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780240-40780406 chr15:40800148-40800266 12;65 N jcn_only_AD CUFF.1652 chr15 + chr15:24825478-24869114 chr15:24832883-24869114 chr15:24825478-24832882 chr15:24825477-24825478 8;31 N jcn_only_AD CUFF.1685 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 36;23 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 10;116 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 56;461 K intron_retention CUFF.1665 chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 644;16 N alternative_acceptor CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 351;4 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 672;24 K intron_retention CUFF.1672 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 39;56 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 341;178 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 81;615 K alternative_last_exon CUFF.1687 chr15 - chr15:50805710-50821993;chr15:50793035-50821993 chr15:50793249-50821993 chr15:50792739-50793034 chr15:50793167-50793248 125;197 K alternative_acceptor CUFF.1743 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 127;78 N jcn_only_AA CUFF.1683 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 149;27 K cassette CUFF.1764 chr15 - chr15:102226266-102241288 chr15:102226266-102239533;chr15:102239639-102241288 chr15:102239534-102239638 22;43 K intron_retention CUFF.1681 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 26;30 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 347;1669 N alternative_donor chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 6;0 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 663;34 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 10;239 N cassette CUFF.1681 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 79;188 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 84;145 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 302;1623 N alternative_last_exon CUFF.1734 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544820-77544868 chr15:77576096-77576372 35;405 N alternative_acceptor CUFF.1729 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 101;18 K intron_retention CUFF.1681 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 84;47 K cassette CUFF.1764 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 93;31 K alternative_donor CUFF.1723 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 654;169 K jcn_only_AA CUFF.1655 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 72;127 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 324;229 N cassette CUFF.1652 chr15 + chr15:24811948-24814929 chr15:24811948-24813677;chr15:24813711-24814929 chr15:24813678-24813710 26;18 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 2055;31 N alternative_donor CUFF.1704 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 1246;22 N jcn_only_AD CUFF.1683 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 142;168 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 639;6 N jcn_only_AD CUFF.1697 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 8;634 K intron_retention CUFF.1761 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 132;51 N alternative_acceptor CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 90;5 K jcn_only_AD CUFF.1683,CUFF.1697 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 27;38 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 289;9 N jcn_only_AA CUFF.1735,CUFF.1760 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1052;9 N mutually_exclusive CUFF.1721 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 9;50 K cassette CUFF.1655 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 97;270 N coord_cassette CUFF.1704 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 143;541 N jcn_only_AD CUFF.1758 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 33;49 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 150;10 N alternative_donor CUFF.1697 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 8;863 K intron_retention CUFF.1720 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 89;10 N alternative_last_exon CUFF.1699 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722494-55722977 41;26 N intron_retention chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 35;370 N jcn_only_AA CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 94;16 N cassette CUFF.1665 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 111;400 K cassette CUFF.1704 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 91;718 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 101;169 N jcn_only_AD CUFF.1758 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 10;22 K alternative_last_exon CUFF.1739 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78825617 40;62 N jcn_only_AD CUFF.1704 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 243;1012 N jcn_only_AA CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 351;19 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 37;449 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 43;634 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 4;615 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 21;12 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 466;54 K alternative_first_exon CUFF.1732 chr15 - chr15:75762341-75766029 chr15:75762341-75763020 chr15:75766030-75766108 chr15:75763021-75763347 97;133 N coord_cassette CUFF.1758 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 14;218 N jcn_only_AA CUFF.1734 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 23;116 N cassette CUFF.1665 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 53;167 N alternative_donor CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 94;22 K alternative_last_exon CUFF.1685 chr15 + chr15:45768751-45789310;chr15:45768751-45804570 chr15:45768751-45769966 chr15:45804571-45804647 chr15:45769967-45771944 80;113 K alternative_donor CUFF.1683,CUFF.1697 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 27;48 N jcn_only_AA CUFF.1729,CUFF.1735 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 193;32 K cassette CUFF.1720 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 5;35 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 1998;19 K jcn_only_AD CUFF.1735 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 235;1003 N intron_retention chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 8;660 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 68;601 N jcn_only_AD CUFF.1704 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 1320;122 K alternative_first_exon CUFF.1681,CUFF.1757 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44888258-44888605 chr15:44887457-44887657 285;111 N jcn_only_AD CUFF.1683 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 2;25 N jcn_only_AD CUFF.1717 chr15 + chr15:63047893-63053879 chr15:63050859-63053879 chr15:63047893-63050858 chr15:63047892-63047893 16;22 K alternative_donor CUFF.1723 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 373;388 N coord_cassette CUFF.1681 chr15 - chr15:44865019-44876011 chr15:44865019-44865744;chr15:44865944-44867099;chr15:44867240-44876011 chr15:44865745-44865943;chr15:44867100-44867239 46;421 N jcn_only_AA CUFF.1757 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 45;504 N alternative_donor CUFF.1743,CUFF.1757 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 504;5 K intron_retention CUFF.1736 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 118;52 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 640;29 K intron_retention CUFF.1665 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 41;138 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 297;1 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 323;0 N jcn_only_AA CUFF.1732 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 30;100 K alternative_last_exon CUFF.1685 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45752767 151;26 N alternative_donor CUFF.1681 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 63;16 N alternative_donor CUFF.1663 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 36;0 N cassette CUFF.1757 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 512;299 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 517;0 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 10;288 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 148;12 N jcn_only_AA CUFF.1699 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 21;232 K cassette CUFF.1744 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 62;68 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 1170;30 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 182;31 N jcn_only_AD CUFF.1727 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 2;31 K alternative_first_exon CUFF.1764 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204704 66;43 N jcn_only_AD CUFF.1659 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 440;58 N alternative_acceptor CUFF.1729,CUFF.1735 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 193;18 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 673;23 N alternative_donor chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 14;4 N jcn_only_AD CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50822127-50824208 chr15:50824209-50830905 chr15:50830905-50830906 351;37 K cassette CUFF.1697 chr15 - chr15:55485032-55486493 chr15:55485032-55486350;chr15:55486382-55486493 chr15:55486351-55486381 21;36 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 634;410 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 232;288 K intron_retention CUFF.1720 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 5;32 N cassette CUFF.1757 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 377;345 N alternative_acceptor CUFF.1699 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 21;173 N cassette CUFF.1758 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 16;51 N alternative_donor CUFF.1727 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 2;8 N jcn_only_AD CUFF.1681 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 285;85 N alternative_donor CUFF.1685 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 36;2 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 32;1 N jcn_only_AA CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 351;30 K coord_cassette CUFF.1757 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 360;241 K alternative_first_exon CUFF.1734 chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 39;49 K intron_retention CUFF.1729 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 146;111 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 618;1 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 59;1012 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 646;23 K jcn_only_AA CUFF.1732 chr15 - chr15:75762341-75766029 chr15:75763172-75766029 138;43 K intron_retention CUFF.1664 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 21;28 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 206;35 N coord_cassette CUFF.1659 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 10;485 N jcn_only_AA CUFF.1681 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 143;122 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 228;13 N cassette CUFF.1704 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 143;208 K jcn_only_AA CUFF.1704 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 18;1246 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 276;8 K cassette CUFF.1744 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 74;55 N jcn_only_AA CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 203;21 N jcn_only_AD CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 94;25 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 1635;289 K intron_retention CUFF.1729 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 82;158 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 6;25 N jcn_only_AA chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 38;29 N cassette CUFF.1723 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787240;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787241-66787757 110;277 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 517;0 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 653;16 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 13;20 N jcn_only_AD chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 6;22 N coord_cassette CUFF.1681 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 124;197 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 144;50 N jcn_only_AD CUFF.1681 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 203;13 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 149;1052 K intron_retention CUFF.1720 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 94;7 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 82;132 K cassette CUFF.1686 chr15 - chr15:47672793-47687757 chr15:47672793-47685518;chr15:47685683-47687757 chr15:47685519-47685682 42;15 N alternative_last_exon chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24869115-24869252 chr15:24832714-24832932 7;16 K cassette CUFF.1762 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 5;44 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 57;67 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 262;22 K intron_retention CUFF.1720 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 81;36 K alternative_last_exon CUFF.1725 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645153-66645293 chr15:66671570-66672278 20;134 K jcn_only_AA CUFF.1743 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 1945;221 N alternative_donor CUFF.1698 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 45;4 N alternative_acceptor CUFF.1681 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 143;7 K jcn_only_AD CUFF.1723 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 373;170 N alternative_acceptor CUFF.1683 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 149;34 N jcn_only_AD CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 67;8 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 323;0 N alternative_donor CUFF.1687 chr15 - chr15:50822127-50830905 chr15:50822127-50824208 chr15:50824209-50830905 chr15:50830905-50830906 351;2 N alternative_acceptor CUFF.1757 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 18;191 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 23;64 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 11;634 K cassette CUFF.1727 chr15 - chr15:67713837-67752029 chr15:67713837-67722658;chr15:67722739-67752029 chr15:67722659-67722738 2;180 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 617;2 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 183;31 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 1192;9 K jcn_only_AA CUFF.1743 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 127;99 N jcn_only_AD CUFF.1704 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 1827;189 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 59;502 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 396;232 K intron_retention CUFF.1681 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 202;8 K alternative_last_exon CUFF.1728 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587667 chr15:69580747-69580903 87;33 N jcn_only_AD CUFF.1698 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 45;37 K intron_retention CUFF.1754 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 27;62 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 307;16 N alternative_donor CUFF.1681,CUFF.1725 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 143;19 N alternative_acceptor CUFF.1735,CUFF.1760 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1052;0 N jcn_only_AA CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24820151-24825373 chr15:24825374-24832713 chr15:24832713-24832714 51;18 N jcn_only_AD chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 14;41 N jcn_only_AD CUFF.1743,CUFF.1757 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 504;11 K coord_cassette CUFF.1687 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 21;62 K alternative_first_exon CUFF.1652 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758770-24758884 chr15:24766742-24766977 201;1216 K cassette CUFF.1759 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 94;20 K intron_retention CUFF.1761 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 31;49 K alternative_last_exon CUFF.1704,CUFF.1735 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759525-77759649 chr15:77759437-77759500 522;223 N jcn_only_AA CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 90;21 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 6;7 N jcn_only_AD CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24825478-24832713 chr15:24820151-24825477 chr15:24820150-24820151 51;10 N alternative_acceptor CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78807450-78810929 chr15:78810930-78819721 chr15:78819721-78819722 189;1 N alternative_donor CUFF.1652 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 47;14 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 48;193 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 642;35 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 140;1945 K alternative_first_exon CUFF.1697 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55488551-55488898 chr15:55487502-55487789 27;43 N alternative_donor CUFF.1704 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 1320;8 N jcn_only_AD CUFF.1681 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 63;24 N cassette CUFF.1659 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 55;58 N cassette CUFF.1721 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 11;294 N alternative_acceptor CUFF.1665 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 94;1 K coord_cassette CUFF.1744 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 74;41 K intron_retention CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 67;13 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 1162;39 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 22;138 K jcn_only_AA CUFF.1760 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 33;31 K jcn_only_AD CUFF.1723 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 654;137 N alternative_donor CUFF.1758 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 10;17 N alternative_donor CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 351;2 N alternative_donor CUFF.1720 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 67;11 N intron_retention chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 116;24 N cassette CUFF.1665 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 1711;99 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 487;30 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 640;5 N jcn_only_AD CUFF.1704 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 266;910 K intron_retention CUFF.1720 chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 15;49 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 8;292 N alternative_last_exon CUFF.1743 chr15 - chr15:83350333-83357909 chr15:83357584-83357909 chr15:83350172-83350332 chr15:83357178-83357583 5;1105 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 25;20 K intron_retention CUFF.1720 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 58;11 N jcn_only_AD CUFF.1681,CUFF.1725 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 143;107 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 618;1 N alternative_acceptor CUFF.1732 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 30;9 N jcn_only_AA CUFF.1732 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 32;49 K alternative_first_exon CUFF.1713,CUFF.1741 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007469 chr15:61945388-61945400 238;103 N jcn_only_AD CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78811116-78819721 chr15:78807450-78811115 chr15:78807449-78807450 189;19 K intron_retention CUFF.1743 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 154;75 N alternative_donor CUFF.1659 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 440;0 N jcn_only_AD CUFF.1652 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 47;19 K intron_retention CUFF.1761 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 49;24 N intron_retention chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 104;24 K cassette CUFF.1744 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 50;46 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 62;178 N alternative_donor CUFF.1652 chr15 + chr15:24825478-24869114 chr15:24832883-24869114 chr15:24825478-24832882 chr15:24825477-24825478 8;4 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 256;6 K intron_retention CUFF.1735 chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 825;119 N alternative_donor CUFF.1717 chr15 + chr15:63047893-63053879 chr15:63050859-63053879 chr15:63047893-63050858 chr15:63047892-63047893 16;1 N jcn_only_AD CUFF.1717 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 218;6 N alternative_acceptor CUFF.1652 chr15 + chr15:24820151-24832713 chr15:24820151-24825373 chr15:24825374-24832713 chr15:24832713-24832714 51;0 N jcn_only_AA CUFF.1666,CUFF.1685 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 12;38 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 2012;73 K alternative_first_exon CUFF.1685 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742254-45742488 chr15:45752644-45752767 113;18 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 2049;36 N cassette CUFF.1704 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 248;264 N jcn_only_AD CUFF.1666 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 4;5 N jcn_only_AD CUFF.1659 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 88;11 N alternative_acceptor chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 50;11 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 9;1945 N alternative_acceptor CUFF.1699 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 351;1 K coord_cassette CUFF.1665 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 1711;143 N alternative_acceptor CUFF.1666,CUFF.1685 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 12;19 N alternative_donor CUFF.1681 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 285;18 K intron_retention CUFF.1664 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 143;23 N alternative_donor CUFF.1739 chr15 + chr15:78807450-78819721 chr15:78811116-78819721 chr15:78807450-78811115 chr15:78807449-78807450 189;2 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 80;132 K alternative_first_exon CUFF.1650 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115345 chr15:23114586-23114716 209;170 N jcn_only_AA CUFF.1757 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 18;298 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 1949;5 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 174;20 K alternative_first_exon CUFF.1734,CUFF.1737 chr15 - chr15:78500445-78501486;chr15:78500445-78537610 chr15:78500445-78526712 chr15:78537611-78538088 chr15:78526713-78527056 216;37 K intron_retention CUFF.1743 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 798;602 K alternative_first_exon CUFF.1741 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80215794-80216139 chr15:80206930-80207647 36;29 N alternative_acceptor CUFF.1734 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 23;2 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 163;51 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 491;26 N alternative_donor CUFF.1659 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 88;1 N mutually_exclusive CUFF.1757 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 17;119 N alternative_donor CUFF.1666 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 4;1 K cassette CUFF.1725 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 84;75 N alternative_donor CUFF.1743 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 90;6 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 42;10 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 116;15 N jcn_only_AD CUFF.1603 chr14 - chr14:75152364-75179635 chr14:75152364-75158743 15;61 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 95;1 K alternative_acceptor CUFF.1578,CUFF.1619 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 38;467 N jcn_only_AD chr14 - chr14:75138187-75139533 chr14:75138187-75138671 81;49 N cassette CUFF.1612 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 13;243 K intron_retention CUFF.1640 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 19;193 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 18;28 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 499;30 K cassette CUFF.1622 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 4;83 K alternative_acceptor CUFF.1584 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 225;100 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75168478-75179635 chr14:75152364-75179635 207;15 N jcn_only_AA CUFF.1623 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 160;55 K cassette CUFF.1589 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 45;85 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 113;41 K intron_retention CUFF.1580 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 11;9 N intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 61;15 N cassette CUFF.1606 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 79;299 K cassette CUFF.1619 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 31;27 N intron_retention chr14 - chr14:75136830-75137464 chr14:75136829-75136830;chr14:75137464-75137465 36;15 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 470;59 N alternative_donor CUFF.1577 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 chr14:24464241-24464342;chr14:24459391-24459568 198;20 N cassette CUFF.1578 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 13;478 N alternative_donor CUFF.1619 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 230;2 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 75;404 N jcn_only_AD CUFF.1584 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 362;19 N jcn_only_AD CUFF.1596 chr14 + chr14:58908062-58909423;chr14:58906879-58909423 chr14:58899176-58909423 110;461 N jcn_only_AD chr14 - chr14:75150237-75152302 chr14:75150237-75151156 46;47 K cassette CUFF.1613 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 6;26 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 436;199 K alternative_first_exon CUFF.1603,CUFF.1640 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941984 156;306 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 157;461 N cassette CUFF.1577 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 chr14:24470593-24470726;chr14:24475095-24475617 21;47 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 88;46 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 408;3 K alternative_donor CUFF.1613 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 19;5 K cassette CUFF.1585 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 188;1735 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 105;87 N jcn_only_AD CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 239;15 N jcn_only_AA CUFF.1589 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 136;14 N jcn_only_AA CUFF.1641 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 18;50 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 99;150 N alternative_donor CUFF.1606 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 229;39 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 49;82 N jcn_only_AA CUFF.1619 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 57;26 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 14;397 K jcn_only_AA CUFF.1606 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 52;338 K intron_retention CUFF.1590 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 595;169 N jcn_only_AA chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 24;56 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 216;225 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 61;28 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 479;59 N alternative_donor CUFF.1613 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 19;0 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 21;45 N jcn_only_AD CUFF.1628 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 138;204 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 15;461 K alternative_first_exon CUFF.1623 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924213-77924325 chr14:77924330-77924612 6;135 N cassette CUFF.1578 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 269;359 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 382;2 K cassette CUFF.1640 chr14 - chr14:104251252-104263707 chr14:104251252-104260913;chr14:104261001-104263707 chr14:104260914-104261000 432;574 N intron_retention chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 22;45 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 146;17 N alternative_acceptor chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 23;22 N alternative_acceptor chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 24;28 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 469;7 K alternative_acceptor CUFF.1606 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 52;167 N jcn_only_AA chr14 + chr14:76174051-76184203 chr14:76174051-76175521 6;39 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 127;65 N alternative_donor CUFF.1628 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 159;0 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 468;11 K cassette CUFF.1612 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 213;197 N alternative_acceptor CUFF.1612 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 402;9 N alternative_donor CUFF.1606 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 397;15 K intron_retention CUFF.1640 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 14;302 N cassette CUFF.1576 chr14 + chr14:23390330-23393509 chr14:23390330-23392287;chr14:23392414-23393509 chr14:23392288-23392413 31;113 N coord_cassette CUFF.1606 chr14 + chr14:61518854-61545547 chr14:61518854-61519066;chr14:61519704-61540565;chr14:61540660-61545547 chr14:61519067-61519703;chr14:61540566-61540659 130;225 N cassette CUFF.1590 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 80;540 N alternative_donor CUFF.1628 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 138;6 N mutually_exclusive CUFF.1585 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 160;135 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 43;9 N alternative_acceptor CUFF.1619 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 70;5 N jcn_only_AA CUFF.1633 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 228;86 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 153;39 N jcn_only_AA CUFF.1595 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 76;13 K intron_retention CUFF.1590 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 481;345 K cassette CUFF.1613 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 5;9 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 198;55 N cassette CUFF.1632 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 95;267 K intron_retention CUFF.1578 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 259;113 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 857;303 K alternative_acceptor CUFF.1604 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 121;22 N jcn_only_AD CUFF.1619 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 230;83 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 493;36 N alternative_donor CUFF.1633 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 78;0 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 142;12 N cassette CUFF.1640 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104263707 chr14:104251132-104251251 127;685 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 139;55 N coord_cassette CUFF.1578 chr14 + chr14:24563464-24566100 chr14:24563464-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 195;335 K intron_retention CUFF.1622 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 74;14 N jcn_only_AD chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 107;23 N jcn_only_AD CUFF.1640 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 123;57 N mutually_exclusive CUFF.1590 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 68;14 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 168;26 N alternative_acceptor CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 239;4 N alternative_donor CUFF.1584 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 362;12 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 77;86 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 81;113 K intron_retention CUFF.1578 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 501;76 N mutually_exclusive CUFF.1576 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392287,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392288-23392413 24;34 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 45;160 K alternative_acceptor CUFF.1612 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 107;219 K intron_retention CUFF.1623 chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 231;60 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 108;18 N jcn_only_AD CUFF.1596 chr14 + chr14:58899176-58909423;chr14:58906879-58909423 chr14:58908062-58909423 497;73 N alternative_acceptor CUFF.1641 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 18;2 K alternative_last_exon CUFF.1638 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237470-103237910 42;46 N coord_cassette CUFF.1596 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59010600;chr14:59010686-59014498 chr14:59006789-59006854;chr14:59010601-59010685 289;8 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 126;404 N cassette CUFF.1619 chr14 + chr14:76219299-76230957 chr14:76219299-76224173;chr14:76224213-76230957 chr14:76224174-76224212 31;56 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179556 chr14:75159032-75179635 141;158 N jcn_only_AA chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 23;44 K jcn_only_AA CUFF.1578,CUFF.1619 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 38;647 N jcn_only_AD CUFF.1628 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 159;47 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75159032-75179635 64;158 N cassette CUFF.1617 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 10;131 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 44;31 N jcn_only_AA chr14 + chr14:76349246-76368484 chr14:76349246-76353042 201;91 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 380;4 K intron_retention CUFF.1623 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 7;14 K jcn_only_AA CUFF.1643 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 70;72 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 130;252 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 71;95 K alternative_donor CUFF.1612 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 61;69 K intron_retention CUFF.1617 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 72;229 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 88;8 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 37;15 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 182;397 K intron_retention CUFF.1606 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 404;43 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 6;378 N alternative_acceptor CUFF.1619 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 57;16 N jcn_only_AD CUFF.1584,CUFF.1632 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 271;184 N jcn_only_AD CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 41;570 N alternative_donor CUFF.1590 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 452;122 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 138;28 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 577;59 K jcn_only_AA CUFF.1598 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 37;121 N alternative_donor CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 239;3 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 91;3 K intron_retention CUFF.1593 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 162;26 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 65;24 K alternative_last_exon CUFF.1628 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81727000-81728275 chr14:81734781-81734841 19;30 N intron_retention chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 19;183 K alternative_last_exon CUFF.1640 chr14 - chr14:104225643-104245081;chr14:104224089-104245081 chr14:104230817-104245081 chr14:104223987-104224088 chr14:104230723-104230816 490;24 N alternative_first_exon chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204197 38;346 N alternative_acceptor CUFF.1589 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 136;2 K cassette CUFF.1596 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 313;83 N alternative_donor CUFF.1619 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 50;15 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 436;43 N cassette CUFF.1619 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 25;18 N alternative_acceptor CUFF.1632 chr14 - chr14:92074748-92076823 chr14:92074749-92076823 chr14:92074748-92074748 chr14:92074747-92074748 2;253 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179635 chr14:75159032-75179556 234;65 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75152364-75179635 chr14:75168478-75179635 199;23 N jcn_only_AA CUFF.1640 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 47;359 N jcn_only_AD CUFF.1606 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 229;149 K alternative_first_exon CUFF.1633 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789881-92790304 3;72 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 75;0 K jcn_only_AD CUFF.1612 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 61;40 N alternative_donor CUFF.1619 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 59;0 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 123;43 N cassette CUFF.1596 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59014498 chr14:59006789-59006854 289;72 N cassette CUFF.1596 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 4;44 N cassette CUFF.1637 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 34;11 N jcn_only_AA CUFF.1632 chr14 - chr14:92074748-92076823 chr14:92074749-92076823 chr14:92074748-92074748 chr14:92074747-92074748 2;506 N cassette CUFF.1629 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 12;234 N coord_cassette CUFF.1606 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 16;566 K intron_retention CUFF.1640 chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 359;22 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 374;438 K intron_retention CUFF.1590 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 640;155 K cassette CUFF.1613 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 30;7 N jcn_only_AD CUFF.1606 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 397;154 N jcn_only_AA CUFF.1619 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 70;10 N jcn_only_AD chr14 - chr14:75165560-75179635 chr14:75165560-75168371 27;51 N alternative_donor CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 41;237 K cassette CUFF.1606 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 484;235 N jcn_only_AA CUFF.1576 chr14 + chr14:77928586-77934425 chr14:77928586-77928984 18;385 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 103;60 N jcn_only_AD CUFF.1633 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 78;41 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 61;73 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 63;31 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 24;28 N intron_retention chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 47;31 N coord_cassette CUFF.1578 chr14 + chr14:24564055-24567411 chr14:24564055-24564351;chr14:24564588-24566100;chr14:24566347-24567411 chr14:24564352-24564587;chr14:24566101-24566346 108;434 K alternative_first_exon CUFF.1604 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031765-60031993 chr14:60031076-60031271 27;100 K cassette CUFF.1606 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 112;262 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 74;67 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 34;61 N jcn_only_AA chr14 - chr14:75138187-75139533 chr14:75138724-75139533 81;59 K jcn_only_AA CUFF.1584 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 225;173 K intron_retention CUFF.1580 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 9;3 N alternative_acceptor CUFF.1606 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 594;172 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 507;111 N jcn_only_AA CUFF.1606 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 594;297 N jcn_only_AA chr14 - chr14:75152364-75158743 chr14:75157854-75158743 61;167 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 81;60 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 461;4 N jcn_only_AD CUFF.1619 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 50;54 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 400;11 N jcn_only_AA CUFF.1633 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 239;20 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 541;38 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 286;179 K jcn_only_AA CUFF.1640 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 16;366 K intron_retention CUFF.1623 chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 239;24 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 53;37 N jcn_only_AD CUFF.1604 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 52;105 K intron_retention CUFF.1577 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 chr14:24470072-24470142;chr14:24470242-24470293 74;11 K cassette CUFF.1577 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 chr14:24459391-24459568;chr14:24473546-24473601 9;323 K intron_retention CUFF.1640 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 16;225 N alternative_acceptor CUFF.1643 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 84;2 N intron_retention CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 38;83 N jcn_only_AD chr14 - chr14:75136830-75138110 chr14:75136830-75137464 11;36 N jcn_only_AA chr14 - chr14:75143456-75149998 chr14:75145033-75149998 35;36 N mutually_exclusive CUFF.1590 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 13;108 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 285;142 K intron_retention CUFF.1580 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 9;9 N alternative_donor CUFF.1584,CUFF.1632 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 271;116 N jcn_only_AD CUFF.1613 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 19;13 N jcn_only_AD CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 38;650 N cassette CUFF.1590 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 16;504 K cassette CUFF.1604 chr14 - chr14:60010173-60018072 chr14:60010173-60011880;chr14:60012018-60018072 chr14:60011881-60012017 106;31 N alternative_donor chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 107;118 N cassette CUFF.1578 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 108;673 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 53;101 K intron_retention CUFF.1642 chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 184;59 K alternative_first_exon CUFF.1641 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105045937-105046340 chr14:105047405-105047962 78;276 K coord_cassette CUFF.1598 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 151;319 N jcn_only_AA chr14 - chr14:75136830-75138110 chr14:75137575-75138110 11;131 N cassette CUFF.1589 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 20;199 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75149998 chr14:75143456-75151156 73;132 N jcn_only_AD chr14 - chr14:75159032-75179635;chr14:75159032-75179556 chr14:75159032-75165466 223;76 K intron_retention CUFF.1593 chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 62;27 N cassette CUFF.1578 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 14;370 N jcn_only_AA chr14 - chr14:75150237-75152302 chr14:75151384-75152302 46;171 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 11;41 K cassette CUFF.1622 chr14 - chr14:77275987-77279106 chr14:77275987-77276431;chr14:77276598-77279106 chr14:77276432-77276597 3;97 N alternative_acceptor CUFF.1633 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 228;3 K alternative_first_exon CUFF.1633 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915418-92915560 chr14:92916544-92918990 135;97 N jcn_only_AD CUFF.1590 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 452;179 N jcn_only_AA chr14 - chr14:75159032-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75165560-75179635 196;27 K intron_retention CUFF.1603 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 176;73 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 127;14 K alternative_first_exon CUFF.1577 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457972-24458284 chr14:24459391-24459568 34;1037 K intron_retention chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 366;16 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 31;95 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 51;1 N alternative_acceptor CUFF.1595 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 76;7 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 15;23 N cassette CUFF.1623 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 21;163 K alternative_last_exon CUFF.1623 chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935815 chr14:77930941-77931029 273;157 N cassette CUFF.1578 chr14 + chr14:24564055-24566100 chr14:24564055-24564351;chr14:24564588-24566100 chr14:24564352-24564587 182;471 N cassette CUFF.1640 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 25;287 N jcn_only_AA CUFF.1612 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 402;30 N jcn_only_AD chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 119;15 N coord_cassette CUFF.1640 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104260913;chr14:104261001-104263707 chr14:104251132-104251251;chr14:104260914-104261000 127;545 N alternative_donor CUFF.1578 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 38;422 K jcn_only_AA CUFF.1612 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 107;441 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 468;8 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 182;282 K jcn_only_AA CUFF.1641 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 49;220 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 436;144 N jcn_only_AA CUFF.1623 chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 97;34 N coord_cassette CUFF.1578 chr14 + chr14:24563644-24566100 chr14:24563644-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 73;400 K cassette CUFF.1576 chr14 + chr14:23392414-23395669 chr14:23392414-23393509;chr14:23393651-23395669 chr14:23393510-23393650 22;57 K cassette CUFF.1596 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 119;10 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 458;21 N jcn_only_AD CUFF.1619 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 59;22 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 571;47 N jcn_only_AD chr14 - chr14:75143456-75151156;chr14:75143456-75149998 chr14:75143456-75144881 166;38 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 31;44 N jcn_only_AD CUFF.1623 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 18;300 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75151156 chr14:75143456-75149998 170;35 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 145;282 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 9;87 K alternative_acceptor CUFF.1641 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 49;144 N jcn_only_AD CUFF.1596 chr14 + chr14:58899176-58909423;chr14:58908062-58909423 chr14:58906879-58909423 534;37 N alternative_acceptor CUFF.1623 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 160;31 K cassette CUFF.1632 chr14 - chr14:92105595-92136157 chr14:92105595-92126180;chr14:92126326-92136157 chr14:92126181-92126325 42;237 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 6;91 N jcn_only_AA chr14 - chr14:75136830-75137464 chr14:75136846-75137464 36;57 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 113;13 K intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 650;82 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 257;378 N alternative_donor CUFF.1640 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 123;9 N jcn_only_AA CUFF.1643 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 84;246 K intron_retention CUFF.1578 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 253;276 K jcn_only_AD CUFF.1613 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 19;6 N alternative_first_exon chr14 - chr14:59939809-59942586 chr14:59939809-59941445,chr14:59939809-59941156 chr14:59942587-59942724 chr14:59941446-59941984 61;408 K jcn_only_AA CUFF.1604 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 121;45 N cassette CUFF.1590 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 138;503 N jcn_only_AA chr14 - chr14:75143456-75151156 chr14:75150237-75151156 132;47 N cassette CUFF.1606 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 92;222 K cassette CUFF.1593 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 62;14 N alternative_last_exon CUFF.1603 chr14 - chr14:59939809-59941445 chr14:59941245-59941445 chr14:59939635-59939808 chr14:59941157-59941244 35;120 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 424;3 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 274;23 N jcn_only_AA CUFF.2129 chr19 - chr19:33968996-33978155 chr19:33968997-33978155 chr19:33968996-33968996 chr19:33968995-33968996 2;3582 N alternative_donor CUFF.2104 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 126;141 N cassette CUFF.2092 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 17;180 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 121;137 K intron_retention CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 1127;55 K alternative_donor CUFF.2069 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 8;69 N alternative_donor CUFF.2186 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 50;9 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 219;5 K jcn_only_AA CUFF.2072 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 67;127 N alternative_acceptor CUFF.2155 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 59;216 K cassette CUFF.2074 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 106;96 K intron_retention CUFF.2093 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 22;16 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 59;67 K cassette CUFF.2051 chr19 - chr19:5897009-5903622 chr19:5897009-5901345;chr19:5901466-5903622 chr19:5901346-5901465 51;331 N alternative_acceptor CUFF.2129 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 460;2 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 0;42 N jcn_only_AD CUFF.2129,CUFF.2177 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 619;31 K intron_retention CUFF.2104 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 366;366 N cassette CUFF.2104 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17448474-17448816 chr19:17447629-17448473 19;351 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 623;614 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 630;145 N cassette CUFF.2051 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 269;332 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 44;163 N jcn_only_AD CUFF.2093 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 235;104 K cassette CUFF.2187 chr19 + chr19:55084903-55085542 chr19:55084903-55085164;chr19:55085380-55085542 chr19:55085165-55085379 98;152 K jcn_only_AA CUFF.2141 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 26;169 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 137;18 K alternative_first_exon CUFF.2074,CUFF.2169 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546692 chr19:11545594-11546028 59;162 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 220;4 K cassette CUFF.2187 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 47;81 K cassette CUFF.2064 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 29;519 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 501;112 N jcn_only_AD CUFF.2052 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6216747-6217964 chr19:6217964-6217965 246;81 N jcn_only_AA CUFF.2103 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 95;72 N jcn_only_AA CUFF.2182 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 9;22 N jcn_only_AA CUFF.2129 chr19 - chr19:33904549-33953900 chr19:33904550-33953900 chr19:33904549-33904549 chr19:33904548-33904549 2;7228 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 653;121 N intron_retention chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 12;70 K intron_retention CUFF.2093 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 96;109 K coord_cassette CUFF.2175 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 26;130 K alternative_donor CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 121;416 N alternative_donor CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 308;478 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 295;23 K intron_retention CUFF.2155 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 62;36 N alternative_acceptor CUFF.2072,CUFF.2103 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 77;9 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 109;188 N jcn_only_AD CUFF.2104 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 126;145 K intron_retention CUFF.2163 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 117;15 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 79;14 N intron_retention chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 122;74 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 93;11 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 81;16 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 1164;207 K intron_retention CUFF.2167 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 1016;14 N intron_retention CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 308;409 K cassette CUFF.2187 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 47;53 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 179;509 K jcn_only_AA CUFF.2114 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 357;99 K intron_retention CUFF.2167 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 1130;24 K intron_retention CUFF.2142 chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 3;3 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 50;89 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 266;509 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 1147;224 K cassette CUFF.2074 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 87;124 N jcn_only_AA chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 27;246 K intron_retention CUFF.2139 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 1203;44 N alternative_donor CUFF.2092 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 331;15 K cassette CUFF.2178 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 122;109 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 263;37 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 643;594 N jcn_only_AD CUFF.2167 chr19 + chr19:50285227-50296292 chr19:50285228-50296292 chr19:50285227-50285227 chr19:50285226-50285227 1;478 K intron_retention CUFF.2098 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 219;10 K intron_retention CUFF.2139 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 21;51 N cassette CUFF.2187 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 12;287 K intron_retention CUFF.2104 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 1526;223 K intron_retention CUFF.2106 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 188;56 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 10;104 N coord_cassette CUFF.2092 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 17;90 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 3690;594 N cassette CUFF.2064 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 71;909 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 295;2 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 72;16 K intron_retention CUFF.2167 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 57;27 K intron_retention CUFF.2167 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 1210;25 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 581;28 K intron_retention CUFF.2081 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 4009;31 N jcn_only_AA CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 38;308 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 31;112 K intron_retention CUFF.2093 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 448;37 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 28;158 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 257;40 K intron_retention CUFF.2051 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 579;11 N alternative_donor CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 19;1227 K intron_retention CUFF.2056 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 59;80 N cassette CUFF.2093 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 124;433 N jcn_only_AA CUFF.2155 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 59;118 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 1340;31 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 230;25 N jcn_only_AA CUFF.2072,CUFF.2103 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 77;98 K cassette CUFF.2178 chr19 - chr19:51485171-51487106 chr19:51485171-51485582;chr19:51485714-51487106 chr19:51485583-51485713 67;125 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 2227;1 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 863;509 K alternative_donor CUFF.2139,CUFF.2177 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 64;109 K intron_retention CUFF.2167 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 166;36 K alternative_first_exon CUFF.2112,CUFF.2191 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 149;92 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 117;112 K jcn_only_AA CUFF.2112 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 13;110 N cassette CUFF.2146 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 19;82 K intron_retention CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 11;6 K jcn_only_AA CUFF.2074 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 134;26 K jcn_only_AD CUFF.2130 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 327;329 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 134;8 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 820;104 K intron_retention CUFF.2148 chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 305;9 N cassette CUFF.2092 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 74;160 K intron_retention CUFF.2081 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 6735;20 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 462;78 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 225;38 K jcn_only_AA CUFF.2104 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 109;535 N jcn_only_AD CUFF.2044 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 102;715 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 50;12 N jcn_only_AA CUFF.2114 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 11;73 N alternative_donor CUFF.2103 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 78;1 N coord_cassette CUFF.2092 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866657-14867049 chr19:14865766-14865939;chr19:14866466-14866656 44;199 N mutually_exclusive CUFF.2051 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 101;9 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 216;12 N cassette CUFF.2051 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 12;393 K intron_retention CUFF.2106 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 206;67 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 1371;28 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 52;58 K intron_retention CUFF.2146 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 12;22 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 76;80 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 56;199 K cassette CUFF.2196 chr19 + chr19:58963072-58965062 chr19:58963072-58963494;chr19:58964150-58965062 chr19:58963495-58964149 141;1453 K intron_retention CUFF.2141 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 161;148 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 1350;21 K alternative_donor CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 228;131 N cassette CUFF.2092 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 166;205 K alternative_first_exon CUFF.2131 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139500-36139810 79;182 K intron_retention CUFF.2114 chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 73;132 K jcn_only_AD CUFF.2047 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 37;12 K alternative_last_exon CUFF.2051 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894661-5894865 30;512 N jcn_only_AA CUFF.2129 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 460;52 K jcn_only_AA CUFF.2179 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 68;60 N alternative_acceptor CUFF.2093,CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 68;15 N jcn_only_AA CUFF.2092 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 264;61 N jcn_only_AD CUFF.2186 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 50;23 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 115;1203 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 96;159 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 48;206 K intron_retention CUFF.2179 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 111;23 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 69;460 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 80;62 K cassette CUFF.2177 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 376;205 K jcn_only_AD CUFF.2191 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 148;40 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 326;598 N alternative_acceptor CUFF.2117,CUFF.2181 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 24;20 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 107;7 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 124;105 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 212;7 K intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 126;122 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 226;67 K cassette CUFF.2177 chr19 - chr19:51534178-51537235 chr19:51534178-51535035;chr19:51535392-51537235 chr19:51535036-51535391 376;236 K jcn_only_AD CUFF.2146 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 13;155 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 81;20 N cassette CUFF.2051 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 82;17 N cassette CUFF.2104 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 14;350 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 234;63 N mutually_exclusive CUFF.2187 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 90;6 N jcn_only_AD chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 74;11 K intron_retention CUFF.2151 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 20;136 N alternative_acceptor CUFF.2182 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 9;11 N intron_retention CUFF.2186 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 14;9 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 191;16 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 1209;25 K intron_retention CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 228;233 N alternative_donor CUFF.2093 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 235;4 K intron_retention CUFF.2163 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 286;140 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-34001933 chr19:33984244-33991843 123;342 N cassette CUFF.2051 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 344;176 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 222;1012 K cassette CUFF.2163 chr19 - chr19:49298722-49299684 chr19:49298722-49299403;chr19:49299587-49299684 chr19:49299404-49299586 193;76 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 29;104 N intron_retention CUFF.2182 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 15;4 K alternative_acceptor CUFF.2112 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 13;46 N alternative_acceptor CUFF.2186 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 166;41 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 488;41 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 207;145 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 219;5 N jcn_only_AA CUFF.2175 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 54;238 N jcn_only_AA CUFF.2142 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 3;16 K jcn_only_AD CUFF.2069 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 8;97 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 24;4448 K intron_retention CUFF.2093 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 162;64 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 98;57 K intron_retention CUFF.2104 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 116;68 N jcn_only_AD CUFF.2044 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 308;389 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 69;20 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 12;149 N intron_retention chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 35;64 K jcn_only_AA CUFF.2191 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 189;60 N cassette CUFF.2092 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866657-14867049 chr19:14866466-14866656 166;193 K cassette CUFF.2148 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 659;528 K alternative_acceptor CUFF.2141 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 26;176 K cassette CUFF.2182 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 11;555 K alternative_first_exon CUFF.2153 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725097 28;19 N jcn_only_AA CUFF.2186 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 16;35 K intron_retention CUFF.2167 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 1211;42 K intron_retention CUFF.2057 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 24;61 N cassette CUFF.2092 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 32;344 N alternative_acceptor CUFF.2175 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 136;12 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 70;72 N alternative_donor CUFF.2044 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 102;409 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 9;210 K mutually_exclusive CUFF.2178 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 122;70 K alternative_acceptor CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 1127;103 N jcn_only_AA CUFF.2104 chr19 + chr19:12917894-12918020 chr19:12917894-12918019 chr19:12918020-12918020 chr19:12918020-12918021 1;4460 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 268;30 K cassette CUFF.2165 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 45;43 N alternative_acceptor chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 27;161 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 59;252 N coord_cassette CUFF.2092 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 20;238 N cassette CUFF.2064 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 38;276 K intron_retention CUFF.2104 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 295;202 N intron_retention CUFF.2177 chr19 - chr19:51537897-51538050 chr19:51537896-51537897;chr19:51538050-51538051 30;9 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 29;45 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 35;1 K intron_retention CUFF.2048 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 203;118 K intron_retention CUFF.2104 chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 37;327 N intron_retention CUFF.2104 chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 145;23 N alternative_acceptor CUFF.2114 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 11;18 N cassette CUFF.2092 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 52;340 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 136;24 K cassette CUFF.2131 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 210;298 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 47;57 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 10;2218 K mutually_exclusive CUFF.2187 chr19 + chr19:55087577-55098476,chr19:55098528-55098667 chr19:55087577-55088931,chr19:55089191-55098667 chr19:55098477-55098527 chr19:55088932-55089190 53;81 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-33991843 chr19:33984244-34001933 423;41 K alternative_first_exon CUFF.2090 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 21;47 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 501;28 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 1352;48 N jcn_only_AD CUFF.2191 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 23;16 N intron_retention chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 139;63 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 904;20 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 1359;12 N alternative_acceptor CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 11;8 K intron_retention CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 38;410 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 230;383 N cassette CUFF.2103 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17615263 chr19:17611521-17611685 21;126 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 2;460 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 21;181 K intron_retention CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 19;2069 N jcn_only_AD CUFF.2071 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 101;105 N alternative_donor CUFF.2048 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 413;10 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 1014;192 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 224;31 K intron_retention CUFF.2164 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 86;73 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 118;15 N jcn_only_AD CUFF.2048 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 413;21 N coord_cassette CUFF.2163 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 90;222 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 36;0 N jcn_only_AA chr19 - chr19:33984244-34001933 chr19:33991908-34001933 41;412 K alternative_acceptor CUFF.2179 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 68;71 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 147;30 K intron_retention CUFF.2167 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 980;14 K intron_retention CUFF.2167 chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 833;17 K alternative_donor CUFF.2146 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 13;77 N jcn_only_AD CUFF.2044 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1014;148 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 42;0 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 36;0 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 103;196 N cassette CUFF.2182 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 23;23 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 266;31 N intron_retention chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 29;70 N intron_retention chr19 + chr19:50306636-50308711 chr19:50306635-50306636;chr19:50308711-50308712 2;31 K alternative_acceptor CUFF.2072 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 67;73 N cassette CUFF.2051 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 204;267 K cassette CUFF.2148 chr19 - chr19:41938314-41939441 chr19:41938314-41939176;chr19:41939340-41939441 chr19:41939177-41939339 223;499 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 1205;194 N alternative_acceptor CUFF.2186 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 16;17 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 83;210 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 66;47 K intron_retention CUFF.2186 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 104;4 N jcn_only_AA chr19 + chr19:17597767-17597982 chr19:17597767-17597908 52;29 N jcn_only_AA CUFF.2093,CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 68;20 N cassette CUFF.2148 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 227;422 K intron_retention CUFF.2106 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 176;91 K jcn_only_AD CUFF.2177 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 318;166 K alternative_donor CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 31;28 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 111;3 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 255;42 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 272;46 N cassette CUFF.2186 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 32;93 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 119;14 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 42;0 K alternative_donor CUFF.2099 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 20;64 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 371;243 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 13;2099 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 89;78 K intron_retention CUFF.2175 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 218;18 N jcn_only_AD chr19 - chr19:33984244-33991843;chr19:33984244-34001933 chr19:33984244-34003498 384;81 N jcn_only_AA CUFF.2103,CUFF.2104 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 150;16 N intron_retention chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 11;37 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 537;78 N intron_retention CUFF.2139 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 94;45 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 233;66 K intron_retention CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 31;11 K intron_retention CUFF.2104 chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 393;353 N alternative_donor CUFF.2044 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1014;245 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 68;36 N alternative_acceptor CUFF.2142 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 3;3 N mutually_exclusive CUFF.2187 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085164,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085165-55085379 90;7 N jcn_only_AD CUFF.2157 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 190;23 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 59;118 K intron_retention CUFF.2072 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 30;65 K intron_retention CUFF.2106 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 156;67 K intron_retention CUFF.2044 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 389;173 K alternative_first_exon CUFF.2163 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314385 chr19:49314066-49314236 73;26 N alternative_donor CUFF.2117 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 24;0 N jcn_only_AA CUFF.2146 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 11;37 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 1297;21 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 1217;54 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 161;66 N jcn_only_AA CUFF.2182 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 11;15 K alternative_acceptor CUFF.2092 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 105;79 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 385;1014 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 155;12 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 461;1 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 63;545 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 4471;1 K intron_retention CUFF.2167 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 1195;41 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 109;30 K cassette CUFF.2182 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 345;79 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 27;35 K cassette CUFF.2191 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 145;28 K intron_retention CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 121;94 N cassette CUFF.2165 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 18;53 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 883;41 N alternative_donor CUFF.2071 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 101;28 N coord_cassette CUFF.2129 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 299;5134 N jcn_only_AD CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 499;30 N cassette CUFF.2163 chr19 - chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311569-49314240 chr19:49311013-49311568 59;202 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 51;42 K alternative_donor CUFF.2191 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 148;51 K cassette CUFF.2103 chr19 + chr19:17598339-17599816 chr19:17598339-17599656;chr19:17599749-17599816 chr19:17599657-17599748 38;177 N jcn_only_AD CUFF.2092 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 331;18 K intron_retention CUFF.2130 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 368;104 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 573;36 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 278;40 N jcn_only_AA CUFF.2165 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 59;25 K alternative_first_exon CUFF.2103 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 chr19:17581211-17581516 chr19:17597372-17598144 78;158 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 876;48 K alternative_first_exon CUFF.2157 chr19 + chr19:45251386-45254483 chr19:45252304-45254483 chr19:45250878-45251385 chr19:45251752-45252303 96;96 N alternative_donor CUFF.2157 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 190;4 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 47;15 K intron_retention CUFF.2167 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 1268;32 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 62;81 N cassette CUFF.2106 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 24;1159 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 90;77 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 31;5 N intron_retention chr19 + chr19:50285227-50296292 chr19:50285226-50285227;chr19:50296292-50296293 1;6 N intron_retention chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 102;99 K jcn_only_AA CUFF.2167 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 1127;166 K alternative_donor CUFF.2130 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 327;165 N jcn_only_AA CUFF.2103 chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 88;78 N intron_retention CUFF.2104 chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 121;38 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 1381;19 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 811;113 K cassette CUFF.2167 chr19 + chr19:50305399-50306205 chr19:50305399-50305790;chr19:50305857-50306205 chr19:50305791-50305856 1016;85 K intron_retention CUFF.2139 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 427;836 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 37;52 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 30;145 K cassette CUFF.2187 chr19 + chr19:55084903-55085542 chr19:55084903-55085297;chr19:55085380-55085542 chr19:55085298-55085379 98;124 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 291;6 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 98;129 K alternative_donor CUFF.2177 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 318;122 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 183;114 K alternative_first_exon CUFF.2169 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 48;52 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 599;89 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 6;30 K jcn_only_AD CUFF.2069 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 31;50 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 248;49 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 19;147 N jcn_only_AA CUFF.2175 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 136;26 K intron_retention CUFF.2104 chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 509;120 N jcn_only_AD CUFF.2093 chr19 + chr19:16191253-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16187508-16192722 543;72 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 702;3582 N alternative_acceptor CUFF.2044 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 38;296 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 1208;29 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 12;220 N jcn_only_AA CUFF.2164 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 17;110 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 109;210 N alternative_donor chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 74;11 N alternative_acceptor CUFF.2165 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 59;12 N cassette CUFF.2104 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17447844-17448816 chr19:17447629-17447843 19;378 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 461;1 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 14;210 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 271;85 N alternative_first_exon CUFF.2104 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445729-17445931 chr19:17447421-17447536 37;25 K jcn_only_AD CUFF.2139 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 121;857 N alternative_donor CUFF.2052 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6216747-6217964 chr19:6217964-6217965 246;27 K jcn_only_AD CUFF.2099 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 20;68 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 292;5 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 1005;366 N alternative_acceptor CUFF.2146 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 11;18 K intron_retention chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 4460;14 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 68;1203 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 20;247 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 121;23 K cassette CUFF.2092 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 132;84 N alternative_acceptor CUFF.2129 chr19 - chr19:33904549-33953900 chr19:33904550-33953900 chr19:33904549-33904549 chr19:33904548-33904549 2;3604 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 104;39 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 147;29 K alternative_donor CUFF.2047 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 37;7 K intron_retention CUFF.2196 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 209;94 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 12;126 K intron_retention CUFF.2093 chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 222;103 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 157;383 K cassette CUFF.2099 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 13;26 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 14;113 N jcn_only_AD CUFF.2117 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 24;7 K intron_retention chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 14;40 K alternative_last_exon CUFF.2114 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627014-21627225 chr19:21634843-21636579 47;140 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 56;37 N intron_retention chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 24;115 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 540;48 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 17;24 K intron_retention CUFF.2167 chr19 + chr19:50285228-50296292 chr19:50285227-50285228;chr19:50296292-50296293 478;7 N alternative_acceptor CUFF.2164 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 17;79 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 277;16 K jcn_only_AD CUFF.2139,CUFF.2177 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 64;150 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 119;20 N alternative_acceptor CUFF.2175 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 54;142 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 1224;94 K alternative_first_exon CUFF.2093 chr19 + chr19:16178773-16186856;chr19:16178549-16186856 chr19:16186520-16186856 chr19:16178344-16178548 chr19:16186438-16186519 318;86 K cassette CUFF.2191 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 57;113 N jcn_only_AA CUFF.2186 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 166;70 K intron_retention CUFF.2157 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 48;230 K jcn_only_AA CUFF.2092 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 105;128 K intron_retention CUFF.2114 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 228;9 N cassette CUFF.2092 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 20;327 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 201;62 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 194;161 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 2219;9 K intron_retention CUFF.2167 chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 776;26 K intron_retention CUFF.2167 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 144;15 K intron_retention CUFF.2167 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 1289;57 K intron_retention CUFF.2139 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 857;62 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 195;32 N jcn_only_AA chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 29;12 N jcn_only_AA chr19 - chr19:33984244-34003498 chr19:34002062-34003498 81;362 N alternative_donor CUFF.2167 chr19 + chr19:50285227-50296292 chr19:50285228-50296292 chr19:50285227-50285227 chr19:50285226-50285227 1;242 N jcn_only_AD CUFF.2103 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 158;25 K intron_retention CUFF.2048 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 150;84 K intron_retention CUFF.2114 chr19 - chr19:21637275-21639262 chr19:21637274-21637275;chr19:21639262-21639263 357;6 K intron_retention CUFF.2177 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 301;239 N alternative_donor CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 499;17 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 598;90 N intron_retention chr19 + chr19:12917894-12918020 chr19:12917893-12917894;chr19:12918020-12918021 1;14 N coord_cassette CUFF.2092 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 44;206 K intron_retention CUFF.2106 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 90;84 N intron_retention chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 224;368 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 1037;197 K intron_retention CUFF.2141 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 254;43 N cassette CUFF.2051 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 146;538 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 162;101 K intron_retention CUFF.2114 chr19 - chr19:21638407-21639262 chr19:21638406-21638407;chr19:21639262-21639263 99;2 N jcn_only_AD CUFF.2093 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 393;222 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 179;28 K alternative_acceptor CUFF.2104 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 109;295 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 217;2 N alternative_acceptor CUFF.2092 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 264;15 K jcn_only_AD CUFF.2157 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 228;48 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 461;79 N alternative_donor CUFF.2103 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 158;188 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 4449;23 N alternative_acceptor CUFF.2104 chr19 + chr19:12917894-12918020 chr19:12917894-12918019 chr19:12918020-12918020 chr19:12918020-12918021 1;2230 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 86;74 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 1257;14 K alternative_last_exon CUFF.2093 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206238 304;67 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 195;15 K cassette CUFF.2077 chr19 + chr19:11888553-11889144 chr19:11888553-11888930;chr19:11888995-11889144 chr19:11888931-11888994 20;53 N alternative_acceptor chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 29;8 N intron_retention chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 12;36 K intron_retention CUFF.2163 chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 47;189 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 1303;96 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 18;31 K intron_retention CUFF.2044 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 715;79 N jcn_only_AA CUFF.2117,CUFF.2181 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 24;7 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 148;207 N alternative_donor CUFF.2129,CUFF.2177 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 619;13 K intron_retention CUFF.2177 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 499;10 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 98;62 N jcn_only_AD CUFF.2103 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 78;21 K intron_retention CUFF.2155 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 112;45 N alternative_acceptor CUFF.2129 chr19 - chr19:33968996-33978155 chr19:33968997-33978155 chr19:33968996-33968996 chr19:33968995-33968996 2;1788 N jcn_only_AD CUFF.2072 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 19;13 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 495;118 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 4176;108 N jcn_only_AA CUFF.2032 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 43;92 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 473;16 K alternative_donor CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 36;73 K cassette CUFF.1980 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 132;156 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 89;15 N jcn_only_AD CUFF.2021 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 21;242 N alternative_donor CUFF.2041 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 28;91 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 413;77 K alternative_donor CUFF.2002 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 37;22 K jcn_only_AA CUFF.2032 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 54;137 K intron_retention CUFF.1980 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 235;115 N jcn_only_AA CUFF.1989 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 199;38 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 785;30 N cassette CUFF.1980 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-180235 chr18:166787-166819 71;137 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 103;1 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 2;48 K alternative_first_exon CUFF.2032 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67623991-67624490 chr18:67623850-67623979 149;47 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 92;12 N jcn_only_AA CUFF.2027 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 228;27 N jcn_only_AA CUFF.2032 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 20;213 N jcn_only_AD CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 182;33 N coord_cassette CUFF.2003 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 10;291 N alternative_first_exon CUFF.1999 chr18 - chr18:44486279-44500021;chr18:44486279-44497964 chr18:44486279-44497284 chr18:44497965-44498101 chr18:44497285-44497548 112;146 K jcn_only_AD CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 36;52 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 93;11 K intron_retention CUFF.1997 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 chr18:44268738-44268882;chr18:44272132-44272218 74;113 N jcn_only_AA CUFF.1986 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 552;30 N jcn_only_AA chr18 + chr18:77441518-77455224 chr18:77441518-77443042 46;62 N alternative_acceptor chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 255;41 K alternative_last_exon CUFF.1999 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398373-44398410 57;63 K intron_retention CUFF.1986 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 438;307 K intron_retention CUFF.2025 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 219;39 N alternative_last_exon chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391127 chr18:61378569-61378628 41;246 K cassette CUFF.2007 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 76;12 N mutually_exclusive CUFF.1999 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 79;10 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 340;31 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 7;720 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 13;15 N jcn_only_AD CUFF.2003 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 539;26 K jcn_only_AA CUFF.1989 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 52;69 N alternative_donor CUFF.2003 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 260;16 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 725;2 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 314;118 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 59;8 K jcn_only_AD CUFF.2002 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 37;14 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 95;720 K jcn_only_AD CUFF.1986 chr18 + chr18:12012215-12014263 chr18:12012349-12014263 chr18:12012215-12012348 chr18:12012214-12012215 394;96 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 chr18:44268738-44268830;chr18:44272132-44272218 18;183 N cassette CUFF.2040 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 5;25 N alternative_acceptor CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 319;26 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 417;72 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 451;38 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 103;1 K cassette CUFF.1986 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 181;456 N alternative_donor CUFF.2003 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 535;8 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 18;74 K mutually_exclusive CUFF.1980 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 94;137 N cassette CUFF.1980 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 71;94 N alternative_acceptor CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 182;2 N jcn_only_AD CUFF.1986 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 552;28 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 66;38 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 14;40 N jcn_only_AD CUFF.2003 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 535;23 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 102;2 K intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 260;88 N jcn_only_AA CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 182;22 N jcn_only_AA CUFF.2032 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 100;35 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 324;48 K alternative_first_exon CUFF.2027 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417488-63417616 chr18:63417792-63418386 5;259 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 15;142 N cassette CUFF.2040 chr18 + chr18:77489070-77513651 chr18:77489070-77496354;chr18:77496522-77513651 chr18:77496355-77496521 12;46 N cassette CUFF.2003 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 9;221 N coord_cassette CUFF.2003 chr18 + chr18:56001125-56010137 chr18:56001125-56008269;chr18:56008402-56008909;chr18:56009030-56010137 chr18:56008270-56008401;chr18:56008910-56009029 9;286 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 24;4 N alternative_donor CUFF.1991 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728514-14796414 chr18:14728513-14728514 3;11 N alternative_first_exon CUFF.1980 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158383-158714 chr18:158860-159021 58;89 N alternative_donor CUFF.2041 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 182;6 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 79;293 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 2;14 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 150;48 K cassette CUFF.1997 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 chr18:44284535-44284627;chr18:44336341-44337132 11;97 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 426;64 N cassette CUFF.2021 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 17;214 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 81;23 N cassette CUFF.1999 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 6;427 N jcn_only_AD CUFF.1991 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728514-14796414 chr18:14728513-14728514 3;28 N alternative_acceptor CUFF.2027 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 228;5 N jcn_only_AD CUFF.2003 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 465;56 N alternative_donor CUFF.2003 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 465;0 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 120;230 N cassette CUFF.2003 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 10;299 N jcn_only_AD CUFF.2003 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 260;14 N cassette CUFF.1999 chr18 - chr18:44483597-44500021 chr18:44483597-44486189;chr18:44486279-44500021 chr18:44486190-44486278 78;19 N alternative_donor CUFF.2003 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 539;4 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 722;5 K alternative_first_exon CUFF.1986 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981024-11981204 chr18:11981390-11981764 67;306 K jcn_only_AA CUFF.2031 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 53;25 N coord_cassette CUFF.1999 chr18 - chr18:44483597-44500021 chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44484065-44484169;chr18:44486190-44486278 78;48 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 19;9 N alternative_first_exon CUFF.2040 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441398-77441517 21;29 N alternative_donor CUFF.1986 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 552;2 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 24;2 N intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 21;84 N jcn_only_AD CUFF.1991 chr18 + chr18:14784363-14784461 chr18:14784364-14784461 chr18:14784363-14784363 chr18:14784362-14784363 1;496 K cassette CUFF.1986 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012349-12014263 chr18:12012169-12012348 181;270 N cassette CUFF.2003 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 18;387 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 406;84 N jcn_only_AA chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 255;84 N alternative_donor CUFF.1986 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 720;8 K alternative_first_exon CUFF.2032 chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624490 chr18:67613970-67614305 61;167 N alternative_acceptor CUFF.1997 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 chr18:44272132-44272218;chr18:44268738-44268830 18;155 K alternative_first_exon CUFF.2041 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867526-77867905 26;179 N cassette CUFF.1999 chr18 - chr18:44483597-44486189 chr18:44483597-44484064;chr18:44484170-44486189 chr18:44484065-44484169 21;97 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 59;9 K cassette CUFF.2018 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 291;46 K intron_retention CUFF.1989 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 36;43 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 193;5 N cassette CUFF.1999 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 60;154 N alternative_donor CUFF.1991 chr18 + chr18:14784363-14784461 chr18:14784364-14784461 chr18:14784363-14784363 chr18:14784362-14784363 1;247 K alternative_donor CUFF.1986 chr18 + chr18:12012215-12014263 chr18:12012349-12014263 chr18:12012215-12012348 chr18:12012214-12012215 394;62 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 96;113 N jcn_only_AA CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 319;47 N cassette CUFF.1997 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 chr18:44272132-44272218;chr18:44336341-44337132 29;70 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 415;74 N jcn_only_AA CUFF.1983 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775123-4807994 chr18:4775122-4775123 61;27 K cassette CUFF.2018 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 254;34 N alternative_acceptor CUFF.1986 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 552;20 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 29;87 K alternative_acceptor CUFF.1989 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 52;36 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 60;73 N jcn_only_AA CUFF.2032 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 58;19 N alternative_acceptor CUFF.2032 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 20;207 N alternative_acceptor CUFF.2032 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 58;0 N jcn_only_AD CUFF.1986 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 720;75 K alternative_first_exon CUFF.2003 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024426-56024484 chr18:56027104-56027290 365;93 K alternative_acceptor CUFF.2031 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 53;12 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 750;65 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 451;38 N alternative_first_exon CUFF.2003 chr18 + chr18:55888990-55895061;chr18:55833094-55895061 chr18:55862966-55895061 chr18:55833020-55833093 chr18:55862652-55862965 136;24 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 16;51 N alternative_acceptor CUFF.1983 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775123-4807994 chr18:4775122-4775123 61;0 N jcn_only_AA CUFF.2032 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 127;8 K intron_retention CUFF.1999 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 289;158 K intron_retention CUFF.2003 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 746;43 K cassette CUFF.2003 chr18 + chr18:56001125-56008909 chr18:56001125-56008269;chr18:56008402-56008909 chr18:56008270-56008401 23;269 N cassette CUFF.1980 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 165;162 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 103;1 N intron_retention chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 21;143 K intron_retention CUFF.2018 chr18 - chr18:61060783-61064266 chr18:61060782-61060783;chr18:61064266-61064267 319;22 N alternative_first_exon CUFF.2003 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 214;525 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 24;157 N cassette CUFF.1999 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 36;294 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 53;145 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 464;26 N jcn_only_AD CUFF.2041 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 28;157 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 10;338 N mutually_exclusive CUFF.2040 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 11;11 K jcn_only_AD CUFF.2021 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 23;363 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 38;35 N jcn_only_AD CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 35;10 K cassette CUFF.2343 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 34;48 K jcn_only_AD CUFF.2340 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 55;14 K intron_retention CUFF.2328 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 402;10 K intron_retention CUFF.2308 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 68;23 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 55;18 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 33;21 K intron_retention CUFF.2319 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 125;28 K intron_retention CUFF.2332 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 103;20 N alternative_acceptor CUFF.2356 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 63;2 N jcn_only_AD CUFF.2328 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 79;19 K intron_retention CUFF.2343 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 48;5 K intron_retention CUFF.2313 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 213;155 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 98;32 K cassette CUFF.2346 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 56;38 N alternative_donor CUFF.2328,CUFF.2329 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 114;16 N alternative_donor CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 98;41 N jcn_only_AD CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 98;51 N alternative_donor CUFF.2309,CUFF.2313 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 698;15 K jcn_only_AA CUFF.2347 chrX - chrX:85219058-85302487 chrX:85282562-85302487 81;27 K jcn_only_AD CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 14;96 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 87;12 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 0;18 K cassette CUFF.2340 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 23;3 K intron_retention CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 14;83 N alternative_acceptor CUFF.2308 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 29;0 K cassette CUFF.2340 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 42;23 N alternative_donor CUFF.2347 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 27;5 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 17;15 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 143;22 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 17;20 N cassette CUFF.2319 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 125;71 K intron_retention CUFF.2384 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 666;17 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 35;3 N jcn_only_AD CUFF.2329,CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 52;25 K intron_retention CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 35;43 N cassette CUFF.2355 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 48;123 N jcn_only_AA CUFF.2328 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 49;79 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 11;105 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 85;14 N jcn_only_AA CUFF.2329 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 23;72 N jcn_only_AD chrX - chrX:53652220-53654360 chrX:53652220-53652746 10;13 K jcn_only_AD CUFF.2337 chrX + chrX:45129987-45184737 chrX:45184464-45184737 26;141 N jcn_only_AD CUFF.2373 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 30;39 N jcn_only_AD CUFF.2355 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 127;14 N jcn_only_AD CUFF.2384 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 47;104 K intron_retention CUFF.2308 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 82;19 N alternative_donor CUFF.2384 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 47;62 K alternative_last_exon CUFF.2354 chrX - chrX:106235661-106236459;chrX:106059017-106236459 chrX:106229431-106236459 chrX:106057053-106059016 chrX:106229213-106229430 35;16 N cassette CUFF.2313 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 84;53 N jcn_only_AD CUFF.2354 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 2;15 N intron_retention chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 25;65 N alternative_donor CUFF.2373 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 30;0 N intron_retention chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 7;3 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 53;20 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 35;11 N jcn_only_AA CUFF.2309 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 10;58 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 32;12 N alternative_acceptor CUFF.2329 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 29;21 N jcn_only_AA chrX + chrX:47035986-47040613 chrX:47035986-47038501 10;29 N jcn_only_AD CUFF.2309,CUFF.2313 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 698;145 K alternative_acceptor CUFF.2337 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 43;22 K cassette CUFF.2328 chrX - chrX:19935453-19947902 chrX:19935453-19941275;chrX:19941526-19947902 chrX:19941276-19941525 51;108 K alternative_last_exon CUFF.2370 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654529 chrX:133634060-133634698 104;29 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 160;131 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 47;23 N alternative_donor CUFF.2354 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 35;26 N alternative_acceptor CUFF.2329 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 64;1 N alternative_acceptor CUFF.2328 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 49;5 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 209;82 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 20;59 N alternative_donor CUFF.2355 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 164;23 N alternative_donor CUFF.2308 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 31;0 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 28;17 N alternative_first_exon CUFF.2346 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003120-78003531 chrX:78006707-78006808 27;17 N alternative_donor CUFF.2328 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 79;9 K alternative_acceptor CUFF.2340,CUFF.2376 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 103;169 N jcn_only_AD chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 27;14 K intron_retention CUFF.2347 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 9;10 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 85;46 K jcn_only_AD CUFF.2308,CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 150;23 N jcn_only_AD CUFF.2340 chrX + chrX:47035986-47040613 chrX:47039906-47040613 10;86 K intron_retention CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 150;69 N jcn_only_AD CUFF.2355 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 164;13 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 78;52 N jcn_only_AA CUFF.2329 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 64;20 N alternative_donor CUFF.2329,CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 52;14 N cassette CUFF.2357 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 31;5 K cassette CUFF.2352 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 57;36 K intron_retention CUFF.2328 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 222;122 N alternative_donor CUFF.2354 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 2;1 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 53;1 K alternative_donor CUFF.2340 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 55;7 K alternative_first_exon CUFF.2309 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645779 chrX:10588330-10588689 39;75 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 18;0 K jcn_only_AA CUFF.2340,CUFF.2376 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 103;340 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 29;122 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 213;78 N jcn_only_AD CUFF.2313 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 32;76 K mutually_exclusive CUFF.2308 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 72;23 N jcn_only_AA CUFF.2347 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 9;9 N jcn_only_AA CUFF.2329 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 29;33 N alternative_donor chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 27;0 N alternative_donor CUFF.2313 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 32;3 N cassette CUFF.2319 chrX - chrX:15344169-15353622 chrX:15344169-15349711;chrX:15350115-15353622 chrX:15349712-15350114 20;186 K intron_retention CUFF.2384 chrX + chrX:153607927-153608049 chrX:153607926-153607927;chrX:153608049-153608050 104;10 N jcn_only_AA CUFF.2356 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 63;36 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 27;5 K alternative_first_exon CUFF.2329 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20285157-20285599 chrX:20258687-20258735 40;38 N alternative_acceptor CUFF.2309 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 10;45 N cassette CUFF.2319 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 44;302 K intron_retention CUFF.2328 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 135;16 K mutually_exclusive CUFF.2319 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 177;20 K cassette CUFF.2339 chrX - chrX:46360771-46387769 chrX:46360771-46382371;chrX:46382561-46387769 chrX:46382372-46382560 6;77 K alternative_donor CUFF.2308,CUFF.2339 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 150;26 N alternative_donor CUFF.2313 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 853;6 N cassette CUFF.2355 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 24;109 N intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 26;87 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 87;12 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 29;15 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 159;526 K intron_retention CUFF.2355 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 98;30 N alternative_acceptor CUFF.2329 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 23;46 N alternative_acceptor CUFF.2347 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 9;3 N intron_retention CUFF.2354 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 10;37 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 36;1 K intron_retention CUFF.2328 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 118;69 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 116;49 K alternative_first_exon CUFF.2329 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237168 65;165 N jcn_only_AD CUFF.2313 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 853;24 K intron_retention CUFF.2343 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 52;4 N alternative_donor CUFF.2356 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 63;6 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 18;0 K cassette CUFF.2346 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 14;44 K alternative_acceptor CUFF.2313 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 213;560 K jcn_only_AA CUFF.2337 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 43;26 N intron_retention chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 9;21 N jcn_only_AA chrX - chrX:53652220-53654360 chrX:53652990-53654360 10;19 N jcn_only_AD CUFF.2347 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 27;14 K alternative_donor CUFF.2370 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 14;98 N coord_cassette CUFF.2355 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 22;144 K alternative_first_exon CUFF.2337 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042409-45042589 chrX:45182792-45182892 41;77 N intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 18;155 N jcn_only_AD CUFF.2328,CUFF.2329 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 114;24 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 20;12 K intron_retention CUFF.2384 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 866;8 N jcn_only_AA CUFF.2308 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 29;13 K intron_retention CUFF.2339 chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 23;65 K cassette CUFF.2384 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 618;128 N jcn_only_AD CUFF.2356 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 63;51 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 113;52 N jcn_only_AD CUFF.2308 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 31;21 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 21;16 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 23;333 K jcn_only_AA CUFF.2313 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 213;572 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 81;18 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 18;0 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 18;0 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 56;43 K alternative_last_exon CUFF.2321 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15711086-15711181 chrX:15709261-15709370 184;65 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 22;32 N alternative_donor CUFF.2355 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 127;10 K intron_retention CUFF.2282 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 32;45 K intron_retention chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 41;6 N alternative_acceptor CUFF.2266 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 114;7 N alternative_donor CUFF.2292 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 165;8 K alternative_first_exon CUFF.2284 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731278-31731402 23;27 K intron_retention CUFF.2278 chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 chr22:29684595-29684775;chr22:29687551-29687588 74;15 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 52;16 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 27;299 N jcn_only_AD CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 74;15 N mutually_exclusive CUFF.2292 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 7;6 K jcn_only_AA CUFF.2260,CUFF.2292 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 190;11 K intron_retention CUFF.2255 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 102;96 K jcn_only_AD CUFF.2270 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 79;93 K alternative_first_exon CUFF.2282 chr22 - chr22:30738869-30748939 chr22:30738869-30740921 chr22:30748940-30749061 chr22:30740922-30741203 417;321 N jcn_only_AA CUFF.2255 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 367;20 K intron_retention CUFF.2282 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 53;17 N jcn_only_AA CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 74;3 N alternative_donor CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 96;0 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 36;22 K alternative_acceptor CUFF.2278 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 chr22:29668205-29668241;chr22:29668375-29668420 63;338 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 137;129 K intron_retention chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 41;25 N alternative_donor CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 278;24 N alternative_acceptor CUFF.2277 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 48;3 N alternative_donor CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 223;73 K alternative_first_exon CUFF.2270 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700333-24700420 168;37 N mutually_exclusive CUFF.2295 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 276;20 K intron_retention CUFF.2263 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 8;37 N alternative_acceptor CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 96;0 N alternative_acceptor CUFF.2292 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 154;6 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 181;20 K intron_retention CUFF.2303 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 399;67 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 245;21 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 58;11 K intron_retention CUFF.2282 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 81;90 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 754;1 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29668375-29668420 469;63 N jcn_only_AA CUFF.2266 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 11;28 N jcn_only_AD CUFF.2288 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 98;47 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 25;93 K cassette CUFF.2270 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 93;14 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 8;128 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 100;195 K alternative_donor CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 15;85 N cassette CUFF.2295 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 21;264 N jcn_only_AD CUFF.2292 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 165;19 K intron_retention CUFF.2278 chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 chr22:29684595-29684775;chr22:29686402-29687545 198;31 K intron_retention CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 504;36 N cassette CUFF.2278 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 chr22:29674120-29674205;chr22:29682912-29683123 57;429 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 100;13 N jcn_only_AA CUFF.2292 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 154;18 K intron_retention CUFF.2303 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 446;97 N coord_cassette CUFF.2295 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 72;103 N alternative_donor CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 54;8 N jcn_only_AA CUFF.2282 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 21;390 N jcn_only_AD CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 54;44 N jcn_only_AA CUFF.2266 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 80;12 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 164;29 K intron_retention CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 15;29 N jcn_only_AD CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 588;72 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 601;154 N jcn_only_AD CUFF.2282 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 34;386 N jcn_only_AD CUFF.2303 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 36;181 N cassette CUFF.2303 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 37;214 K jcn_only_AA CUFF.2272 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 37;151 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 181;71 K cassette CUFF.2288 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 93;58 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 150;116 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 63;688 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 224;151 N alternative_acceptor CUFF.2266 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 80;9 K intron_retention CUFF.2278 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 chr22:29695224-29695321;chr22:29695589-29695841 248;39 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 9;17 N alternative_first_exon CUFF.2295 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158430-47158745 chr22:47159128-47159228 24;106 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 181;13 K cassette CUFF.2278 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 chr22:29669730-29669853;chr22:29674019-29674205 451;167 K cassette CUFF.2292 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 357;134 N intron_retention chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 16;18 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 65;129 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 76;140 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 27;41 K intron_retention CUFF.2278 chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 chr22:29684595-29684775;chr22:29687554-29687588 71;14 N cassette CUFF.2260 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 12;41 K cassette CUFF.2295 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 317;145 N jcn_only_AA CUFF.2277 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 48;39 K intron_retention CUFF.2266 chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 31;9 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 39;154 K cassette CUFF.2272 chr22 - chr22:25155957-25158364 chr22:25155957-25157845;chr22:25157929-25158364 chr22:25157846-25157928 78;11 N jcn_only_AD CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 278;36 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 155;600 N coord_cassette CUFF.2303 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 143;580 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 777;26 N cassette CUFF.2263 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 46;144 N cassette CUFF.2255 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 20;228 N intron_retention chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 19;36 N intron_retention CUFF.2303 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 72;155 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 chr22:29684595-29684744;chr22:29688489-29688595 14;77 N jcn_only_AA CUFF.2266 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 114;10 K intron_retention CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 223;130 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 6;16 N intron_retention CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 14;129 N intron_retention CUFF.2303 chr22 - chr22:51016364-51016512 chr22:51016363-51016364;chr22:51016512-51016513 21;36 K intron_retention CUFF.2303 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 829;108 N intron_retention CUFF.2260 chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 4;64 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 225;27 N jcn_only_AA CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 14;829 N jcn_only_AD CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 96;11 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 20;2 K alternative_acceptor CUFF.2277 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 174;69 N jcn_only_AD CUFF.2263 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 20;37 N alternative_donor CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 588;128 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 142;52 K intron_retention CUFF.2303 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 579;466 N jcn_only_AD CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 277;74 N intron_retention CUFF.2292 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 24;30 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 89;249 N jcn_only_AA CUFF.2278,CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 54;48 N alternative_acceptor CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 277;26 K alternative_acceptor CUFF.2278 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 chr22:29694723-29694885;chr22:29695224-29695270 224;93 N alternative_donor CUFF.2295 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 14;1 N alternative_acceptor CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 74;47 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 325;1 N jcn_only_AD CUFF.2295 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 14;420 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 11;9 N jcn_only_AA chr22 + chr22:29683124-29688125 chr22:29683124-29684594 chr22:29682912-29683123 5;417 N alternative_donor CUFF.2277 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 20;18 K jcn_only_AD CUFF.2260 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 15;41 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 195;529 K jcn_only_AD CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 504;8 N alternative_donor CUFF.2282 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 34;228 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 300;26 N intron_retention chr22 - chr22:51009963-51010434 chr22:51009962-51009963;chr22:51010434-51010435 51;67 K intron_retention chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 66;24 K intron_retention CUFF.2278 chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 chr22:29695224-29695270;chr22:29695589-29695841 203;40 K intron_retention CUFF.2303 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 213;105 N alternative_acceptor CUFF.2266 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 30;40 K intron_retention CUFF.2257 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 278;24 K intron_retention CUFF.2292 chr22 + chr22:45148508-45182336 chr22:45148507-45148508;chr22:45182336-45182337 341;6 K alternative_acceptor CUFF.2272 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 37;89 N intron_retention chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 12;15 N alternative_donor CUFF.2278 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 chr22:29668205-29668241;chr22:29663905-29664338 777;20 K cassette CUFF.2292 chr22 + chr22:45148508-45182336 chr22:45148508-45173041;chr22:45173110-45182336 chr22:45173042-45173109 341;135 N alternative_acceptor CUFF.2303 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 14;431 N jcn_only_AA CUFF.2272 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 96;4 K intron_retention CUFF.2263 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 218;59 N jcn_only_AA CUFF.2295 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 428;89 K intron_retention CUFF.2278 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 chr22:29687554-29687588;chr22:29688126-29688158 161;6 N alternative_donor CUFF.2303 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 36;34 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 143;146 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 123;138 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 11;15 N jcn_only_AD CUFF.2303 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 223;14 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29668375-29668420 413;119 N alternative_donor CUFF.2263 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 74;5 N alternative_acceptor CUFF.2266 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 11;19 N alternative_donor CUFF.2288 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 98;10 N cassette CUFF.2255 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 34;139 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 8;20 K alternative_donor CUFF.2263 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 504;38 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 18;4 N alternative_last_exon CUFF.2278 chr22 + chr22:20755049-20759666 chr22:20755049-20755566 chr22:20759667-20762746 chr22:20755567-20755662 20;44 N cassette CUFF.2295 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 246;97 K jcn_only_AA CUFF.2278 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29668375-29668420 182;350 N alternative_donor chr22 - chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868423-21871613 chr22:21871613-21871614 14;2 N alternative_acceptor CUFF.2295 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 428;0 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 423;60 K alternative_donor CUFF.2270 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 79;142 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 98;154 N cassette CUFF.2292 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 31;366 K cassette CUFF.2263 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 79;102 K alternative_acceptor CUFF.2278 chr22 + chr22:29684776-29687553 chr22:29684776-29687550 chr22:29687551-29687553 chr22:29687553-29687554 chr22:29684595-29684775;chr22:29687554-29687588 71;42 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 183;10 K intron_retention CUFF.2278 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 chr22:29694723-29694885;chr22:29695224-29695270 224;64 K jcn_only_AA CUFF.2277 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 174;70 K alternative_donor CUFF.2278 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 chr22:29695589-29695841;chr22:29695224-29695270 203;127 K cassette CUFF.2292 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 8;512 N alternative_acceptor CUFF.2303 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 51;214 K intron_retention CUFF.2288 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 95;40 N jcn_only_AD CUFF.2277 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 20;36 N cassette CUFF.2295 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 72;367 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 128;21 N jcn_only_AD chr22 - chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868423-21871613 chr22:21871613-21871614 14;38 N alternative_acceptor CUFF.2255 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 367;1 K alternative_last_exon CUFF.2282 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 chr22:30738534-30738868 chr22:30742301-30742508 350;74 N jcn_only_AA CUFF.2266 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 30;80 K intron_retention CUFF.2278 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 chr22:29694723-29694885;chr22:29695185-29695270 151;73 N alternative_acceptor CUFF.2278,CUFF.2288 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 54;2 N jcn_only_AD chr22 + chr22:21823352-21823562 chr22:21823484-21823562 2;1 N alternative_acceptor CUFF.2282 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 21;24 N alternative_donor CUFF.2263 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 20;34 N cassette CUFF.2260 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 44;23 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 34;7 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 71;74 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 203;248 N cassette CUFF.2292 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 8;568 N jcn_only_AA CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 277;62 K intron_retention CUFF.2303 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 588;147 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 11;93 N jcn_only_AA CUFF.2303 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 51;418 N intron_retention chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 15;64 N alternative_donor CUFF.2303 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 277;20 K intron_retention CUFF.2303 chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 48;312 N jcn_only_AD CUFF.2278 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 chr22:29688126-29688158 5;161 K alternative_donor CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 49;41 N cassette CUFF.2211 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 30;22 K intron_retention CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 769;130 N alternative_acceptor CUFF.2210,CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 769;156 N cassette CUFF.2210 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 69;304 K alternative_last_exon CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33123391 chr20:33117656-33119025 389;115 K jcn_only_AA CUFF.2227 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 81;28 K jcn_only_AD CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 49;41 N cassette CUFF.2211 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 18;49 N jcn_only_AD CUFF.2201 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 29;2 N alternative_acceptor CUFF.2232 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 63;360 K coord_cassette CUFF.2210 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 69;489 K cassette CUFF.2235 chr20 - chr20:61982380-61987326 chr20:61982380-61986847;chr20:61986948-61987326 chr20:61986848-61986947 2;87 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 63;17 K jcn_only_AD CUFF.2212 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 50;175 N jcn_only_AA CUFF.2214 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 109;220 K alternative_last_exon CUFF.2204 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303594-14308204 chr20:14309518-14309973 86;101 K alternative_last_exon CUFF.2214 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052583-31052920 201;267 K intron_retention CUFF.2200 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 97;140 K alternative_first_exon CUFF.2204,CUFF.2227 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14318050-14318352 chr20:14309780-14309973 12;53 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 97;678 N alternative_donor CUFF.2221 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 110;13 K intron_retention CUFF.2200 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 93;31 K alternative_last_exon CUFF.2201 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170969-3171465 chr20:3171836-3171884 63;12 N jcn_only_AA CUFF.2214 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 97;13 N alternative_donor CUFF.2210 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 301;25 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 63;328 N alternative_donor CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 285;12 N coord_cassette CUFF.2210 chr20 + chr20:30115386-30132749 chr20:30115386-30115724;chr20:30115854-30125981;chr20:30126065-30132749 chr20:30115725-30115853;chr20:30125982-30126064 55;262 N cassette CUFF.2208 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 7;24 N alternative_donor CUFF.2208 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 9;8 K intron_retention CUFF.2221 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 298;703 N jcn_only_AA CUFF.2214 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 307;21 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 63;29 N jcn_only_AD CUFF.2208 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 9;28 K jcn_only_AD CUFF.2227 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 28;31 N alternative_acceptor CUFF.2199 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 35;138 K coord_cassette CUFF.2200 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 24;16 K alternative_last_exon CUFF.2220,CUFF.2232 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570178 16;95 K cassette CUFF.2210 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 445;664 N coord_cassette CUFF.2211 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 18;25 K alternative_first_exon CUFF.2214 chr20 - chr20:31115717-31120119;chr20:31115717-31172371 chr20:31115717-31123243 chr20:31172372-31172961 chr20:31123244-31123617 108;108 K intron_retention CUFF.2210 chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 834;24 N alternative_acceptor CUFF.2214 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 97;0 N jcn_only_AA CUFF.2214 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 103;36 N alternative_acceptor chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 18;15 N jcn_only_AA chr20 + chr20:2842351-2843710 chr20:2842351-2842450 23;155 N jcn_only_AD CUFF.2210 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 301;97 N cassette CUFF.2210 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 82;709 K alternative_donor CUFF.2227 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 28;18 N alternative_donor CUFF.2199 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 291;233 K cassette CUFF.2210 chr20 + chr20:30115386-30125981 chr20:30115386-30115724;chr20:30115854-30125981 chr20:30115725-30115853 229;353 N alternative_donor CUFF.2221 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 1365;62 K alternative_donor CUFF.2220 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 313;131 K alternative_acceptor CUFF.2227 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 81;13 N alternative_donor CUFF.2201 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 29;1 K jcn_only_AD CUFF.2220 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 313;103 N jcn_only_AD CUFF.2221 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 1365;114 N jcn_only_AA CUFF.2214 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 241;87 N jcn_only_AA CUFF.2210,CUFF.2221 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 769;207 N jcn_only_AD CUFF.2199 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 291;35 K intron_retention CUFF.2221 chr20 + chr20:33588962-33589047 chr20:33588961-33588962;chr20:33589047-33589048 10;334 N alternative_acceptor CUFF.2214 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 103;2 K alternative_donor CUFF.2212 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 50;88 N jcn_only_AD CUFF.2221 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 110;14 N jcn_only_AA chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 18;54 N jcn_only_AA CUFF.2232 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 63;153 K alternative_first_exon CUFF.2214 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071474 151;128 N alternative_first_exon CUFF.2200 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 chr20:2842261-2842350 chr20:2843111-2843580 16;78 N jcn_only_AD CUFF.2212 chr20 - chr20:32816000-33142152 chr20:32816000-33087067 10;11 N cassette CUFF.2210 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 55;183 K cassette CUFF.2210 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 722;92 N cassette CUFF.2210 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 446;660 K alternative_first_exon CUFF.2204,CUFF.2212 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011765 69;144 N jcn_only_AD CUFF.2220 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 285;13 N jcn_only_AA CUFF.2199 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 35;279 K intron_retention CUFF.2201 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 15;13 N intron_retention CUFF.2221 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 207;121 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 232;113 N cassette CUFF.2237 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 14;106 N cassette CUFF.2254 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 104;272 K jcn_only_AD CUFF.2244 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 248;238 N alternative_acceptor CUFF.2239 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 237;3 N jcn_only_AA CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 71;10 N jcn_only_AA CUFF.2254 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 210;21 K jcn_only_AA CUFF.2254 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 427;224 K alternative_acceptor CUFF.2247 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 91;78 K alternative_last_exon CUFF.2237 chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 35;317 N jcn_only_AA CUFF.2237 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 56;111 K alternative_first_exon CUFF.2237 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646055-15646478 8;361 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 110;135 N alternative_donor CUFF.2237 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 14;33 K jcn_only_AD CUFF.2254 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 262;15 K intron_retention CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 162;15 N jcn_only_AD CUFF.2244,CUFF.2254 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 279;17 K jcn_only_AA CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 162;303 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 145;200 N jcn_only_AD CUFF.2237 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 14;64 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 158;300 K intron_retention CUFF.2237 chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 303;15 N alternative_acceptor CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 71;0 N alternative_acceptor CUFF.2237 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 56;62 N jcn_only_AD CUFF.2250 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 191;11 N alternative_donor CUFF.2250 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 191;0 K alternative_acceptor CUFF.2237 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 162;120 K jcn_only_AA CUFF.2247 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 91;55 K cassette CUFF.2246 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 13;43 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 413;45 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 173;72 N alternative_acceptor CUFF.2244 chr21 - chr21:30934170-30949283 chr21:30934171-30949283 chr21:30934170-30934170 chr21:30934169-30934170 2;402 N alternative_donor chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 56;30 N jcn_only_AD CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 71;9 K cassette CUFF.2244 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 191;325 N jcn_only_AA CUFF.2239 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 237;18 N alternative_acceptor CUFF.2254 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 210;12 K alternative_first_exon CUFF.2247,CUFF.2254 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 13;47 K alternative_first_exon CUFF.2237 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646055-15646478 chr21:15651917-15651978 37;342 K alternative_last_exon CUFF.2247 chr21 - chr21:40969917-40981509 chr21:40977930-40981509,chr21:40978275-40981509 chr21:40969048-40969916 chr21:40977512-40977929 32;213 K intron_retention CUFF.2237 chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 35;77 N jcn_only_AD chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 56;8 N alternative_donor CUFF.2237 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 71;2 K alternative_acceptor CUFF.2254 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 427;117 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 313;32 N cassette CUFF.2244 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 63;36 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 207;38 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 15;78 N intron_retention chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 18;69 N jcn_only_AA CUFF.2244 chr21 - chr21:30934170-30949283 chr21:30934171-30949283 chr21:30934170-30934170 chr21:30934169-30934170 2;806 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 345;113 N alternative_donor CUFF.2244,CUFF.2254 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 279;2 K alternative_acceptor CUFF.940 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 28;8 N cassette CUFF.970 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 4;273 N jcn_only_AA chr7 - chr7:156589187-156619298 chr7:156616618-156619298 495;13 N jcn_only_AD CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 26;16 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 310;128 N jcn_only_AD CUFF.1027 chr7 + chr7:136554166-136699566 chr7:136677012-136699566 chr7:136554166-136677011 chr7:136554165-136554166 152;31 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 128;134 N jcn_only_AA chr7 + chr7:73106977-73107658;chr7:73106977-73277202 chr7:73106977-73111934 545;143 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 37;30 K jcn_only_AA CUFF.939 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 51;162 N cassette CUFF.1033 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 6;237 N jcn_only_AA chr7 + chr7:73101426-73277202;chr7:73101426-73105245 chr7:73101426-73106925 258;79 N jcn_only_AD chr7 - chr7:111201980-111202519 chr7:111201980-111202499 186;16 N jcn_only_AD CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 35;56 N cassette CUFF.942 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 77;89 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 31;43 N alternative_acceptor CUFF.1019 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 298;38 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 59;102 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 333;51 N alternative_acceptor CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 35;2 N jcn_only_AA chr7 + chr7:73101426-73277202;chr7:73101426-73106925 chr7:73101426-73105245 82;255 K cassette CUFF.988 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 119;362 N jcn_only_AD chr7 + chr7:73098135-73105245;chr7:73101231-73105245 chr7:73101426-73105245 260;255 N jcn_only_AA chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 282;19 N intron_retention chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 54;22 N alternative_donor chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 16;4 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 58;102 N jcn_only_AA chr7 + chr7:73106977-73277202;chr7:73106977-73111934 chr7:73106977-73107658 144;544 K intron_retention CUFF.988 chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 34;35 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 61;43 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 25;124 N jcn_only_AA CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 22;294 K coord_cassette CUFF.956 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 229;63 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 335;179 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 152;2 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 39;1 N jcn_only_AD chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 264;34 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 135;24 K intron_retention CUFF.1043 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 13;48 N jcn_only_AA CUFF.926,CUFF.964 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 56;12 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 6;3 N jcn_only_AD CUFF.988 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 605;195 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 630;1192 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 298;1 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 22;10 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 830;2 K intron_retention CUFF.988 chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 727;108 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 66;48 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 1637;0 K intron_retention CUFF.926 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 20;94 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 3696;5 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 31;245 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 154;0 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 281;3 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 28;26 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 9;2113 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 3;54 N cassette CUFF.926 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 50;444 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 282;15 K intron_retention CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 2094;60 K cassette CUFF.988 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 84;657 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 16;73 K jcn_only_AD CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 169;29 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 22;82 K jcn_only_AA CUFF.984 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 96;212 K alternative_donor CUFF.974 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 29;39 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73108381-73111934;chr7:73111847-73111934 chr7:73106977-73111934 276;143 N alternative_acceptor CUFF.920,CUFF.932 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 82;2 N jcn_only_AD chr7 + chr7:73105343-73106925;chr7:73101231-73106925 chr7:73101426-73106925 601;79 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 45;18 K jcn_only_AA CUFF.972 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 108;69 N cassette CUFF.944 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 35;58 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 127;2113 N alternative_last_exon chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 41;136 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 43;249 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 115;232 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 137;3 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 406;98 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 187;251 K alternative_last_exon CUFF.938 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152660-19152763 44;180 N jcn_only_AA CUFF.963 chr7 - chr7:74981241-74982815 chr7:74982650-74982815 5;2 K jcn_only_AD CUFF.1027 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 153;170 N cassette CUFF.984 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 70;82 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 1637;0 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 16;6 K alternative_acceptor CUFF.972 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 108;71 N intron_retention chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 64;13 K intron_retention CUFF.987 chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 2494;60 K alternative_donor CUFF.1027 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 153;102 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 428;10 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 59;4 K intron_retention chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 298;30 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 6;61 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 373;131 N jcn_only_AD CUFF.1046 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647568-157650240 chr7:157647567-157647568 62;12 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 477;28 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 55;2 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 16;6 N jcn_only_AA CUFF.995 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 1637;29 N jcn_only_AD CUFF.920 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 7;31 N intron_retention CUFF.950 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 64;76 K alternative_first_exon CUFF.1027 chr7 + chr7:136553740-136554007 chr7:136553865-136554007,chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553744-136553864 29;211 N jcn_only_AD chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 2;93 N jcn_only_AA CUFF.988 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 605;169 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 43;51 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 300;9 N alternative_acceptor CUFF.983 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 86;1 N cassette CUFF.995 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 75;1328 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 2;38 N jcn_only_AD CUFF.948 chr7 - chr7:38766589-38768141 chr7:38766589-38767940 chr7:38767941-38768141 chr7:38768141-38768142 73;78 N alternative_donor CUFF.964 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 6;3 K alternative_first_exon CUFF.984 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715383 chr7:102714693-102715015 182;96 K jcn_only_AA CUFF.1019 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 254;101 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 126;1637 N alternative_acceptor CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 2094;91 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 1812;10 K jcn_only_AD CUFF.1024 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 22;97 N jcn_only_AA CUFF.944 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 121;51 N cassette CUFF.970 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 4;113 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 2197;43 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 6;16 N jcn_only_AA chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328 412;1085 N cassette CUFF.926 chr7 + chr7:6641772-6647590 chr7:6641772-6647167;chr7:6647229-6647590 chr7:6647168-6647228 89;260 N alternative_acceptor CUFF.939 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 152;97 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 2116;6 N intron_retention chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 36;1080 K intron_retention CUFF.1043 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 22;39 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 99;27 K alternative_last_exon CUFF.942 chr7 + chr7:34888276-34888934;chr7:34888276-34917687 chr7:34888276-34889176 chr7:34917688-34917946 chr7:34889177-34889264 180;83 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 12;10 K alternative_donor CUFF.1024 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 22;58 N intron_retention chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 19;24 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 282;2 N alternative_donor CUFF.950 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 232;57 K cassette CUFF.1021 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 26;11 N alternative_acceptor CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;192 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 203;0 N jcn_only_AA chr7 + chr7:73101426-73105245;chr7:73101426-73106925 chr7:73101426-73277202 335;3 N cassette CUFF.950 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 82;106 N jcn_only_AA chr7 - chr7:107576102-107577537 chr7:107576819-107577537 331;63 K jcn_only_AA CUFF.940 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 28;17 N jcn_only_AD CUFF.950 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 232;41 N alternative_donor CUFF.920 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 7;4 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 175;28 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 366;86 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 51;12 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 272;182 K jcn_only_AD CUFF.974 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 29;36 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 40;224 K cassette CUFF.956 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 229;122 K alternative_first_exon CUFF.935 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604053 38;587 N jcn_only_AD chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73105343-73106925 248;432 N alternative_acceptor CUFF.1033,CUFF.977 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 847;93 N jcn_only_AA CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;95 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 480;66 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 398;437 N cassette CUFF.964 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 37;127 N cassette CUFF.1030 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 163;36 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 8;130 K jcn_only_AA CUFF.926 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 26;29 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 62;154 N alternative_acceptor CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 22;296 N alternative_acceptor chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 73;10 K intron_retention CUFF.964 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 166;12 N cassette CUFF.944 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 26;230 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 43;21 N alternative_donor CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 384;3 N jcn_only_AA CUFF.1033,CUFF.977 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 847;131 N jcn_only_AA chr7 + chr7:73101231-73101328;chr7:73101231-73105245 chr7:73101231-73106925 1328;169 N jcn_only_AD CUFF.1043 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 4015;102 N jcn_only_AA CUFF.938 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 331;24 N jcn_only_AD CUFF.972 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 28;60 N jcn_only_AD CUFF.1020 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 510;25 N alternative_donor CUFF.935 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 11;9 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 94;24 N alternative_acceptor CUFF.1020 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 299;21 N alternative_donor CUFF.939 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 38;81 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 63;0 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 2;152 K intron_retention CUFF.1019 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 190;76 K intron_retention CUFF.974 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 49;7 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 73;67 N jcn_only_AD CUFF.984 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 24;70 N jcn_only_AD CUFF.1001,CUFF.935 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 459;80 N alternative_acceptor CUFF.988 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 605;59 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 59;4 N cassette CUFF.1019 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 12;275 N alternative_donor CUFF.1001,CUFF.935 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 459;22 K alternative_acceptor CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 31;427 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 424;14 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 179;205 N jcn_only_AA chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 16;410 K jcn_only_AA CUFF.948 chr7 - chr7:38766589-38768141 chr7:38768035-38768141 73;70 N jcn_only_AA CUFF.987 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 2113;49 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 489;16 N jcn_only_AD CUFF.944 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 121;34 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 7;42 N coord_cassette CUFF.972 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 4;27 N cassette CUFF.942 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 77;122 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 236;28 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 5;279 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 2119;3 K cassette CUFF.952 chr7 + chr7:54617864-54636823 chr7:54617864-54621559;chr7:54621767-54636823 chr7:54621560-54621766 191;48 K intron_retention CUFF.1033 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 1148;276 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 461;16 K intron_retention CUFF.972 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 27;15 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 4;295 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 0;1637 K intron_retention CUFF.964 chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 16;35 N alternative_donor CUFF.984 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 24;1 N jcn_only_AA CUFF.983 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 86;2 N jcn_only_AA CUFF.1030 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 65;26 N jcn_only_AA CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 6;2 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 274;3427 N alternative_acceptor CUFF.987 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 1969;6 K alternative_donor CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 169;34 K intron_retention CUFF.952 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 191;116 N alternative_donor CUFF.939 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 215;0 N jcn_only_AD chr7 + chr7:73101426-73277202 chr7:73106977-73277202 3;1 N cassette CUFF.1033 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 51;985 N coord_cassette CUFF.1030 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 24;78 K cassette CUFF.944 chr7 - chr7:37053041-37136223 chr7:37053041-37072951;chr7:37073018-37136223 chr7:37072952-37073017 136;115 N alternative_acceptor chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 16;17 N intron_retention chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 44;215 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 216;60 K intron_retention CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 31;110 N alternative_donor CUFF.988 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 605;8 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 265;36 N jcn_only_AA chr7 - chr7:156526952-156549086 chr7:156529310-156549086 248;9 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 1685;77 N jcn_only_AD chr7 + chr7:73106977-73111934;chr7:73108381-73111934;chr7:73111847-73111934 chr7:73108000-73111934 403;15 K intron_retention CUFF.1030 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 169;20 K jcn_only_AD CUFF.944 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 172;39 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 1585;215 N jcn_only_AD CUFF.944,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 266;45 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 182;272 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 40;111 N cassette CUFF.964 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 80;61 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 74;60 N jcn_only_AA CUFF.987 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 1969;18 N alternative_donor CUFF.1046 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647568-157650240 chr7:157647567-157647568 62;16 N jcn_only_AA CUFF.1033 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 590;53 K cassette CUFF.982 chr7 - chr7:100818093-100823322 chr7:100818093-100822377;chr7:100822418-100823322 chr7:100822378-100822417 34;363 N alternative_acceptor CUFF.938 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 331;14 N jcn_only_AD CUFF.942 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 122;18 N alternative_acceptor CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 6;0 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 176;2605 N alternative_acceptor CUFF.987 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 2113;11 N alternative_donor CUFF.944,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 266;1 K alternative_last_exon CUFF.939 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206688-22206766 chr7:22231033-22231260 27;144 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 9;0 N alternative_donor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 26;3 N cassette CUFF.984 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 16;294 N jcn_only_AD CUFF.995 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 112;119 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 61;2 N jcn_only_AD chr7 + chr7:73101426-73106925;chr7:73105343-73106925 chr7:73101231-73106925 511;169 K cassette CUFF.940 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 24;41 N alternative_donor CUFF.1043 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 4015;46 N cassette CUFF.942 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 34;152 K alternative_acceptor CUFF.926 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 26;21 N jcn_only_AD CUFF.984 chr7 - chr7:107642179-107643293 chr7:107642179-107642571 39;27 N alternative_acceptor CUFF.926,CUFF.964 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 56;6 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 54;246 K jcn_only_AA CUFF.1032,CUFF.956 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 116;278 N alternative_donor CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 35;15 K intron_retention CUFF.1033 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 54;19 K intron_retention CUFF.988 chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 119;20 K alternative_acceptor CUFF.988 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 155;56 N alternative_donor CUFF.1020 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 510;4 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 115;20 N jcn_only_AD chr7 + chr7:73101426-73105245;chr7:73098135-73105245 chr7:73101231-73105245 272;243 N jcn_only_AA CUFF.920,CUFF.932 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 82;160 N jcn_only_AA chr7 + chr7:73101231-73101328;chr7:73101231-73106925 chr7:73101231-73105245 1254;243 K alternative_last_exon CUFF.920 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197577 22;764 N cassette CUFF.1001 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 29;19 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 154;150 N intron_retention CUFF.988 chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 30;15 K cassette CUFF.984 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 130;129 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 56;48 K cassette CUFF.948 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 14;203 K cassette CUFF.956 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 78;59 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 19;214 K cassette CUFF.948 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 60;123 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 2156;84 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 3;6 N jcn_only_AD CUFF.970 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 331;34 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 157;152 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 198;278 N cassette CUFF.948 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 19;175 N alternative_acceptor chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 3;1 N intron_retention chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 41;24 N cassette CUFF.1043 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 207;3116 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 62;278 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 493;12 N jcn_only_AD chr7 + chr7:73101426-73105245;chr7:73101231-73105245 chr7:73098135-73105245 498;16 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 1680;141 N alternative_donor CUFF.944 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 121;1 K alternative_first_exon CUFF.956 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610430-65610487 chr7:65615608-65615935 461;246 K cassette CUFF.1021 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 16;126 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 53;54 N alternative_donor CUFF.948 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 49;29 N jcn_only_AA CUFF.1019 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 298;37 N alternative_acceptor CUFF.939 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 3;3 N jcn_only_AA CUFF.1020 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 299;43 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 134;4 N alternative_acceptor CUFF.944 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 121;11 K cassette CUFF.1046 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 127;22 N alternative_donor CUFF.1027 chr7 + chr7:136554166-136699566 chr7:136677012-136699566 chr7:136554166-136677011 chr7:136554165-136554166 152;3 N jcn_only_AA chr7 - chr7:107642179-107643293 chr7:107642830-107643293 39;27 K alternative_donor CUFF.944 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 172;85 K alternative_acceptor CUFF.1019 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 254;105 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 154;7 K alternative_first_exon CUFF.936 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815292-16815509 10;250 N jcn_only_AA chr7 - chr7:156556490-156589082 chr7:156572427-156589082 516;19 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 49;248 N coord_cassette CUFF.1033 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 23;162 N alternative_acceptor CUFF.1020 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 44;612 N jcn_only_AD CUFF.948 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 261;26 N mutually_exclusive CUFF.983 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 40;30 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 256;128 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 47;16 N alternative_acceptor CUFF.1033 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 590;6 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 293;16 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 213;63 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 56;7 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 3526;174 N jcn_only_AA chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 73;20 K jcn_only_AD CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117424509-117431181 chr7:117431182-117431344 chr7:117431344-117431345 6;5 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 56;1 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 109;52 K cassette CUFF.966 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 80;106 N cassette CUFF.963 chr7 - chr7:74981241-74984789 chr7:74981241-74982815;chr7:74982903-74984789 chr7:74982816-74982902 9;8 N jcn_only_AA CUFF.987 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 2094;136 N alternative_acceptor CUFF.995 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 1637;0 K intron_retention CUFF.950 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 232;81 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 84;23 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 29;174 K alternative_acceptor CUFF.923 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 37;141 N cassette CUFF.1033 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 23;31 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 91;13 N jcn_only_AD CUFF.948 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 49;41 N jcn_only_AA CUFF.1020 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 44;884 K intron_retention CUFF.988 chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 491;33 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 37;80 N jcn_only_AD CUFF.987 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 1969;25 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 61;158 N jcn_only_AA CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 26;16 K intron_retention CUFF.1001 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 69;87 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 541;5 N alternative_donor CUFF.942 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 122;3 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 16;53 N alternative_donor CUFF.939,CUFF.944 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 51;70 N alternative_donor chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 2;30 K cassette CUFF.970 chr7 - chr7:86539318-86541387 chr7:86539318-86540937;chr7:86541012-86541387 chr7:86540938-86541011 74;105 K jcn_only_AA CUFF.988 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 31;727 N jcn_only_AA chr7 + chr7:73106977-73107658;chr7:73106977-73111934 chr7:73106977-73277202 687;1 K alternative_donor CUFF.1001 chr7 - chr7:117424509-117431344 chr7:117424509-117431181 chr7:117431182-117431344 chr7:117431344-117431345 6;4 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 123;153 K intron_retention CUFF.964 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 63;63 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 1412;410 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 202;1 N jcn_only_AD CUFF.964 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 6;10 N jcn_only_AD CUFF.939 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 215;27 K alternative_last_exon CUFF.977 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640426 chr7:93629609-93629684 16;22 K alternative_first_exon CUFF.946 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956532 49;34 N jcn_only_AA CUFF.939 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 152;44 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 22;17 K intron_retention CUFF.1033 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 847;67 K cassette CUFF.978 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 82;33 N jcn_only_AA CUFF.972 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 64;334 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 43;3 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 1714;48 K alternative_first_exon CUFF.944 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 336;12 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 60;74 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 3606;95 N intron_retention CUFF.952 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 45;46 N cassette CUFF.972 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 50;11 N alternative_donor CUFF.1001 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 74;0 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 196;23 N jcn_only_AA chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 3;2 K jcn_only_AA CUFF.988 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 155;102 N intron_retention chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 544;6 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 792;40 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 104;13 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 42;790 N intron_retention CUFF.950 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 87;139 K intron_retention CUFF.1043 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 14;38 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 1798;2 N jcn_only_AA chr7 + chr7:73108000-73111934 chr7:73108000-73108321 15;555 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73106977-73111934;chr7:73108381-73111934 chr7:73111847-73111934 405;14 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 77;30 N mutually_exclusive CUFF.970 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 4;5 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 76;130 N jcn_only_AD CUFF.1001 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 74;23 N jcn_only_AD chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 16;7 N jcn_only_AD CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 272;27 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 216;1584 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 540;295 N cassette CUFF.950 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 24;235 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 16;63 N jcn_only_AA CUFF.960 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 35;52 N alternative_acceptor CUFF.1030 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 65;9 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 177;132 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 154;0 K mutually_exclusive CUFF.978 chr7 - chr7:99032892-99057708,chr7:99057817-99063751 chr7:99032892-99045574,chr7:99045812-99063751 chr7:99057709-99057816 chr7:99045575-99045811 87;72 N jcn_only_AD CUFF.935 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 11;34 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 296;3 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 403;35 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 181;38 N coord_cassette CUFF.1033 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 51;1186 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 134;0 N alternative_donor CUFF.987 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 1969;4 K alternative_last_exon CUFF.1032 chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150389403-150390593 chr7:150386577-150386816 75;225 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 732;103 N jcn_only_AD chr7 + chr7:73108000-73111934;chr7:73106977-73111934;chr7:73111847-73111934 chr7:73108381-73111934 172;246 N jcn_only_AA CUFF.995 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 112;125 K coord_cassette CUFF.926 chr7 + chr7:6641772-6647590 chr7:6641772-6642294;chr7:6642384-6647167;chr7:6647229-6647590 chr7:6642295-6642383;chr7:6647168-6647228 89;425 N intron_retention CUFF.1033 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 131;50 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 82;464 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 374;131 K coord_cassette CUFF.950 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 82;204 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 454;0 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 171;35 N cassette CUFF.1001 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 72;37 N cassette CUFF.983 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 24;12 N jcn_only_AD CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 384;85 K alternative_first_exon CUFF.956 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579500-65579957 chr7:65599267-65599361 106;285 N alternative_acceptor CUFF.995 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 112;14 N alternative_donor CUFF.948 chr7 - chr7:38766589-38768141 chr7:38766589-38767940 chr7:38767941-38768141 chr7:38768141-38768142 73;25 N jcn_only_AD CUFF.939 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 38;38 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 122;18 N alternative_donor CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 272;0 K jcn_only_AA CUFF.923 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 37;125 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 173;279 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 23;37 K alternative_first_exon CUFF.932 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222137-7222451 49;97 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 164;41 N coord_cassette CUFF.964 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 22;17 N cassette CUFF.1033 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 249;1181 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 480;24 N alternative_donor CUFF.995 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 112;1 N alternative_donor CUFF.948 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 261;0 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 1753;69 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 128;209 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 39;1 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 441;63 N jcn_only_AD CUFF.939,CUFF.944 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 51;51 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 294;182 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 134;4 N cassette CUFF.984 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 30;254 N cassette CUFF.944 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 68;154 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 365;87 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 24;65 N alternative_acceptor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 26;2 N jcn_only_AA CUFF.939 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 3;20 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 126;34 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 473;0 N alternative_first_exon CUFF.914 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 26;91 N alternative_donor CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 114;102 K cassette CUFF.886 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 345;141 N jcn_only_AA CUFF.790 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 21;41 N coord_cassette CUFF.890 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 20;690 N cassette CUFF.822 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 9;167 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 121;0 N alternative_donor CUFF.860 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 806;26 N alternative_donor CUFF.886 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 34;20 K cassette CUFF.882 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 14;35 K intron_retention CUFF.814 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 545;46 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 143;298 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 0;39 N jcn_only_AA chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 40;298 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 1333;181 K alternative_first_exon CUFF.904 chr6 + chr6:144898425-144999541;chr6:144904737-144999541 chr6:144981412-144999541 chr6:144904254-144904736 chr6:144980919-144981411 60;64 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 351;1163 N intron_retention chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 14;113 N jcn_only_AA CUFF.823 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 366;49 N alternative_donor CUFF.810 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 38;0 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 342;1096 K jcn_only_AD CUFF.907 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 16;42 K intron_retention CUFF.916 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 208;49 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 51;12 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 162;179 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 187;34 K intron_retention CUFF.845 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 1151;886 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 540;88 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 141;21 N alternative_donor CUFF.849 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 72;3 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 144;485 K jcn_only_AD CUFF.807 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 15;269 K cassette CUFF.831 chr6 - chr6:39859156-39864972 chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859399-39859539 90;26 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 1257;181 K intron_retention CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 114;90 N alternative_donor CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 102;22 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 486;0 N jcn_only_AA CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 1230;23 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 2;485 N intron_retention chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 15;64 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 180;234 N jcn_only_AD CUFF.800,CUFF.881 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 218;86 K alternative_acceptor CUFF.849 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 317;174 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 82;25 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 35;41 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 57;98 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 264;22 N cassette CUFF.865 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 5;90 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 49;47 N jcn_only_AA CUFF.881 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 198;95 N intron_retention CUFF.881 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 86;57 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 21;17 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 485;2 N jcn_only_AA chr6 + chr6:32130400-32132355;chr6:32130400-32130583 chr6:32130400-32133914 141;12 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 274;12 K alternative_first_exon CUFF.813,CUFF.858 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994740 chr6:75977357-75977464 17;23 N jcn_only_AD CUFF.865 chr6 + chr6:90326377-90331640 chr6:90327751-90331640 41;88 N jcn_only_AA chr6 - chr6:124937643-124962672 chr6:124937645-124962672 2;12 N jcn_only_AA CUFF.875 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 13;199 K intron_retention CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 1230;46 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 1423;15 N alternative_acceptor CUFF.914 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 53;0 N cassette CUFF.860 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 16;569 N alternative_donor CUFF.890 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 895;13 K intron_retention CUFF.881 chr6 - chr6:114270252-114270331 chr6:114270251-114270252;chr6:114270331-114270332 155;6 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 266;74 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 39;0 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 40;78 N jcn_only_AD CUFF.865 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 202;207 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 84;50 N jcn_only_AD CUFF.874 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 179;22 N jcn_only_AA CUFF.890 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 164;849 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 1341;97 K jcn_only_AA CUFF.918 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 58;49 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 111;88 K cassette CUFF.904 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 77;121 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 23;46 K cassette CUFF.914 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 215;50 N jcn_only_AA CUFF.874 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 132;29 N mutually_exclusive CUFF.865 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 110;18 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 133;298 N jcn_only_AD CUFF.890 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 895;92 N alternative_acceptor CUFF.813 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 93;59 N intron_retention chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 282;4 N jcn_only_AD CUFF.860 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 806;215 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 82;36 K intron_retention CUFF.914 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 49;33 K alternative_acceptor CUFF.823 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 175;182 N jcn_only_AA chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 88;42 K cassette CUFF.914 chr6 + chr6:161455482-161469647 chr6:161455482-161469277;chr6:161469324-161469647 chr6:161469278-161469323 14;230 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 66;155 N alternative_acceptor CUFF.815,CUFF.865 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 202;30 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 121;0 N intron_retention CUFF.865 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 88;18 K cassette CUFF.874 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 178;119 N alternative_acceptor CUFF.890 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 702;2 N cassette CUFF.894 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 216;294 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 558;212 K jcn_only_AA CUFF.849 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 317;100 K cassette CUFF.849 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 179;272 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 15;119 N cassette CUFF.865 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 43;181 K cassette CUFF.914 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 99;116 K intron_retention CUFF.845 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 1015;995 N alternative_donor CUFF.865 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 95;9 N jcn_only_AD CUFF.865 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 96;136 K cassette CUFF.910 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 119;607 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 34;2 N jcn_only_AD chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939097-31939705 chr6:31939705-31939706 8;194 N cassette CUFF.872 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 4;414 N jcn_only_AD CUFF.814 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 114;209 N intron_retention chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 153;762 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 532;43 N alternative_acceptor CUFF.823 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 366;21 N alternative_donor CUFF.836,CUFF.890 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 910;16 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 11;462 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 179;0 N alternative_donor CUFF.914 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 74;26 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 81;27 K alternative_acceptor CUFF.894 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 224;148 N jcn_only_AD CUFF.849 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 72;46 K alternative_first_exon CUFF.914 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443167-161443259 5;17 K intron_retention CUFF.823 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 350;11 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 160;39 K intron_retention CUFF.845 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 835;104 N alternative_donor CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 201;32 N jcn_only_AA CUFF.814,CUFF.886 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 30;18 K intron_retention CUFF.845 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 1031;595 N alternative_acceptor CUFF.813 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 13;95 K intron_retention CUFF.849 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 180;182 N jcn_only_AD CUFF.914 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 74;53 K jcn_only_AA CUFF.823 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 175;347 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 486;0 N jcn_only_AA CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 201;9 N cassette CUFF.815 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 291;133 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 71;36 N alternative_acceptor CUFF.814,CUFF.823 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 178;12 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 81;98 K alternative_donor CUFF.910 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 211;281 K intron_retention CUFF.894 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 72;95 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 386;27 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 68;8 K intron_retention CUFF.814 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 167;7 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 59;91 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 974;11 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 696;73 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 15;83 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 19;2 N jcn_only_AA CUFF.813 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 13;194 K intron_retention CUFF.881 chr6 - chr6:114267313-114270142 chr6:114267312-114267313;chr6:114270142-114270143 226;23 K cassette CUFF.918 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 9;66 N jcn_only_AD CUFF.823 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 366;72 K jcn_only_AA CUFF.882 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 18;30 N alternative_acceptor CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 201;29 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 462;11 N jcn_only_AA chr6 + chr6:32130400-32133914;chr6:32130400-32130583 chr6:32130400-32132355 85;68 K cassette CUFF.814 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 18;36 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 14;30 K alternative_first_exon CUFF.825 chr6 + chr6:34452922-34494019;chr6:34434048-34494019 chr6:34482846-34494019 chr6:34433838-34434047 chr6:34482599-34482845 59;74 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 157;78 K intron_retention CUFF.881 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 285;177 N intron_retention chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 93;53 N jcn_only_AD CUFF.810 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 38;5 K cassette CUFF.886 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 136;80 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 313;118 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 223;311 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 39;0 N alternative_acceptor CUFF.890 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 78;10 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 3;18 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 20;1 N coord_cassette CUFF.849 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 43;311 N jcn_only_AD CUFF.858 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 45;3 N alternative_last_exon CUFF.796 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5102827-5109725 chr6:5216851-5216971 82;228 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 6;115 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 204;17 N alternative_donor CUFF.814 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 14;321 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 36;0 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 179;0 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 1;485 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 227;9 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 965;20 K jcn_only_AD CUFF.910 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 211;144 N coord_cassette CUFF.831 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859082-39859155;chr6:39859399-39859539 38;29 K intron_retention CUFF.845 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 275;934 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 30;8 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 79;55 K intron_retention CUFF.814 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 80;2 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 24;3 K jcn_only_AA CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 29;1151 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 105;29 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 414;551 N alternative_donor CUFF.823 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 366;5 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 395;18 K cassette CUFF.865 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 53;347 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 52;298 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 395;19 N jcn_only_AA CUFF.845 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 835;28 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 24;56 N alternative_acceptor CUFF.814,CUFF.886 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 30;1 N alternative_donor CUFF.858 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 45;0 K cassette CUFF.890 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 85;909 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 962;23 N jcn_only_AD CUFF.814 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 14;759 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 66;0 N alternative_acceptor CUFF.881 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 198;8 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 485;1 K intron_retention CUFF.831 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 15;54 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 1460;54 K alternative_acceptor CUFF.812 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 30;9 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 115;6 N jcn_only_AD CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 102;24 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 24;11 N jcn_only_AD CUFF.904 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 202;20 N jcn_only_AA CUFF.815,CUFF.865 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 202;10 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 223;425 N cassette CUFF.865 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 123;399 K alternative_last_exon CUFF.836 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491616-41491963 7;3091 N alternative_donor CUFF.904 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 202;3 K intron_retention CUFF.780 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 736;201 N jcn_only_AA chr6 + chr6:32130400-32133914;chr6:32130400-32132355 chr6:32130400-32130583 80;73 N alternative_donor chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939097-31939705 chr6:31939705-31939706 8;61 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 297;116 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 70;6 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 1494;20 N jcn_only_AA CUFF.814,CUFF.823 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 178;24 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 591;37 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 1418;96 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 2;34 N alternative_acceptor CUFF.790 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 21;30 N alternative_acceptor CUFF.875 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 13;82 N cassette CUFF.886 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 153;448 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 36;0 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 473;0 N jcn_only_AD CUFF.787 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 201;141 K alternative_first_exon CUFF.827 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479957-35480047 chr6:35479425-35479777 9;50 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 28;10 N jcn_only_AD CUFF.886 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 34;38 K intron_retention CUFF.904 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 104;24 K alternative_first_exon CUFF.903 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665162-144665440 37;156 N cassette CUFF.890 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 20;530 N cassette CUFF.780 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 159;596 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 21;0 N alternative_acceptor CUFF.874 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 132;1 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 53;932 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 39;0 N cassette CUFF.890 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 52;885 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 66;21 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 0;179 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 420;21 N cassette CUFF.815 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 454;175 K alternative_first_exon CUFF.780 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292084-292560 45;395 N cassette CUFF.894 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 216;295 N jcn_only_AA CUFF.890 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 702;72 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 12;179 N jcn_only_AD CUFF.872 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 334;52 K intron_retention CUFF.813 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 60;31 N alternative_donor CUFF.874 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 179;9 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 1390;48 K jcn_only_AA CUFF.894 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 224;120 N alternative_acceptor chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 40;136 K cassette CUFF.845 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 741;722 N alternative_acceptor chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 88;9 N alternative_first_exon CUFF.807 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109688-28109807 chr6:28109901-28110041 16;191 N jcn_only_AA CUFF.890 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 78;150 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 285;485 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 175;24 K alternative_acceptor CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 29;1003 K alternative_donor CUFF.807 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 15;142 N alternative_donor CUFF.865 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 96;163 N coord_cassette CUFF.780 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 375;300 K alternative_acceptor CUFF.918 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 58;24 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 172;115 K alternative_acceptor CUFF.882 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 18;34 N mutually_exclusive CUFF.894 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 57;27 K intron_retention CUFF.894 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 676;63 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 487;0 N jcn_only_AD CUFF.865 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 95;32 N jcn_only_AD chr6 + chr6:32125498-32130344 chr6:32125702-32130344 2;145 K intron_retention CUFF.874 chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 102;12 N jcn_only_AD CUFF.836,CUFF.890 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 910;122 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 61;46 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 149;137 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 23;93 K intron_retention CUFF.874 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 110;3 N intron_retention chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 72;5 N cassette CUFF.890 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 58;582 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 114;4 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 87;148 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 2052;1921 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 59;0 N cassette CUFF.865 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 57;343 N cassette CUFF.807 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 9;74 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 610;19 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 36;14 N coord_cassette CUFF.894 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 141;258 N alternative_donor CUFF.800,CUFF.881 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 218;97 N alternative_acceptor CUFF.894 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 1230;41 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 21;0 N jcn_only_AD chr6 + chr6:32130400-32133914 chr6:32132435-32133914 12;30 N intron_retention CUFF.845 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 46;142 N jcn_only_AA chr6 + chr6:32125498-32130344 chr6:32125498-32125616 2;261 N alternative_donor CUFF.872 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 334;39 K cassette CUFF.894 chr6 - chr6:133050119-133055391 chr6:133050119-133052513;chr6:133052667-133055391 chr6:133052514-133052666 331;251 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 35;3 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 496;256 N alternative_donor CUFF.865 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 202;43 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 151;48 N alternative_acceptor CUFF.845 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 835;38 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 55;21 N jcn_only_AD CUFF.814 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 12;195 K jcn_only_AA CUFF.812 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 30;19 N jcn_only_AA chr6 + chr6:161413116-161491639 chr6:161413116-161455290 22;4 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 205;15 N cassette CUFF.780 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 40;648 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 416;15 K intron_retention CUFF.823 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 433;23 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 319;122 K intron_retention CUFF.814 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 759;5 K intron_retention CUFF.823 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 552;118 N jcn_only_AA CUFF.813 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 93;60 K jcn_only_AA CUFF.812 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 49;128 N jcn_only_AA CUFF.914 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 53;6 K cassette CUFF.882 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 29;14 N coord_cassette CUFF.894 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 141;212 N cassette CUFF.831 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 38;112 N jcn_only_AA CUFF.890 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 16;781 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 253;88 K intron_retention CUFF.845 chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 29;1082 N intron_retention chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 209;86 N alternative_donor chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 18;14 K jcn_only_AD CUFF.696,CUFF.710 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 26;103 N alternative_acceptor CUFF.699 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 15;3 N alternative_donor CUFF.775 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 12;608 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 198;61 K alternative_last_exon CUFF.731,CUFF.747 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 10;85 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 199;25 N alternative_donor CUFF.768,CUFF.776 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 147;102 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 89;129 N alternative_acceptor CUFF.776 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 70;2 N jcn_only_AA chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 22;89 K alternative_last_exon CUFF.712,CUFF.747 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656665 78;13 K cassette CUFF.754 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 146;70 K intron_retention CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 424;263 N jcn_only_AA CUFF.701 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 26;33 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 59;32 N alternative_donor CUFF.735 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 9;92 K alternative_donor CUFF.754 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 172;232 K cassette CUFF.776 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 49;66 N cassette CUFF.776 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 101;103 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 303;39 K alternative_donor CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 424;609 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 151;67 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 1226;50 N jcn_only_AA CUFF.735 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 9;17 N cassette CUFF.693 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 1780;509 N jcn_only_AA CUFF.701,CUFF.717 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 27;29 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 113;11 K cassette CUFF.710 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 130;126 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 154;24 N mutually_exclusive CUFF.712 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 42;102 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 91;87 K alternative_last_exon CUFF.744 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127292496-127292613 chr5:127359713-127359990 108;193 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 243;76 N jcn_only_AA CUFF.718 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 232;22 K cassette CUFF.710 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 85;46 K cassette CUFF.713 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 51;10 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 201;1035 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 86;173 N jcn_only_AA CUFF.704,CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 82;410 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 172;3 N cassette CUFF.759 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 16;48 N cassette CUFF.776 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178047675-178050256 chr5:178046839-178047674 101;250 N alternative_donor CUFF.759 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 37;361 K intron_retention CUFF.772 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 136;78 N alternative_acceptor CUFF.759 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 12;3 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 23;101 K intron_retention CUFF.688 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 21;3 N mutually_exclusive CUFF.744 chr5 - chr5:127302621-127412638,chr5:127412786-127417664 chr5:127302621-127396835,chr5:127396937-127417664 chr5:127412639-127412785 chr5:127396836-127396936 24;17 K cassette CUFF.764 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 257;140 N cassette CUFF.718 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 7;285 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 77;147 K cassette CUFF.747 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 70;26 N alternative_donor CUFF.764 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 22;158 K jcn_only_AD CUFF.699,CUFF.718 chr5 - chr5:60198336-60214091 chr5:60198336-60199474 220;188 N jcn_only_AD CUFF.718 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 232;32 K alternative_first_exon CUFF.688 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2753042 chr5:2751279-2751827 27;33 N cassette CUFF.744 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417887-127418426 chr5:127417665-127417886 80;165 K jcn_only_AD CUFF.687 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 19;68 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 52;136 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 121;89 K alternative_last_exon CUFF.774 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465029-162465479 6;137 N alternative_donor CUFF.687,CUFF.718 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 316;3 K alternative_last_exon CUFF.722 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902965-64902994 41;175 N jcn_only_AA CUFF.706 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 62;63 K intron_retention CUFF.759 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 754;10 N intron_retention CUFF.759 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 410;201 K jcn_only_AA CUFF.735 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 48;355 N alternative_acceptor CUFF.701 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 26;40 K alternative_donor CUFF.722 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 88;97 N jcn_only_AD CUFF.745 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 13;18 K jcn_only_AA CUFF.713 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 39;14 K intron_retention chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 18;22 N jcn_only_AD CUFF.759 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 41;82 K jcn_only_AD CUFF.759 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 424;1072 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 1968;21 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 1826;164 K jcn_only_AD CUFF.754 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 172;276 K jcn_only_AD CUFF.764 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 25;129 N jcn_only_AD CUFF.735 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 9;155 N mutually_exclusive CUFF.744 chr5 - chr5:127302621-127412638,chr5:127412786-127418426 chr5:127302621-127396835,chr5:127396937-127418426 chr5:127412639-127412785 chr5:127396836-127396936 24;17 K intron_retention chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 48;44 K jcn_only_AA CUFF.767 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 9;14 N alternative_donor CUFF.767 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 5;0 N intron_retention chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 6;47 K intron_retention CUFF.762 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 79;9 K alternative_first_exon CUFF.718,CUFF.768 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783858 chr5:148758768-148758931 64;196 K alternative_donor CUFF.713,CUFF.776 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 27;4 N intron_retention chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 18;20 K alternative_donor CUFF.764 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 25;82 N cassette CUFF.776 chr5 - chr5:178043950-178045556 chr5:178043950-178044344;chr5:178044436-178045556 chr5:178044345-178044435 40;36 N alternative_acceptor CUFF.740 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 23;140 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 111;67 K intron_retention CUFF.776 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 93;70 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 112;23 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 33;4 N alternative_acceptor chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 6;26 N alternative_acceptor CUFF.735 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 9;36 N alternative_donor CUFF.702 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 54;10 K cassette CUFF.717 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 80;37 N jcn_only_AD CUFF.702 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 54;12 K jcn_only_AD CUFF.713,CUFF.776 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 27;5 K intron_retention CUFF.776 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 50;36 K coord_cassette CUFF.772 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 323;663 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 112;12 K intron_retention CUFF.717 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 31;32 N jcn_only_AA CUFF.740 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 23;170 K intron_retention CUFF.764 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 38;57 K jcn_only_AA CUFF.712 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 48;29 N alternative_acceptor chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 13;21 N intron_retention chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 61;100 N jcn_only_AD CUFF.768,CUFF.776 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 147;24 N jcn_only_AA CUFF.776 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 70;9 K intron_retention CUFF.759 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 778;13 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 170;149 K alternative_first_exon CUFF.774 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684099 28;99 N alternative_donor CUFF.718 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 232;0 K alternative_acceptor CUFF.735 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 48;176 N jcn_only_AD chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 18;18 N cassette CUFF.759 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 13;32 N jcn_only_AD CUFF.759 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 37;626 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 172;52 N jcn_only_AD CUFF.774 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 27;21 N alternative_acceptor CUFF.701,CUFF.717 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 27;1 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 225;94 K cassette CUFF.764 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 37;205 K alternative_first_exon CUFF.754 chr5 + chr5:137514540-137515348 chr5:137514892-137515348,chr5:137515023-137515348 chr5:137514408-137514539 chr5:137514641-137514891 21;214 K alternative_donor CUFF.687 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 19;68 N cassette CUFF.744 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 29;109 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 36;1 N jcn_only_AA chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 13;39 N intron_retention chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 9;100 N cassette CUFF.744 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 89;129 N jcn_only_AA chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 30;7 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 134;76 K intron_retention chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 39;76 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 659;617 K intron_retention CUFF.776 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 25;88 K alternative_acceptor CUFF.713 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 39;8 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 1967;22 N jcn_only_AA chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 39;647 N intron_retention chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 651;22 N intron_retention chr5 + chr5:140027599-140028060 chr5:140027598-140027599;chr5:140028060-140028061 3;52 K alternative_last_exon CUFF.705 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 72;127 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 163;26 K intron_retention CUFF.748 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 28;105 N alternative_acceptor CUFF.759 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 1848;19 K alternative_donor CUFF.699,CUFF.722 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 33;132 N cassette CUFF.712 chr5 + chr5:54456225-54459882 chr5:54456225-54456879;chr5:54457084-54459882 chr5:54456880-54457083 84;123 K jcn_only_AD CUFF.745 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 2;36 N alternative_acceptor chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 22;38 K alternative_donor CUFF.696,CUFF.710 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 26;54 K alternative_first_exon CUFF.747 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630041-131630702 chr5:131631095-131631314 85;24 K alternative_acceptor CUFF.712 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 48;18 N cassette CUFF.772 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 128;685 K intron_retention CUFF.776 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 108;91 K intron_retention CUFF.754 chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 172;120 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 1788;34 N cassette CUFF.775 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 110;1034 K alternative_last_exon CUFF.774 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683043-162683276 59;180 K alternative_first_exon CUFF.704 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681994-50682460 chr5:50683324-50683583 86;108 N alternative_acceptor CUFF.718 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 232;1 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 196;22 K jcn_only_AA CUFF.774 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 37;137 N jcn_only_AA CUFF.718 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 126;56 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 963;313 K intron_retention chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 22;61 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 1819;3 K intron_retention CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 82;319 K intron_retention CUFF.754 chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 276;47 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 59;186 K cassette CUFF.699 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 71;21 N cassette CUFF.693 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 252;1262 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 156;32 N jcn_only_AA chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 6;22 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 52;74 K alternative_last_exon CUFF.752 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194745-137194952 chr5:137218478-137219310 37;141 N alternative_acceptor chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 30;1 N alternative_acceptor CUFF.705,CUFF.706 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 27;0 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 207;1782 K jcn_only_AD CUFF.722 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 88;42 N jcn_only_AA CUFF.759 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 12;22 K alternative_first_exon CUFF.776 chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178057555-178057703 chr5:178053947-178054089 15;221 K intron_retention CUFF.772 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 959;43 N jcn_only_AD CUFF.775 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 12;1081 N cassette CUFF.744 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 80;129 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 5;32 N jcn_only_AD CUFF.764 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 22;89 N jcn_only_AD CUFF.748 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 28;9 N alternative_donor CUFF.718 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 126;32 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 40;1782 K intron_retention CUFF.722 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 29;35 N jcn_only_AA CUFF.705,CUFF.706 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 27;10 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 1819;3 N alternative_donor CUFF.748 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 28;85 K alternative_first_exon CUFF.745 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795882-128796175 chr5:128796795-128797450 25;11 K cassette CUFF.710 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 59;84 N jcn_only_AA CUFF.693 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 558;284 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 52;86 K jcn_only_AD CUFF.699,CUFF.722 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 33;127 K alternative_donor CUFF.745 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 2;28 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 15;117 K jcn_only_AA CUFF.696 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 23;155 N jcn_only_AD CUFF.687,CUFF.718 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 316;54 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 53;71 K intron_retention CUFF.764 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 193;14 K alternative_last_exon CUFF.701,CUFF.767 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980156 51;18 K intron_retention CUFF.775 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 152;929 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 18;9 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 88;87 N cassette CUFF.717 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 16;32 N cassette CUFF.772 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 323;519 N alternative_last_exon chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 128;732 N alternative_donor CUFF.745 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 13;2 K cassette CUFF.722 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 158;145 N cassette CUFF.712 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 84;110 N intron_retention chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 40;41 N jcn_only_AA CUFF.699 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 15;9 K alternative_last_exon CUFF.710 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54433391-54433464 94;47 K intron_retention CUFF.713 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 46;16 K coord_cassette CUFF.744 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 67;111 N alternative_acceptor chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 39;220 K cassette CUFF.718 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 284;91 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195442 chr5:134182353-134182553 3;105 N alternative_acceptor CUFF.718 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 126;72 K intron_retention CUFF.772 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 269;148 K cassette CUFF.722 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 60;200 N alternative_acceptor CUFF.706 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 62;2 N alternative_acceptor CUFF.693 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 558;184 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 165;45 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 58;131 K jcn_only_AA CUFF.693 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 448;213 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 130;45 K coord_cassette CUFF.744 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417887-127418426 chr5:127412639-127412785;chr5:127417665-127417886 67;130 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 234;25 N jcn_only_AD CUFF.718 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 126;84 N jcn_only_AA CUFF.759 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 1848;39 K cassette CUFF.759 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 795;727 N jcn_only_AD CUFF.767 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 5;4 N alternative_acceptor CUFF.704,CUFF.759 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 82;296 K alternative_first_exon CUFF.718 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214525 269;201 K jcn_only_AA CUFF.643 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 24;39 N cassette CUFF.579 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 29;40 N alternative_donor CUFF.656 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 128;1 K jcn_only_AA CUFF.673 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 22;3 N jcn_only_AA CUFF.667 chr4 - chr4:152147239-152148911 chr4:152147393-152148911 1;18 K cassette CUFF.590 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 20;177 N alternative_acceptor CUFF.656 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 144;1 K alternative_first_exon CUFF.681 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131250-186131409 11;48 K alternative_acceptor CUFF.647 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 11;133 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 2;116 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 33;39 N jcn_only_AD CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 24;10 N alternative_acceptor CUFF.647 chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 79;0 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 171;137 K cassette CUFF.607 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 6;156 N alternative_donor CUFF.593 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 23;0 K intron_retention CUFF.603 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 172;48 N jcn_only_AD CUFF.593 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 23;4 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 85;45 K alternative_first_exon CUFF.603 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256455-20256698 4;179 N jcn_only_AA CUFF.653 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 1128;79 K jcn_only_AD CUFF.606,CUFF.630 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 48;122 N jcn_only_AA CUFF.681 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 33;33 K cassette CUFF.603 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 104;150 N cassette CUFF.649 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 6;350 K alternative_first_exon CUFF.645 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419692 chr4:85417646-85418103 10;13 N jcn_only_AA CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 24;13 K cassette CUFF.590 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 18;215 K alternative_last_exon CUFF.659 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849885 chr4:130829789-130829858 38;7 K jcn_only_AD CUFF.681 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 27;11 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 28;82 K jcn_only_AA CUFF.647 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 11;264 N cassette CUFF.644 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83821229,chr4:83819216-83820865 chr4:83819142-83819215 62;97 N alternative_donor CUFF.653 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 1128;1 K jcn_only_AA CUFF.607 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 191;236 N jcn_only_AA CUFF.630 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 2;67 N alternative_donor CUFF.592 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 28;270 K intron_retention chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 276;187 N alternative_donor chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 15;259 N jcn_only_AA CUFF.587 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 272;26 K intron_retention chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 323;41 K alternative_donor CUFF.633 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 10;77 N alternative_acceptor CUFF.681 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 33;30 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 275;90 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 63;67 N alternative_acceptor chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 29;295 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3948352 139;28 N intron_retention chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 219;116 N jcn_only_AD CUFF.592 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 28;473 N alternative_donor CUFF.592 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 160;1 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 24;139 N cassette CUFF.592 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 19;380 N alternative_donor CUFF.587,CUFF.630 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 272;26 N alternative_acceptor CUFF.637 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 96;77 K jcn_only_AD CUFF.633 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 10;108 K cassette CUFF.593 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 52;54 N jcn_only_AA CUFF.630 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 90;85 K jcn_only_AD CUFF.656 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 52;64 K cassette CUFF.673 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 39;30 N cassette CUFF.617 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 362;195 N jcn_only_AA CUFF.590 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 229;15 K cassette CUFF.628 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 47;25 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 261;47 K cassette CUFF.581 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 111;115 N alternative_donor CUFF.653 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 34;123 N alternative_donor CUFF.653 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 196;1 K alternative_first_exon CUFF.681 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186216917-186217184 13;63 N alternative_acceptor CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 24;7 N jcn_only_AA CUFF.637 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 96;635 K alternative_donor CUFF.592 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 35;184 N intron_retention chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 28;30 K alternative_last_exon CUFF.597 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 93;83 K intron_retention CUFF.625 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 198;12 N alternative_donor CUFF.653 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 768;65 N jcn_only_AA CUFF.647 chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 79;20 K jcn_only_AA CUFF.628 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 119;37 K alternative_last_exon CUFF.580,CUFF.681 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186291387 chr4:186284539-186285125 44;77 N jcn_only_AD CUFF.618 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 111;4 K jcn_only_AA CUFF.659 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 9;43 N cassette CUFF.667 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 13;58 N coord_cassette CUFF.639 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 18;102 N jcn_only_AA CUFF.603,CUFF.618 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 111;3 N jcn_only_AA chr4 - chr4:3945100-3949816 chr4:3949735-3949816 chr4:3945100-3949734 chr4:3945099-3945100 19;114 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 15;324 N cassette CUFF.584 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 139;217 N jcn_only_AA CUFF.653 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 379;37 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948870 chr4:3945100-3948495 138;29 N cassette CUFF.637 chr4 - chr4:77979789-77996624 chr4:77979789-77987401;chr4:77987559-77996624 chr4:77987402-77987558 120;571 K intron_retention CUFF.626 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 39;121 N jcn_only_AD CUFF.592 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 160;20 N alternative_acceptor CUFF.584 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 29;143 N jcn_only_AA chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 16;54 N jcn_only_AD CUFF.653 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 34;250 N alternative_acceptor CUFF.584 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 13;231 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 97;115 N alternative_acceptor CUFF.605 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 64;1 N cassette CUFF.637 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 61;634 N alternative_donor CUFF.603 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 9;2 N cassette CUFF.617 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 173;289 K alternative_donor CUFF.656 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 52;32 N jcn_only_AA chr4 + chr4:99003639-99399805 chr4:99003639-99393448 5;2 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 236;129 N jcn_only_AD CUFF.595 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 20;28 N alternative_donor CUFF.592,CUFF.673 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 38;0 K intron_retention CUFF.592 chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 69;49 N alternative_donor CUFF.603 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 32;9 N alternative_acceptor chr4 - chr4:3945100-3949816 chr4:3949735-3949816 chr4:3945100-3949734 chr4:3945099-3945100 19;22 N jcn_only_AA CUFF.626 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 45;15 K intron_retention CUFF.584 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 276;143 N mutually_exclusive CUFF.617 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 109;66 K jcn_only_AD CUFF.592 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 35;384 N jcn_only_AD CUFF.590 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 229;19 N jcn_only_AA CUFF.653 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 196;22 N jcn_only_AD CUFF.603 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 32;29 N jcn_only_AA CUFF.579 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 14;87 K alternative_first_exon CUFF.617 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502949 chr4:56502248-56502478 76;382 K cassette CUFF.653 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 266;69 K alternative_last_exon CUFF.606 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195200-36195269 chr4:36210995-36211036 30;27 N jcn_only_AD CUFF.681 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 18;79 N alternative_acceptor CUFF.653 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 379;25 N alternative_donor CUFF.593 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 22;0 N jcn_only_AD CUFF.603 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 9;18 K intron_retention CUFF.584 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 212;39 K alternative_last_exon CUFF.669 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143618-153143911 44;82 K intron_retention CUFF.647 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 312;42 K intron_retention CUFF.644 chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 46;34 N cassette CUFF.579 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 115;115 N jcn_only_AD CUFF.593 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 22;11 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3954837 103;64 K intron_retention CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 41;115 N jcn_only_AD CUFF.587,CUFF.630 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 272;79 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 128;2 N alternative_acceptor CUFF.579 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 14;43 N cassette CUFF.617 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 322;182 K intron_retention CUFF.667 chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 37;32 N jcn_only_AA CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 99;16 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 48;32 N alternative_donor CUFF.618 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 111;5 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3949816;chr4:3945100-3954837;chr4:3945100-3948495 chr4:3945100-3948870 140;27 N cassette CUFF.579 chr4 + chr4:647109-647640 chr4:647109-647225;chr4:647497-647640 chr4:647226-647496 30;836 N jcn_only_AD CUFF.653 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 768;88 N jcn_only_AA CUFF.656 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 144;15 N intron_retention chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 114;43 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 216;92 N alternative_acceptor CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 99;6 K cassette CUFF.639 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 166;62 N alternative_donor CUFF.590 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 229;2 N alternative_donor CUFF.667 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 24;5 N coord_cassette CUFF.584 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 10;265 K intron_retention CUFF.607 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 385;136 K intron_retention CUFF.666 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 26;29 N jcn_only_AA CUFF.603 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 32;32 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 88;13 K alternative_first_exon CUFF.619 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774984-57775205 chr4:57775345-57775753 531;114 N alternative_donor CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 41;25 N alternative_acceptor CUFF.587 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 272;3 K alternative_first_exon CUFF.652 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133861 chr4:120116866-120116996 11;150 K intron_retention CUFF.647 chr4 - chr4:99403327-99405549 chr4:99403326-99403327;chr4:99405549-99405550 52;30 K alternative_last_exon CUFF.673 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416286-162416632 38;114 N alternative_acceptor CUFF.653 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 1128;59 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 23;40 N alternative_acceptor CUFF.630 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 90;14 K jcn_only_AD CUFF.644,CUFF.652 chr4 - chr4:83816001-83821229 chr4:83816001-83816844 37;46 K alternative_acceptor CUFF.643 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 24;30 K alternative_donor CUFF.681 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 27;6 N jcn_only_AA CUFF.584 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 29;283 K intron_retention CUFF.674 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 18;74 N cassette CUFF.587 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 21;112 K alternative_acceptor CUFF.628 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 119;38 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 25;5 N jcn_only_AA CUFF.584 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 13;365 N alternative_acceptor CUFF.584 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 24;195 N jcn_only_AA CUFF.603 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 9;19 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 2;108 K cassette CUFF.667 chr4 - chr4:152065203-152069073 chr4:152065203-152065371;chr4:152065441-152069073 chr4:152065372-152065440 73;37 K coord_cassette CUFF.617 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 173;146 K cassette CUFF.630 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 111;56 K cassette CUFF.667 chr4 - chr4:152100550-152108574 chr4:152100550-152102840;chr4:152102882-152108574 chr4:152102841-152102881 130;28 N intron_retention CUFF.647 chr4 - chr4:99403327-99405535 chr4:99403326-99403327;chr4:99405535-99405536 22;31 K cassette CUFF.633 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 154;9 K alternative_last_exon CUFF.605 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059592-36059765 chr4:36067610-36069900 40;25 N jcn_only_AA CUFF.626 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 142;35 K cassette CUFF.607 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 122;224 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 473;40 K coord_cassette CUFF.617 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 239;65 K alternative_first_exon CUFF.597 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821637-13821895 32;114 N jcn_only_AD CUFF.587,CUFF.644 chr4 - chr4:83819216-83821229 chr4:83819216-83820865 74;113 N jcn_only_AD CUFF.587 chr4 - chr4:3945100-3948352;chr4:3945100-3954837;chr4:3945100-3948870;chr4:3945100-3948495 chr4:3945100-3949816 148;19 K intron_retention CUFF.579 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 190;63 K cassette CUFF.631 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 17;27 N jcn_only_AA CUFF.584 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 24;212 K cassette CUFF.628 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 76;35 K cassette CUFF.681 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 63;48 K alternative_acceptor CUFF.673 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 22;2 K intron_retention CUFF.653 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 99;176 K cassette CUFF.603 chr4 + chr4:20490606-20493383 chr4:20490606-20492425;chr4:20492438-20493383 chr4:20492426-20492437 2;14 N alternative_acceptor CUFF.603 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 9;1 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 300;65 K intron_retention CUFF.584 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 227;240 N cassette CUFF.673 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 7;31 K alternative_last_exon CUFF.666 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240572-142241054 chr4:142242529-142242535 25;52 K cassette CUFF.647 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 312;87 N alternative_first_exon CUFF.626 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69083624-69083891 chr4:69078080-69078197 113;12 K intron_retention CUFF.644 chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 37;38 N intron_retention chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 40;113 N jcn_only_AD CUFF.653 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 196;130 K intron_retention CUFF.649 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 438;14 N jcn_only_AA chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 29;65 N intron_retention chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 139;192 N alternative_acceptor CUFF.626 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 142;2 N alternative_acceptor CUFF.603 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 32;0 N jcn_only_AD CUFF.656 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 128;13 N jcn_only_AA CUFF.605 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 64;32 N alternative_donor CUFF.595 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 20;3 K cassette CUFF.617 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 96;662 N cassette CUFF.633 chr4 + chr4:77192922-77230296 chr4:77192922-77211054;chr4:77211214-77230296 chr4:77211055-77211213 97;14 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 18;53 N alternative_acceptor CUFF.653 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 196;1 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 88;0 N jcn_only_AD CUFF.653 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 1128;85 K intron_retention CUFF.581 chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 33;87 N alternative_acceptor chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 16;28 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 96;20 K alternative_last_exon CUFF.603 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554344 269;67 N alternative_acceptor CUFF.603,CUFF.618 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 111;1 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 48;42 K coord_cassette CUFF.607 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 76;184 K alternative_first_exon CUFF.590 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202397 chr4:6196218-6196409 78;83 K alternative_first_exon CUFF.593 chr4 + chr4:6911679-6925099;chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910875-6911232 chr4:6911971-6912328 274;74 N alternative_donor CUFF.681 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 18;52 N alternative_acceptor CUFF.590 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 229;3 K alternative_first_exon CUFF.595 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430319 33;134 N intron_retention chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 10;98 K mutually_exclusive CUFF.581 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 63;34 K intron_retention CUFF.647 chr4 - chr4:99405750-99407888 chr4:99405749-99405750;chr4:99407888-99407889 109;24 N jcn_only_AD CUFF.618 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 41;40 N cassette CUFF.587 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 84;105 N cassette CUFF.633 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 97;11 N jcn_only_AD CUFF.592,CUFF.673 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 38;51 K alternative_first_exon CUFF.637 chr4 - chr4:77987559-77995942;chr4:77987559-77996624 chr4:77987559-77996251 chr4:77996625-77997256 chr4:77996252-77996576 654;272 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 1;5 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 14;42 K cassette CUFF.543 chr3 + chr3:132948196-133098595 chr3:132948196-133097185;chr3:133097401-133098595 chr3:133097186-133097400 388;130 N jcn_only_AD CUFF.455 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 160;31 K alternative_first_exon CUFF.458,CUFF.536 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730722 chr3:45729868-45730374 37;38 K cassette CUFF.535 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 1260;2803 N alternative_acceptor CUFF.524,CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 216;3 N jcn_only_AA CUFF.524,CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 216;25 N jcn_only_AA chr3 - chr3:107586273-107596159;chr3:107595379-107596159 chr3:107595034-107596159 186;54 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 836;37 K alternative_last_exon CUFF.535 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743679-125743748 266;756 N jcn_only_AA chr3 - chr3:107595034-107596748;chr3:107591874-107596748;chr3:107596345-107596748 chr3:107586425-107596748 382;61 N intron_retention chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 20;8 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 296;577 N jcn_only_AD CUFF.466 chr3 - chr3:107595034-107596748;chr3:107595034-107595301;chr3:107595034-107596159 chr3:107595034-107595281 294;32 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 454;18 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 517;44 N cassette CUFF.543 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 211;24 N jcn_only_AD CUFF.432 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 438;18 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 211;4 N jcn_only_AA CUFF.522 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 206;43 N alternative_donor CUFF.566 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 147;7 K alternative_donor CUFF.466,CUFF.507 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 chr3:108475355-108475435 140;188 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 850;334 N mutually_exclusive CUFF.542 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 10;38 K alternative_first_exon CUFF.455 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071348 chr3:38065647-38066281 167;220 N jcn_only_AD CUFF.561 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 366;31 K alternative_first_exon CUFF.522,CUFF.561 chr3 - chr3:120394711-120400943 chr3:120394711-120396750 chr3:120400944-120401418 chr3:120396751-120396844 125;71 K cassette CUFF.438 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 37;332 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49348171-49362134 chr3:49350047-49362134 179;11 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 409;1 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 67;2 N alternative_donor CUFF.528,CUFF.542 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 69;1 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 605;20 N alternative_donor CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 369;138 N cassette CUFF.441 chr3 - chr3:27183074-27204191 chr3:27183074-27203951;chr3:27204093-27204191 chr3:27203952-27204092 54;196 N cassette CUFF.504 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107572719 chr3:107568670-107568818 257;64 K intron_retention CUFF.455 chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 337;20 N cassette CUFF.542 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 129;198 N jcn_only_AD CUFF.561 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 296;31 K intron_retention CUFF.455 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 268;91 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 618;7 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 266;198 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 462;4 K intron_retention CUFF.452 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 44;51 N intron_retention CUFF.528 chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 40;150 K alternative_last_exon CUFF.524 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 152;70 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 143;6 N cassette CUFF.543 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 36;326 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 301;5 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 321;216 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 451;110 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 234;1 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 18;39 N alternative_acceptor CUFF.542 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 705;20 N cassette CUFF.514 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 340;109 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 434;29 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 481;2 N intron_retention chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 14;45 K intron_retention chr3 - chr3:127294349-127294591 chr3:127294348-127294349;chr3:127294591-127294592 129;49 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 134;0 N mutually_exclusive CUFF.554 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 8;60 N alternative_acceptor chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 88;8 N jcn_only_AD CUFF.524 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 31;19 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 3;407 N jcn_only_AD CUFF.450,CUFF.471 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 43;23 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 330;134 K intron_retention CUFF.517 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 103;113 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 437;26 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 211;27 N jcn_only_AA CUFF.524 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 27;34 N coord_cassette CUFF.543 chr3 + chr3:132948196-133109023 chr3:132948196-133097185;chr3:133097401-133098595;chr3:133100006-133109023 chr3:133097186-133097400;chr3:133098596-133100005 36;87 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 7;215 N cassette CUFF.477 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569760-57570110 chr3:57569625-57569759 44;209 N jcn_only_AD CUFF.461 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;405 K cassette CUFF.562 chr3 - chr3:165504100-165547304 chr3:165504100-165545773;chr3:165545858-165547304 chr3:165545774-165545857 71;32 N jcn_only_AD chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 55;14 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 62;612 N jcn_only_AD chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 422;27 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 22;246 N jcn_only_AD CUFF.432 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 110;41 K cassette CUFF.452 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 54;77 N jcn_only_AD chr3 - chr3:107591874-107594976;chr3:107591874-107596748 chr3:107591874-107594305 383;46 K cassette CUFF.499 chr3 - chr3:93646252-93692517 chr3:93646252-93647545;chr3:93647642-93692517 chr3:93647546-93647641 6;141 N mutually_exclusive CUFF.554 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 8;60 N jcn_only_AA CUFF.441 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 296;20 N jcn_only_AD chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 45;404 N alternative_donor CUFF.452 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 57;2 N alternative_donor CUFF.450 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 29;0 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27258062 15;125 K intron_retention CUFF.535 chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 107;151 K intron_retention CUFF.524 chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 312;7 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 451;17 K alternative_last_exon CUFF.546 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 39;59 K coord_cassette CUFF.514 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 340;58 N alternative_acceptor CUFF.441 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 296;1 K intron_retention CUFF.547 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 28;22 N cassette CUFF.569 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 3;396 N coord_cassette CUFF.569 chr3 + chr3:186756662-186769036 chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186759705-186759754;chr3:186760442-186761098 3;225 N alternative_acceptor CUFF.504 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 43;67 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107595034-107596748;chr3:107591874-107596748 chr3:107596345-107596748 316;128 K intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 394;83 K cassette CUFF.441 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 161;11 N alternative_donor CUFF.569 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 216;3 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 353;41 N jcn_only_AD chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 430;18 N cassette CUFF.450 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 67;112 N alternative_acceptor CUFF.522 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 206;83 N alternative_acceptor CUFF.450 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 43;14 N jcn_only_AA CUFF.452 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 57;25 N alternative_acceptor chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 29;101 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 64;404 K cassette CUFF.461 chr3 - chr3:46982556-47017842 chr3:46982556-47007473;chr3:47007620-47017842 chr3:47007474-47007619 334;103 N cassette CUFF.450 chr3 - chr3:33614847-33617660 chr3:33614847-33615964;chr3:33615989-33617660 chr3:33615965-33615988 123;346 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 66;45 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 43;582 K cassette CUFF.577 chr3 - chr3:196214450-196229743 chr3:196214450-196215477;chr3:196215555-196229743 chr3:196215478-196215554 7;2 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 39;241 N jcn_only_AD CUFF.517 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 260;44 N alternative_acceptor CUFF.450 chr3 - chr3:33602464-33612218 chr3:33605459-33612218 chr3:33602464-33605458 chr3:33602463-33602464 29;0 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 424;47 N intron_retention chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 17;158 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 548;13 N cassette CUFF.504 chr3 - chr3:107574077-107575926 chr3:107574077-107574854;chr3:107575172-107575926 chr3:107574855-107575171 431;184 N jcn_only_AD CUFF.569 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 216;32 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 95;211 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 128;63 N alternative_acceptor CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 753;57 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 466;5 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 234;1 K jcn_only_AD CUFF.509 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 53;47 N intron_retention chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 27;413 N jcn_only_AA chr3 - chr3:107595034-107596159;chr3:107595379-107596159 chr3:107586273-107596159 108;132 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 94;40 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 41;70 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 5;8 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 459;7 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 324;198 K jcn_only_AD CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 15;74 K intron_retention CUFF.425 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 477;66 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107596748;chr3:107595034-107596159 chr3:107595034-107595301 314;12 N alternative_donor CUFF.517 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 260;26 N mutually_exclusive CUFF.535 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 197;188 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 218;4 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 41;82 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 17;132 K intron_retention CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 15;39 K coord_cassette CUFF.522 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 101;57 K alternative_first_exon CUFF.466 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49331840-49332031 chr3:49330979-49331160 344;121 K cassette CUFF.452 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 47;58 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 248;19 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 231;20 N jcn_only_AA CUFF.450 chr3 - chr3:33602464-33612218 chr3:33605459-33612218 chr3:33602464-33605458 chr3:33602463-33602464 29;4 K coord_cassette CUFF.554 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 541;346 N coord_cassette CUFF.441 chr3 - chr3:27183074-27204191 chr3:27183074-27184935;chr3:27184966-27203951;chr3:27204093-27204191 chr3:27184936-27184965;chr3:27203952-27204092 54;13 K intron_retention CUFF.569 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 216;65 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 172;40 K alternative_first_exon CUFF.461 chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023592 chr3:47020964-47021150 45;96 N alternative_donor CUFF.534 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 820;63 N cassette CUFF.466 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 45;343 K jcn_only_AD CUFF.546 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 124;33 N jcn_only_AA chr3 - chr3:107591874-107594976;chr3:107594422-107594976 chr3:107586273-107594976 403;46 N jcn_only_AD CUFF.528,CUFF.542 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 69;38 N jcn_only_AA chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 29;124 N coord_cassette CUFF.554 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 39;114 N alternative_acceptor CUFF.547 chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 170;15 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 31;452 N cassette CUFF.461 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 56;117 K alternative_first_exon CUFF.538 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126151912-126152047 chr3:126152199-126152317 324;122 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 899;37 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 127;52 K cassette CUFF.562 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 360;148 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 625;0 N cassette CUFF.554 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 56;347 N intron_retention CUFF.535 chr3 - chr3:125787090-125802896 chr3:125787089-125787090;chr3:125802896-125802897 35;66 N cassette CUFF.441 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 82;103 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 485;452 N jcn_only_AD CUFF.450,CUFF.466 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 91;27 N alternative_donor chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 12;0 N intron_retention chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 16;135 K jcn_only_AD CUFF.466,CUFF.507 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 chr3:108475355-108475435 140;194 N jcn_only_AA CUFF.528 chr3 - chr3:124996654-125042231 chr3:125032501-125042231 489;40 N cassette CUFF.569 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 22;332 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 612;199 N cassette CUFF.450 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 23;221 N alternative_donor CUFF.504,CUFF.554 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 656;3 K alternative_last_exon CUFF.554 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697362-141697524 chr3:141707970-141708356 339;132 N alternative_acceptor CUFF.450 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 13;14 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 6;0 N alternative_acceptor CUFF.547 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 31;23 N jcn_only_AD CUFF.441,CUFF.562 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 339;48 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 5;1 K alternative_first_exon CUFF.509 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021234-112021561 chr3:112025945-112026045 76;27 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107596748;chr3:107595034-107595301 chr3:107595034-107596159 272;54 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 264;16 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 764;47 K cassette CUFF.565 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 26;19 K cassette CUFF.558 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 526;410 N cassette CUFF.534 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 5;584 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 13;201 K alternative_first_exon CUFF.524 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843119-122843190 chr3:122863342-122863676 51;378 K coord_cassette CUFF.562 chr3 - chr3:165504100-165555101 chr3:165504100-165545773;chr3:165545858-165547304;chr3:165548830-165555101 chr3:165545774-165545857;chr3:165547305-165548829 360;49 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 112;1 N jcn_only_AD CUFF.561 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 141;129 N cassette CUFF.538 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 177;103 N alternative_acceptor CUFF.522 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 16;51 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 174;41 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 59;396 K alternative_last_exon CUFF.507 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474484-108474752 chr3:108475355-108475435 213;123 N jcn_only_AD CUFF.534 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 820;60 K jcn_only_AA CUFF.576 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 50;15 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 332;132 K alternative_donor CUFF.513 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 15;59 N alternative_acceptor CUFF.528 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 162;1 K intron_retention CUFF.535 chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 1486;64 K alternative_first_exon CUFF.543 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757156-132757279 chr3:132760585-132760699 161;120 K intron_retention CUFF.535 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 1038;311 K cassette CUFF.470 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 26;73 K intron_retention CUFF.461 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 382;141 K cassette CUFF.528 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 308;13 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 32;3 N alternative_acceptor chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 111;57 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 369;12 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 131;120 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49349088-49362134 70;120 N jcn_only_AA chr3 - chr3:107586273-107594976;chr3:107594422-107594976 chr3:107591874-107594976 94;356 N cassette CUFF.466 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 47;230 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 14;14 N alternative_donor chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 62;181 K jcn_only_AD CUFF.478 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 76;122 K alternative_acceptor CUFF.576 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 50;8 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 84;316 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 18;270 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 130;17 K jcn_only_AA CUFF.538 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 360;202 K intron_retention CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 300;1345 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 34;233 K alternative_first_exon CUFF.492 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492659-75492797 chr3:75496223-75496447 13;417 K intron_retention CUFF.455 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 257;14 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 586;39 K intron_retention CUFF.452 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 79;11 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 6;0 N alternative_donor CUFF.487 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 397;5 N alternative_donor CUFF.450,CUFF.466 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 91;3 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 6;0 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 93;98 N jcn_only_AA chr3 - chr3:107586273-107596159;chr3:107595034-107596159 chr3:107595379-107596159 186;54 N cassette CUFF.514 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 45;44 K intron_retention CUFF.500 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 39;43 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 257;23 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 76;215 K intron_retention CUFF.487 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 19;528 N cassette CUFF.542 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 146;121 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 112;10 N alternative_donor CUFF.561 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 366;27 N alternative_acceptor CUFF.542 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 290;6 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 48;577 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 623;2 N jcn_only_AA CUFF.528 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 162;9 K cassette CUFF.456 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 43;11 N alternative_acceptor CUFF.524 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 561;43 N cassette CUFF.504 chr3 - chr3:107568819-107572719 chr3:107568819-107569143;chr3:107569199-107572719 chr3:107569144-107569198 39;43 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 164;570 N alternative_donor CUFF.504 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 241;2 K intron_retention CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 369;94 N jcn_only_AD CUFF.566 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 147;22 K intron_retention CUFF.452 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 70;69 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 244;47 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 161;30 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 388;12 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 66;214 N cassette CUFF.554 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 560;338 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 591;381 N jcn_only_AA CUFF.524 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 561;80 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 151;86 N cassette CUFF.441 chr3 - chr3:27394411-27410715 chr3:27394411-27409013;chr3:27409054-27410715 chr3:27409014-27409053 63;12 N cassette CUFF.535 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 239;3365 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 65;316 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 863;11 N jcn_only_AD chr3 - chr3:107591874-107594305;chr3:107591874-107596748 chr3:107591874-107594976 73;356 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 108;14 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 59;120 N coord_cassette CUFF.477 chr3 - chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110;chr3:57570192-57582800 chr3:57569625-57569734;chr3:57570111-57570191 34;71 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 63;6 K alternative_donor CUFF.509 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 53;23 N jcn_only_AA chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 111;14 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 137;10 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 614;11 K intron_retention CUFF.455 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 240;49 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 192;23 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 228;52 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 56;223 N cassette CUFF.554 chr3 - chr3:141724387-141868024;chr3:141724387-141811902 chr3:141724387-141772956;chr3:141772992-141811902,chr3:141772992-141868024 chr3:141772957-141772991 303;512 N cassette CUFF.522 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 290;213 N jcn_only_AA CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 753;34 K alternative_first_exon CUFF.470 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741036-51741183 chr3:51741372-51741670 43;71 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 359;452 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 331;46 N jcn_only_AA chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 88;22 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838352 11;58 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 14;4 N jcn_only_AD CUFF.450 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 29;4 N jcn_only_AA CUFF.542 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 705;45 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 293;13 N cassette CUFF.569 chr3 + chr3:186739793-186756529 chr3:186739793-186756179;chr3:186756280-186756529 chr3:186756180-186756279 4;138 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 27;120 K cassette CUFF.558 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 212;142 K intron_retention CUFF.452 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 14;26 N jcn_only_AD chr3 - chr3:107595034-107595281;chr3:107595034-107595301;chr3:107595034-107596159 chr3:107595034-107596748 99;228 N jcn_only_AD chr3 - chr3:57582951-57583365 chr3:57582951-57583058 42;27 K jcn_only_AD CUFF.507,CUFF.528 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 489;106 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 202;10 N jcn_only_AD CUFF.535 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 88;186 K cassette CUFF.558 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 687;195 N jcn_only_AD CUFF.528 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 369;40 K alternative_acceptor CUFF.450 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 704;90 N jcn_only_AA chr3 - chr3:107586273-107594976;chr3:107591874-107594976 chr3:107594422-107594976 402;47 K alternative_first_exon CUFF.452 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 85;32 N jcn_only_AA CUFF.450 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 13;235 N jcn_only_AD CUFF.487 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 397;48 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 34;1 K alternative_last_exon CUFF.562 chr3 - chr3:165495584-165503932;chr3:165491295-165503932 chr3:165496527-165503932 chr3:165490649-165491294 chr3:165496062-165496526 438;260 K cassette CUFF.538 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 324;112 K intron_retention CUFF.524 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 59;14 K alternative_acceptor CUFF.554 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 243;82 K intron_retention CUFF.455 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 164;83 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107591874-107596748;chr3:107596345-107596748 chr3:107595034-107596748 216;228 N cassette CUFF.466 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 13;395 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 15;20 N cassette CUFF.477 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 78;207 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 154;61 N alternative_donor CUFF.461 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;276 N cassette CUFF.569 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 164;299 N coord_cassette CUFF.554 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 146;373 N coord_cassette CUFF.504 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107569143;chr3:107569199-107572719 chr3:107568670-107568818;chr3:107569144-107569198 257;44 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 408;2 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 246;34 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 328;72 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 24;98 N alternative_donor CUFF.432 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 438;19 N mutually_exclusive CUFF.477 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 41;71 N cassette CUFF.468 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 31;739 N alternative_donor chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 55;16 N alternative_acceptor CUFF.452 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 57;1 K intron_retention CUFF.461 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 264;159 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 481;2 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 591;413 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 367;156 N cassette CUFF.522 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 28;214 N jcn_only_AA CUFF.504 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 43;41 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 229;77 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 354;169 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 172;7 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 51;162 N jcn_only_AA CUFF.468 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 53;797 K coord_cassette CUFF.542 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 116;138 K intron_retention CUFF.461 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 519;220 N cassette CUFF.442 chr3 + chr3:28283304-28357823 chr3:28283304-28304781;chr3:28304872-28357823 chr3:28304782-28304871 66;182 N coord_cassette CUFF.554 chr3 - chr3:141724387-141820576 chr3:141724387-141772956;chr3:141772992-141811902;chr3:141811970-141820576 chr3:141772957-141772991;chr3:141811903-141811969 56;52 N jcn_only_AA CUFF.547 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 31;36 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 698;113 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 14;458 K alternative_first_exon CUFF.535,CUFF.561 chr3 - chr3:156271571-156272525;chr3:156271571-156272745 chr3:156271571-156271781 chr3:156272746-156273020 chr3:156271782-156272003 120;110 N intron_retention chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 34;89 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 55;407 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 743;307 N alternative_donor CUFF.524 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 31;15 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 14;452 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 103;113 N jcn_only_AA CUFF.542 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 290;147 N jcn_only_AA CUFF.466 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 59;326 N intron_retention chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 404;194 N coord_cassette CUFF.554 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 531;345 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 167;394 K intron_retention CUFF.452 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 47;48 K jcn_only_AA CUFF.546 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 113;124 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 27;188 N alternative_donor CUFF.441,CUFF.562 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 339;16 N alternative_acceptor CUFF.524 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 27;9 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 257;22 N jcn_only_AD chr3 - chr3:107591874-107594976;chr3:107591874-107594305 chr3:107591874-107596748 402;27 N jcn_only_AA CUFF.547 chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 170;79 K intron_retention CUFF.535 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 313;329 N alternative_donor CUFF.561 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 141;85 N cassette CUFF.528 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 14;389 K alternative_last_exon CUFF.492 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501805 31;429 K intron_retention CUFF.429 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 197;10 K alternative_first_exon CUFF.536 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073207 23;223 N jcn_only_AA chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 17;45 N jcn_only_AA chr3 - chr3:107586425-107596748;chr3:107595034-107596748;chr3:107596345-107596748 chr3:107591874-107596748 416;27 N jcn_only_AD CUFF.504 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 241;9 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 107;364 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 503;34 K jcn_only_AD CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 300;313 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 250;287 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 266;14 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 328;53 N jcn_only_AD CUFF.504,CUFF.554 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 656;118 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 262;29 N cassette CUFF.513 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 11;89 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 738;135 K jcn_only_AD CUFF.534 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 132;846 N jcn_only_AA CUFF.450 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 43;88 N jcn_only_AA CUFF.466 chr3 - chr3:49349088-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49354912-49362134 135;55 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 27;211 N alternative_donor CUFF.535 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 88;68 N jcn_only_AA CUFF.569 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 181;14 K intron_retention CUFF.470 chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 53;7 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 2;233 K intron_retention CUFF.457 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 9;216 K jcn_only_AA CUFF.450 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 704;181 K jcn_only_AA CUFF.554 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 243;164 K alternative_last_exon CUFF.509 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049171 98;25 K alternative_first_exon CUFF.466 chr3 - chr3:49348171-49362134 chr3:49348171-49348946 chr3:49362135-49362196 chr3:49348947-49350342 3;229 K intron_retention CUFF.538 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 376;48 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 613;12 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 446;26 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 98;54 N jcn_only_AD chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 12;63 N jcn_only_AA CUFF.466 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49350047-49362134 chr3:49348171-49362134 186;4 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 12;130 N alternative_donor CUFF.432 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 110;2 N cassette CUFF.477 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 78;155 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 5;28 N coord_cassette CUFF.528 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125057665;chr3:125057756-125093945 chr3:125050002-125050082;chr3:125057666-125057755 14;16 N jcn_only_AA CUFF.547 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 11;417 N alternative_acceptor CUFF.452 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 29;50 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 456;27 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 110;104 N cassette CUFF.554 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 146;298 N coord_cassette CUFF.483 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 22;685 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 252;15 N intron_retention chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 47;95 N mutually_exclusive CUFF.554 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 8;60 N intron_retention chr3 - chr3:107574077-107574159 chr3:107574076-107574077;chr3:107574159-107574160 98;34 N alternative_donor CUFF.450,CUFF.471 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 43;8 N jcn_only_AD CUFF.452 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 57;12 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 99;14 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 897;40 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 140;111 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 178;199 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 138;11 N jcn_only_AA CUFF.452 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 29;90 N cassette CUFF.534 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 6;604 N alternative_donor CUFF.561 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 296;4 K alternative_first_exon CUFF.547 chr3 - chr3:133894884-133901845 chr3:133894884-133896784 chr3:133901846-133901915 chr3:133896785-133899865 124;200 N alternative_acceptor CUFF.468 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 53;426 K intron_retention CUFF.461 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 251;174 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 40;94 N cassette CUFF.535 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 34;1550 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 6;0 K coord_cassette CUFF.558 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 687;119 N alternative_acceptor chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 17;10 K intron_retention CUFF.468 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 753;109 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 246;132 K intron_retention CUFF.468 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 198;840 K alternative_donor CUFF.535 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 300;1284 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 41;25 K intron_retention CUFF.513 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 98;7 N alternative_donor CUFF.455 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 160;5 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 529;407 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 459;12 N alternative_acceptor chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 41;11 N jcn_only_AA CUFF.522 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 16;103 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 760;113 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 8;61 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 463;3 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 15;98 K alternative_first_exon CUFF.471 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263798 chr3:52259543-52260179 28;7 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 219;3 N alternative_acceptor CUFF.569 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 181;34 K cassette CUFF.569 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 612;397 N jcn_only_AA chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 421;47 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 24;11 N intron_retention CUFF.535 chr3 - chr3:125787090-125802771 chr3:125787089-125787090;chr3:125802771-125802772 18;93 K intron_retention CUFF.450 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 235;75 K intron_retention CUFF.556 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 194;19 N cassette CUFF.371 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 45;202 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 250;201 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 20;30 N intron_retention chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 10;98 K alternative_donor CUFF.222 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 138;247 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 25;0 N alternative_donor CUFF.195 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 243;4 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 15;39 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 1384;10 N jcn_only_AD CUFF.333 chr2 + chr2:109102364-109102890 chr2:109102365-109102890 chr2:109102364-109102364 chr2:109102363-109102364 2;778 K alternative_first_exon CUFF.198 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393384-3393550 175;345 N jcn_only_AA chr2 + chr2:220095128-220096981 chr2:220095128-220096649 85;184 K alternative_acceptor CUFF.191 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1040;157 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 308;19 N jcn_only_AD chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 129;147 K alternative_acceptor CUFF.333 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 12;585 N alternative_acceptor chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 107;162 N jcn_only_AD CUFF.278 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 75;13 N alternative_donor CUFF.226 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 710;1 K jcn_only_AD CUFF.333 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 321;98 N jcn_only_AA CUFF.418 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 251;16 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 143;0 N jcn_only_AA CUFF.396 chr2 - chr2:207989129-208030190 chr2:208013925-208030190 chr2:207989129-208013924 chr2:207989128-207989129 278;40 N alternative_donor CUFF.278 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 75;0 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 88;1306 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 98;91 K alternative_first_exon CUFF.249 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516515-33516854 113;95 K cassette CUFF.297 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 416;322 K intron_retention CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577139-242577140;chr2:242590424-242590425 1306;26 K alternative_acceptor CUFF.307 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 37;371 K cassette CUFF.350 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 106;93 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 54;12 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 80;182 N jcn_only_AA CUFF.283 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 61;59 N alternative_acceptor CUFF.333 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 228;5 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 70;18 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 49;67 N cassette CUFF.297 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 14;385 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 260;191 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 382;21 N jcn_only_AD chr2 - chr2:175689247-175711042 chr2:175689247-175711036 39;84 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 99;29 K intron_retention CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 13;42 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 43;11 N alternative_acceptor CUFF.195,CUFF.249 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 221;4 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 143;0 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 222;191 N coord_cassette CUFF.422 chr2 + chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522;chr2:242598603-242606059 chr2:242594686-242594758;chr2:242598523-242598602 22;433 N alternative_acceptor CUFF.195 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 220;2 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 56;31 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 78;2 N mutually_exclusive CUFF.392 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 108;25 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 382;16 N jcn_only_AA CUFF.214 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 843;75 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 22;32 N jcn_only_AA CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 1306;79 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 76;4 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 30;238 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440493-242440892 chr2:242440263-242440892 59;169 N alternative_donor CUFF.195 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 307;0 N coord_cassette CUFF.421 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440155-242440211;chr2:242440893-242441123 131;589 N alternative_donor CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 581;47 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 478;15 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 354;49 K intron_retention CUFF.333 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 20;4 K alternative_first_exon CUFF.269 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150330-38150510 chr2:38152370-38152568 53;170 K intron_retention CUFF.418 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 235;30 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 36;26 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4009394-4021134 436;119 N mutually_exclusive CUFF.421 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440892,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440893-242441123 70;31 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 537;241 N jcn_only_AA chr2 + chr2:1079342-1204788 chr2:1079342-1093881 60;391 K alternative_first_exon CUFF.274 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42181156-42181482 chr2:42180867-42180943 26;8 K alternative_first_exon CUFF.231 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440493 2;35 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 0;143 K intron_retention CUFF.394 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 212;11 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 84;1 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 87;143 N coord_cassette CUFF.190 chr2 - chr2:253116-264781 chr2:253116-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 153;312 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 161;30 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 80;33 K intron_retention CUFF.403 chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 89;28 K intron_retention CUFF.421 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 563;27 N jcn_only_AD CUFF.198 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 610;88 K cassette CUFF.376 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 34;474 N jcn_only_AA CUFF.352 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 62;32 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 577;40 N cassette CUFF.421 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 131;553 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 318;79 N alternative_acceptor CUFF.227 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 181;3 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 4;18 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 363;3 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 1243;74 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 50;4 N jcn_only_AD CUFF.198 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 271;206 N intron_retention CUFF.277 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 30;5 N alternative_donor CUFF.350 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 154;13 N cassette CUFF.190 chr2 - chr2:253116-263210;chr2:253116-262630 chr2:253116-260084;chr2:260703-262630,chr2:260703-263210 chr2:260085-260702 188;482 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 21;65 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 174;56 N alternative_donor CUFF.333 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 228;5 N jcn_only_AA CUFF.190 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 52;17 K intron_retention CUFF.421 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 1064;204 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 20;55 K intron_retention CUFF.320 chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 18;10 N cassette CUFF.195 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 55;182 K intron_retention CUFF.409 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 65;192 N cassette CUFF.375 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 198;75 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 298;85 N alternative_acceptor CUFF.392 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 8;185 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 374;39 N jcn_only_AD CUFF.364 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 370;43 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 95;32 N cassette CUFF.352 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 62;185 K cassette CUFF.360 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 13;46 N jcn_only_AA CUFF.384,CUFF.403 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 985;9 N cassette CUFF.421 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 197;348 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 102;64 N jcn_only_AD CUFF.371 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 83;20 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 55;11 N intron_retention chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 35;105 N alternative_donor CUFF.198 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 261;15 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 2;253 K alternative_first_exon CUFF.397 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089661 54;764 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 26;467 N cassette CUFF.190 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 521;112 K intron_retention CUFF.409 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 107;140 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 491;2 N alternative_first_exon CUFF.336 chr2 - chr2:27676381-27676848 chr2:27676381-27676496 chr2:27676849-27677029 chr2:27676497-27676734 49;1391 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 21;64 K intron_retention CUFF.394 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 178;50 N alternative_donor CUFF.384 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 985;5 N cassette CUFF.392 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 173;141 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 236;28 N jcn_only_AA CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 221;22 N alternative_donor CUFF.323 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 4461;4 K intron_retention CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 340;39 N alternative_acceptor CUFF.304 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 737;98 K intron_retention CUFF.336 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 447;16 N jcn_only_AD chr2 - chr2:177042550-177042742 chr2:177042550-177042730 33;35 K jcn_only_AA CUFF.191 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1040;316 N alternative_donor CUFF.190 chr2 - chr2:231192-234159 chr2:231192-233100 chr2:233101-234159 chr2:234159-234160 860;95 K alternative_last_exon CUFF.344 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328646 71;118 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 66;191 N alternative_acceptor CUFF.222 chr2 - chr2:25180844-25186273 chr2:25181471-25186273 chr2:25180844-25181470 chr2:25180843-25180844 372;15 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 77;11 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 54;563 K cassette CUFF.388 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 56;112 N coord_cassette CUFF.422 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 20;549 N alternative_donor CUFF.190 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 994;316 N jcn_only_AA CUFF.195,CUFF.403 chr2 + chr2:219449445-219452308 chr2:219449445-219452027 chr2:219452028-219452308 chr2:219452308-219452309 79;33 K jcn_only_AD CUFF.191,CUFF.336 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 134;65 K intron_retention CUFF.307 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 521;123 N jcn_only_AD CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 581;30 N alternative_acceptor CUFF.190 chr2 - chr2:231192-234159 chr2:233230-234159 chr2:231192-233229 chr2:231191-231192 860;78 N jcn_only_AD CUFF.297,CUFF.336 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 394;95 N jcn_only_AA chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 58;235 K intron_retention CUFF.277 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 581;25 K alternative_first_exon CUFF.412 chr2 + chr2:232026224-232029913 chr2:232028442-232029913 chr2:232026054-232026223 chr2:232027787-232028441 313;215 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 76;61 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 468;849 N jcn_only_AA CUFF.309 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 40;87 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 385;28 N jcn_only_AD chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 112;78 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 65;333 K intron_retention CUFF.309 chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 88;48 K intron_retention CUFF.422 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 441;43 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 10;1082 N alternative_acceptor CUFF.283 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 61;101 N jcn_only_AA CUFF.222 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 66;41 K intron_retention CUFF.283 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 225;60 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4015879-4021134 483;72 K intron_retention CUFF.422 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 338;91 N intron_retention CUFF.421 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 11;24 K alternative_last_exon CUFF.226 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672865-27672963 chr2:27676124-27676137 122;1968 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 85;194 K coord_cassette CUFF.283 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 1584;308 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 603;14 K coord_cassette CUFF.392 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 34;107 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 77;52 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 4;362 K coord_cassette CUFF.202 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 6;118 K alternative_first_exon CUFF.307 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422970 chr2:86422045-86422125 433;20 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 21;44 N intron_retention chr2 + chr2:99232810-99234630 chr2:99232809-99232810;chr2:99234630-99234631 11;13 K alternative_last_exon CUFF.412 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:232003450-232003564 chr2:231973278-231973827 241;119 N alternative_acceptor CUFF.198 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 1082;3 K alternative_acceptor CUFF.333 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 155;295 K alternative_last_exon CUFF.278 chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003660 chr2:48906474-48906742 176;179 N coord_cassette CUFF.350 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 16;7 N jcn_only_AA chr2 - chr2:175816931-175869933 chr2:175869809-175869933 chr2:175816931-175869808 chr2:175816930-175816931 6;101 K intron_retention CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 80;140 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 184;151 N alternative_donor CUFF.333 chr2 + chr2:109102364-109102890 chr2:109102365-109102890 chr2:109102364-109102364 chr2:109102363-109102364 2;388 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 336;233 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 63;71 N jcn_only_AA CUFF.347 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 77;53 K intron_retention CUFF.226 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 258;208 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 223;81 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 1470;58 N alternative_donor CUFF.360 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 9;1 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 266;303 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 365;1 N coord_cassette CUFF.421 chr2 - chr2:242439697-242448637 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242448637 chr2:242440155-242440211;chr2:242440893-242441123 74;272 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 271;88 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 121;22 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 68;12 N jcn_only_AD CUFF.375 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 96;53 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 1364;163 N jcn_only_AD chr2 + chr2:171400499-171508137 chr2:171503450-171508137 60;11 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 133;32 N cassette CUFF.392 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 65;223 N alternative_donor CUFF.193,CUFF.222 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 66;2 N cassette CUFF.422 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 85;573 K alternative_donor CUFF.297 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 280;136 K intron_retention CUFF.409 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 252;27 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 20;21 N alternative_acceptor CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 300;43 N cassette CUFF.350 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 9;64 K cassette CUFF.220 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 64;175 N jcn_only_AA CUFF.226 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 97;528 K intron_retention CUFF.226 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 640;115 N jcn_only_AD chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 85;13 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 264;119 K intron_retention CUFF.409 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 503;188 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 1132;50 N alternative_acceptor CUFF.384,CUFF.403 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 985;3 N jcn_only_AD CUFF.198 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 4;46 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 349;49 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 493;43 K intron_retention CUFF.226 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 634;22 N alternative_acceptor CUFF.422 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 1306;2 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 31;19 K cassette CUFF.249 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 144;158 N mutually_exclusive CUFF.375 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 57;90 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 65;234 K jcn_only_AA CUFF.307 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 37;735 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 120;22 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 96;33 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 2815;235 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 114;15 K cassette CUFF.347 chr2 + chr2:153497429-153504309 chr2:153497429-153499932;chr2:153500059-153504309 chr2:153499933-153500058 156;139 K jcn_only_AA CUFF.412 chr2 + chr2:232026224-232029913 chr2:232026224-232028348 344;44 K cassette CUFF.323 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 133;3229 N alternative_donor CUFF.198 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 610;67 N jcn_only_AD CUFF.214 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 1166;126 N jcn_only_AD CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 159;86 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 221;1306 K intron_retention CUFF.304 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 2290;73 N alternative_donor CUFF.312 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 73;8 N cassette CUFF.409 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 54;259 N alternative_donor CUFF.333 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 65;88 N intron_retention chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 56;33 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134 chr2:4020693-4021134 425;130 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 85;246 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 244;1510 K intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 178;21 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 47;563 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 136;84 K intron_retention CUFF.413 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 95;59 K cassette CUFF.249 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 167;254 N jcn_only_AA CUFF.364 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 370;20 N intron_retention chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 147;92 N cassette CUFF.277 chr2 - chr2:46839484-46842075 chr2:46839484-46840832;chr2:46840925-46842075 chr2:46840833-46840924 47;391 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 75;5 N jcn_only_AD CUFF.403 chr2 + chr2:219449445-219452308 chr2:219452124-219452308 chr2:219449445-219452123 chr2:219449444-219449445 79;29 N alternative_donor CUFF.214 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 843;1 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 49;18 K coord_cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 32;142 K jcn_only_AA CUFF.333 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 155;7 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 16;394 N jcn_only_AD CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 340;16 K cassette CUFF.220 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 69;148 N coord_cassette CUFF.213 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 13;188 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 49;1 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 409;1 N cassette CUFF.422 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 1296;353 K intron_retention CUFF.320 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 22;26 K intron_retention CUFF.191 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 960;60 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 33;128 N jcn_only_AA CUFF.412 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 60;12 N jcn_only_AD CUFF.307 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 22;4 N jcn_only_AA CUFF.304 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 737;199 N mutually_exclusive CUFF.307 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 21;79 K intron_retention CUFF.402 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 187;87 N alternative_acceptor CUFF.226 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 97;454 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 78;49 K intron_retention CUFF.269 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 46;510 N coord_cassette CUFF.402 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 68;253 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 377;20 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 236;26 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 1316;78 N coord_cassette CUFF.190 chr2 - chr2:262787-264781 chr2:262787-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 149;332 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 16;86 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 210;47 N cassette CUFF.422 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 739;674 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 236;2814 N cassette CUFF.307 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 26;633 N cassette CUFF.333 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 193;82 N alternative_donor CUFF.397 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 6;183 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 9;49 N jcn_only_AA CUFF.198,CUFF.413 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 271;177 N alternative_acceptor CUFF.371 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 372;3 N cassette CUFF.421 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 97;950 N jcn_only_AA CUFF.333 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 228;168 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 201;73 N intron_retention CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 9;18 N jcn_only_AA CUFF.222 chr2 - chr2:25180844-25186273 chr2:25181471-25186273 chr2:25180844-25181470 chr2:25180843-25180844 372;81 N alternative_donor CUFF.323 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 2561;21 N alternative_acceptor chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 129;12 N jcn_only_AD CUFF.269 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 849;78 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 29;16 K cassette CUFF.354 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 309;178 K intron_retention CUFF.402 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 360;112 K cassette CUFF.195 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 132;171 N alternative_first_exon CUFF.392 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676863 10;80 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 47;223 N alternative_donor CUFF.307 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 22;16 K intron_retention CUFF.269 chr2 + chr2:38201358-38202354 chr2:38201357-38201358;chr2:38202354-38202355 1105;53 K intron_retention CUFF.202 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 205;93 K intron_retention CUFF.313 chr2 + chr2:88928251-88930917 chr2:88928250-88928251;chr2:88930917-88930918 29;42 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 58;30 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 1753;1 K intron_retention CUFF.226 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 1841;6 K jcn_only_AD CUFF.222 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 138;256 N jcn_only_AA CUFF.360 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 53;10 K intron_retention CUFF.409 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 145;140 K intron_retention CUFF.352 chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 45;64 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 1140;39 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 71;333 K jcn_only_AA CUFF.336 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 134;366 N jcn_only_AA chr2 - chr2:242440493-242440892;chr2:242440263-242440892 chr2:242440335-242440892 211;16 N alternative_acceptor CUFF.336 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 340;43 N alternative_acceptor chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 58;118 N intron_retention chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 69;103 K intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 93;21 N jcn_only_AD CUFF.333 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 65;84 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 171;467 N jcn_only_AA CUFF.227 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 205;49 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 554;137 N alternative_acceptor CUFF.360 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 53;0 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 203;303 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 178;54 K jcn_only_AA CUFF.355 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 48;9 N cassette CUFF.320 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 11;121 N alternative_acceptor CUFF.352 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 62;4 K jcn_only_AD CUFF.341 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 43;8 K intron_retention CUFF.193 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 81;51 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 487;6 K intron_retention CUFF.297 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 248;39 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 199;31 N jcn_only_AD CUFF.323 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 23;64 N intron_retention chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 47;7 K intron_retention CUFF.421 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 363;68 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 23;43 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 9;382 N alternative_donor CUFF.195 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 154;6 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 599;11 N cassette CUFF.422 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 20;656 N jcn_only_AD CUFF.198 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 261;104 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 22;3 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 30;113 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 65;20 N jcn_only_AD CUFF.226 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 710;14 K intron_retention CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 221;20 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 345;161 N intron_retention CUFF.336 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 16;26 N alternative_acceptor CUFF.195,CUFF.403 chr2 + chr2:219449445-219452308 chr2:219449445-219452027 chr2:219452028-219452308 chr2:219452308-219452309 79;9 N alternative_donor CUFF.336 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 340;70 N jcn_only_AA CUFF.226 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 876;109 K intron_retention CUFF.283 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 126;127 N alternative_acceptor CUFF.222 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 66;3 N alternative_acceptor CUFF.227 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 205;3 K intron_retention CUFF.283 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 2243;18 N jcn_only_AD CUFF.360 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 53;11 N mutually_exclusive CUFF.297 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 12;26 N alternative_acceptor CUFF.389 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 209;1 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 393;20 K intron_retention CUFF.194 chr2 + chr2:677474-680043 chr2:677473-677474;chr2:680043-680044 110;4 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 238;19 N cassette CUFF.190 chr2 - chr2:263373-264781 chr2:263373-263563;chr2:263763-264781 chr2:263564-263762 59;495 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 49;31 K cassette CUFF.411 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 8;3 N alternative_acceptor CUFF.269,CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 13;51 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 49;110 N jcn_only_AA CUFF.226 chr2 - chr2:27676381-27676848 chr2:27676607-27676848 47;118 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 86;241 N jcn_only_AD CUFF.195 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 60;369 N jcn_only_AD CUFF.347 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 77;48 N alternative_donor chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 85;5 N cassette CUFF.389 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 16;88 N intron_retention chr2 - chr2:61764723-61765272 chr2:61764722-61764723;chr2:61765272-61765273 20;18 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 85;38 N jcn_only_AD CUFF.269 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1024;180 N coord_cassette CUFF.278 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 6;154 N alternative_donor CUFF.222 chr2 - chr2:25180844-25186273 chr2:25180844-25181415 chr2:25181416-25186273 chr2:25186273-25186274 372;12 N intron_retention chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 286;185 N jcn_only_AD CUFF.350 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 154;23 K intron_retention CUFF.307 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 63;347 N jcn_only_AD CUFF.202,CUFF.297 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 86;73 K cassette CUFF.354 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 118;174 N alternative_acceptor CUFF.347 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 77;16 N alternative_donor CUFF.226 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 622;61 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 135;8 N alternative_donor CUFF.202,CUFF.297 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 86;27 N alternative_donor CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 11;10 N jcn_only_AD CUFF.198 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 922;29 N jcn_only_AD CUFF.380 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 19;36 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 392;59 N jcn_only_AA CUFF.198,CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 159;222 K alternative_last_exon CUFF.336 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936000-110936124 chr2:110936325-110936512 84;301 K intron_retention CUFF.198 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 409;33 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 20;147 N mutually_exclusive CUFF.350 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 49;86 N alternative_donor CUFF.222,CUFF.371 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 372;9 N jcn_only_AD CUFF.312 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 73;28 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 52;136 K alternative_acceptor CUFF.320 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 166;34 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 39;132 K intron_retention CUFF.316 chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 6;5 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 4;43 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 191;135 N cassette CUFF.213 chr2 - chr2:11587901-11593707 chr2:11587901-11591327;chr2:11591933-11593707 chr2:11591328-11591932 13;488 K cassette CUFF.202 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 9;163 N jcn_only_AA CUFF.360 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 153;2 K cassette CUFF.354 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 461;26 N alternative_acceptor CUFF.190 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 635;29 N intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 152;206 N jcn_only_AD CUFF.195 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 307;23 K alternative_donor CUFF.249 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 131;25 N mutually_exclusive CUFF.371 chr2 - chr2:175689247-175742567,chr2:175742857-175779785 chr2:175689247-175711607,chr2:175711686-175779785 chr2:175742568-175742856 chr2:175711608-175711685 59;62 N mutually_exclusive CUFF.307 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 12;79 N alternative_donor chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 129;3 N jcn_only_AA CUFF.198,CUFF.380 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 922;27 N intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 35;121 N alternative_donor CUFF.364 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 370;0 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 4;47 N alternative_acceptor CUFF.190 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 52;23 K cassette CUFF.213 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 235;188 N alternative_donor CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 159;29 K cassette CUFF.336 chr2 - chr2:110959072-110962476 chr2:110959072-110959949;chr2:110960057-110962476 chr2:110959950-110960056 351;198 K alternative_donor CUFF.341 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 43;4 N alternative_acceptor CUFF.364 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 370;3 K cassette CUFF.269 chr2 + chr2:38177739-38201182 chr2:38177739-38178375;chr2:38179345-38201182 chr2:38178376-38179344 404;295 N coord_cassette CUFF.382 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 49;30 N intron_retention chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 18;122 N alternative_acceptor CUFF.226 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 161;31 N cassette CUFF.421 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 431;435 N jcn_only_AD CUFF.190 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 635;387 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 197;22 N jcn_only_AA CUFF.371 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 372;135 N intron_retention chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 865;40 N intron_retention chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 48;145 N jcn_only_AD CUFF.222,CUFF.371 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 372;146 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 119;278 N jcn_only_AA CUFF.389 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 209;24 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 32;142 K cassette CUFF.403 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 155;116 K alternative_acceptor CUFF.355 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 48;5 K cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 32;221 K intron_retention CUFF.397 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 8;26 N cassette CUFF.307 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 10;383 N alternative_donor CUFF.297,CUFF.336 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 394;5 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 405;131 N jcn_only_AA CUFF.360 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 67;62 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 1511;243 N jcn_only_AD CUFF.190 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 994;53 N jcn_only_AD CUFF.222 chr2 - chr2:25180844-25186273 chr2:25180844-25181415 chr2:25181416-25186273 chr2:25186273-25186274 372;73 N jcn_only_AD CUFF.226 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 622;33 N cassette CUFF.226 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 43;803 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 59;29 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 1122;58 N cassette CUFF.371 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 63;74 K alternative_first_exon CUFF.312,CUFF.421 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88913242-88913371 chr2:88895269-88895462 8;49 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 122;182 N alternative_donor CUFF.375 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 96;45 N jcn_only_AD CUFF.193,CUFF.222 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 66;35 N alternative_donor CUFF.403 chr2 + chr2:219449445-219452308 chr2:219452124-219452308 chr2:219449445-219452123 chr2:219449444-219449445 79;2 N alternative_acceptor CUFF.396 chr2 - chr2:207989129-208030190 chr2:208013925-208030190 chr2:207989129-208013924 chr2:207989128-207989129 278;0 N cassette CUFF.198 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 80;267 K cassette CUFF.277 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 64;438 K intron_retention CUFF.193 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 12;45 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 186;46 N cassette CUFF.297 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 38;95 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 116;158 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 256;127 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 21;20 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 254;20 N alternative_acceptor CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 221;22 N cassette CUFF.371 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 59;123 N jcn_only_AD CUFF.195 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 243;51 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 208;54 K coord_cassette CUFF.422 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 431;51 N cassette CUFF.375 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 96;502 K intron_retention CUFF.340 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 27;22 N jcn_only_AA CUFF.198 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 1082;13 N intron_retention chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 47;32 N jcn_only_AA CUFF.202 chr2 - chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4020665-4021134 406;149 N jcn_only_AD CUFF.384 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 985;8 N jcn_only_AA chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 129;369 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 85;0 N alternative_donor CUFF.214 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 1166;24 K intron_retention CUFF.227 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 232;36 K intron_retention CUFF.409 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 366;101 K intron_retention chr2 + chr2:99232810-99232894 chr2:99232809-99232810;chr2:99232894-99232895 133;59 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 923;394 N alternative_donor CUFF.231 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 48;1 N jcn_only_AA chr2 + chr2:220095073-220096981 chr2:220095073-220096649 95;152 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 252;22 N alternative_acceptor CUFF.226 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 710;2 K cassette CUFF.202 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 6;178 K alternative_acceptor CUFF.355 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 2;59 N alternative_donor CUFF.309 chr2 - chr2:86839398-86847452 chr2:86839398-86842277 chr2:86842278-86847452 chr2:86847452-86847453 74;26 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 464;42 K jcn_only_AA CUFF.355 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 2;31 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 490;3 K intron_retention CUFF.227 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 259;172 K intron_retention CUFF.422 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 19;234 N cassette CUFF.307 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 10;58 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 21;107 N cassette CUFF.193 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 38;137 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 3;22 N jcn_only_AD CUFF.389 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 209;23 N intron_retention CUFF.402 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 62;85 N jcn_only_AD CUFF.274,CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 221;9 K alternative_last_exon CUFF.195,CUFF.198 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 246;55 N jcn_only_AA CUFF.392 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 8;374 K intron_retention CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 300;76 N jcn_only_AA CUFF.190 chr2 - chr2:231192-234159 chr2:233230-234159 chr2:231192-233229 chr2:231191-231192 860;668 K alternative_first_exon CUFF.191 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:287583-287892 chr2:287163-287414 493;632 K cassette CUFF.202 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 84;101 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 118;241 K intron_retention chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 333;94 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 96;69 N jcn_only_AA CUFF.421 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 563;47 N alternative_acceptor CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 9;13 N mutually_exclusive CUFF.371 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 54;66 K jcn_only_AD CUFF.297 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 280;275 N alternative_acceptor CUFF.198,CUFF.380 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 922;16 K alternative_donor CUFF.333 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 321;50 N alternative_donor CUFF.360 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 53;3 N jcn_only_AD CUFF.231 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 48;7 K intron_retention CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 11;397 K jcn_only_AA CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 80;95 K intron_retention CUFF.403 chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 182;69 N alternative_first_exon CUFF.409 chr2 + chr2:220094623-220097211 chr2:220097085-220097211 chr2:220094479-220094622 chr2:220096982-220097084 96;697 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 169;124 N jcn_only_AA CUFF.364 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 480;36 N alternative_donor CUFF.347 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 77;3 N jcn_only_AA CUFF.336 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 340;22 N jcn_only_AA CUFF.402 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 300;62 K jcn_only_AA CUFF.333 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 12;778 N jcn_only_AA chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 107;184 N alternative_donor CUFF.269 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1024;33 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 22;20 N cassette CUFF.307 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 26;357 N alternative_donor CUFF.323 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 23;38 K intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 569;9 K intron_retention CUFF.409 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 222;84 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 4;2 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 11;35 N intron_retention CUFF.190 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 521;44 N cassette CUFF.297 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 108;159 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 260;67 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 4;0 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 617;21 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 264;41 N jcn_only_AA CUFF.202 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4020693-4021134 chr2:4009485-4021134 469;86 N jcn_only_AA CUFF.195 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 220;29 N alternative_acceptor CUFF.360 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 67;3 N intron_retention CUFF.190 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 9;34 N alternative_donor CUFF.198 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 922;26 K cassette CUFF.350 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 164;62 N jcn_only_AD CUFF.323 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 4461;28 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 45;14 N intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 78;64 N jcn_only_AD CUFF.214 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 843;140 N jcn_only_AD CUFF.323 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 16;105 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 405;206 N jcn_only_AA CUFF.226 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 161;56 N alternative_acceptor CUFF.418 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 251;10 N mutually_exclusive CUFF.422 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 39;11 K cassette CUFF.231 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 9;33 K intron_retention CUFF.283 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 106;94 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 728;115 N alternative_last_exon CUFF.190 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234160-234272 chr2:239561-242176 74;457 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 139;84 N alternative_acceptor CUFF.421 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 563;16 N cassette CUFF.422 chr2 + chr2:242594063-242606059;chr2:242594759-242606059 chr2:242594759-242598522,chr2:242594063-242598522;chr2:242598603-242606059 chr2:242598523-242598602 33;423 K mutually_exclusive CUFF.354 chr2 + chr2:169659184-169681143,chr2:169681228-169684667 chr2:169659184-169668076,chr2:169668163-169684667 chr2:169681144-169681227 chr2:169668077-169668162 216;117 N alternative_acceptor CUFF.309 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 40;139 N alternative_donor CUFF.269 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 849;2 N cassette CUFF.190 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 1038;126 N jcn_only_AA CUFF.336 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 9;4 N jcn_only_AD CUFF.190 chr2 - chr2:231192-234159 chr2:231192-233100 chr2:233101-234159 chr2:234159-234160 860;521 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440263-242440892 chr2:242440493-242440892 185;43 K cassette CUFF.354 chr2 + chr2:169711971-169713199 chr2:169711971-169712395;chr2:169712721-169713199 chr2:169712396-169712720 480;49 N coord_cassette CUFF.190 chr2 - chr2:253116-263210 chr2:253116-260084;chr2:260703-262630;chr2:262751-263210 chr2:260085-260702;chr2:262631-262750 10;7 N jcn_only_AA CUFF.195,CUFF.249 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 221;35 N jcn_only_AA CUFF.269,CUFF.333 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 13;37 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 543;95 N intron_retention CUFF.193 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 26;23 K alternative_last_exon CUFF.269 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38201183-38201357 chr2:38177654-38177738 272;23 N cassette CUFF.297 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 52;244 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 536;33 N intron_retention chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 191;243 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 81;46 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 1084;8 N alternative_donor CUFF.190 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 635;14 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 170;20 K cassette CUFF.213 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 271;149 K cassette CUFF.403 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 110;47 N alternative_donor CUFF.274,CUFF.336 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 221;18 N jcn_only_AA CUFF.227 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 181;27 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 261;27 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 573;36 N jcn_only_AD CUFF.309 chr2 - chr2:86839398-86847452 chr2:86839398-86842277 chr2:86842278-86847452 chr2:86847452-86847453 74;38 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 25;0 K alternative_first_exon CUFF.222 chr2 - chr2:25190163-25194686 chr2:25190163-25194424,chr2:25190163-25194284 chr2:25194687-25195017 chr2:25194425-25194582 82;263 N jcn_only_AD CUFF.360 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 9;8 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 378;20 K alternative_last_exon CUFF.198,CUFF.412 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3469368-3469467 chr2:3464418-3464714 470;585 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 74;6 K jcn_only_AA CUFF.320 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 166;59 N alternative_acceptor CUFF.364 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 480;16 K intron_retention CUFF.210 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 126;584 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 151;41 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 605;33 N alternative_acceptor CUFF.198,CUFF.333 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 159;91 K alternative_acceptor CUFF.413 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 80;136 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 71;120 N coord_cassette CUFF.297 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 38;272 K cassette CUFF.227 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 180;68 N jcn_only_AD CUFF.333 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 228;307 N coord_cassette CUFF.371 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 76;75 N alternative_acceptor CUFF.214 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 843;12 K alternative_first_exon CUFF.392 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204399834-204400152 chr2:204398088-204398242 390;56 K intron_retention CUFF.277 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 545;14 K alternative_first_exon CUFF.297 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73226078-73226143 chr2:73221975-73222187 184;164 N alternative_donor CUFF.198 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 4;31 N cassette CUFF.412 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 9;194 K coord_cassette CUFF.213 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 32;178 K intron_retention CUFF.422 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 448;7 N intron_retention chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 101;75 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 174;362 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 1090;2 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 403;11 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 20;27 N jcn_only_AD CUFF.397 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 6;237 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 353;61 N alternative_acceptor CUFF.360 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 153;1 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 22;244 K cassette CUFF.202 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009394-4021134 chr2:4009360-4009393 9;191 K alternative_first_exon CUFF.350 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585520-160585686 chr2:160590460-160590593 120;20 N jcn_only_AD CUFF.195 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 154;53 N jcn_only_AD CUFF.323 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 2561;42 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 20;52 N alternative_acceptor chr2 - chr2:175816931-175869933 chr2:175869809-175869933 chr2:175816931-175869808 chr2:175816930-175816931 6;1 N alternative_acceptor CUFF.198,CUFF.413 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 271;74 N alternative_donor CUFF.389 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 209;0 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 145;386 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 60;20 N alternative_donor CUFF.198 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 271;2 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 106;113 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 395;15 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 329;30 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 97;1082 N alternative_acceptor CUFF.226 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 876;37 N alternative_donor CUFF.307 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 877;49 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 30;37 K intron_retention CUFF.226 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 9;352 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 3049;1 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 615;22 K intron_retention CUFF.323 chr2 + chr2:101604739-101606717 chr2:101604738-101604739;chr2:101606717-101606718 256;9 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 95;93 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 350;63 N jcn_only_AD CUFF.307 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 877;81 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 100;132 N jcn_only_AA CUFF.226 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 710;11 K jcn_only_AD CUFF.249 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 131;51 N jcn_only_AD CUFF.370 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 11;15 N intron_retention chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 54;168 N jcn_only_AA CUFF.190 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 635;430 K intron_retention CUFF.412 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 161;33 K alternative_first_exon CUFF.416 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476336-237476484 chr2:237478227-237478567 36;66 N intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 29;54 N alternative_donor CUFF.371 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 83;1 K alternative_last_exon CUFF.287 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358409-68358577 chr2:68359054-68359137 205;88 N mutually_exclusive CUFF.421 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440892,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440893-242441123 70;31 N intron_retention chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 54;49 K alternative_first_exon CUFF.249 chr2 + chr2:33335819-33359859 chr2:33359573-33359859 chr2:33335649-33335818 chr2:33359389-33359572 1;17 K cassette CUFF.135 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 80;31 K jcn_only_AD CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 61;458 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 17;39 N jcn_only_AD CUFF.122 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 9;9 N intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 51;136 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 141;469 N cassette CUFF.100 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 7;5 N alternative_donor CUFF.41 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 354;12 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 263;69 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 154;79 K intron_retention CUFF.45 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 39;53 K alternative_donor CUFF.134 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 29;30 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 218;56 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 15;29 N jcn_only_AD CUFF.122 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 10;36 K alternative_last_exon CUFF.18 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383804 chr1:16382917-16383003 6;86 N alternative_acceptor CUFF.166 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 162;32 K intron_retention CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963195-22963196;chr1:22964102-22964103 234;33 N alternative_acceptor CUFF.4 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 202;8 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 248;140 K cassette CUFF.4 chr1 + chr1:2075781-2077465 chr1:2075781-2076827;chr1:2076951-2077465 chr1:2076828-2076950 980;269 K alternative_first_exon CUFF.155 chr1 - chr1:202894336-202897608 chr1:202894336-202896216 chr1:202897609-202897843 chr1:202896217-202896390 71;10 N mutually_exclusive CUFF.57 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 94;98 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 364;326 N cassette CUFF.90 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 88;73 N alternative_donor CUFF.111 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 167;43 K cassette CUFF.180 chr1 + chr1:245222761-245245384 chr1:245222761-245238875;chr1:245238914-245245384 chr1:245238876-245238913 413;497 N jcn_only_AA chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 74;34 K cassette CUFF.141 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 4;122 N cassette CUFF.4 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 97;267 N alternative_donor CUFF.135 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 238;0 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 chr1:153923736-153924080 17;79 N alternative_donor CUFF.114 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 16;31 K alternative_first_exon CUFF.49 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 7;150 N jcn_only_AA CUFF.135,CUFF.180 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 122;13 N jcn_only_AD CUFF.106 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 10;30 N jcn_only_AA CUFF.157,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 41;13 N cassette CUFF.4 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 33;902 K intron_retention CUFF.49 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 10;115 N alternative_acceptor CUFF.92 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 4;0 K alternative_first_exon CUFF.161 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556062-211556267 chr1:211563990-211564012 208;39 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 147;214 K cassette CUFF.135 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 106;74 K coord_cassette CUFF.6 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 100;100 K cassette CUFF.127 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 16;23 K jcn_only_AD CUFF.134 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 29;37 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 89;55 N jcn_only_AD CUFF.4 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 389;27 K alternative_first_exon CUFF.166 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817624-222817928 31;207 N coord_cassette CUFF.44 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 13;224 N alternative_acceptor CUFF.135,CUFF.180 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 122;6 K cassette CUFF.134 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 37;24 N coord_cassette CUFF.4 chr1 + chr1:2075781-2080310 chr1:2075781-2076827;chr1:2076951-2077465;chr1:2077548-2080310 chr1:2076828-2076950;chr1:2077466-2077547 33;244 N alternative_donor CUFF.135 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 191;1 N alternative_donor CUFF.180 chr1 + chr1:245246786-245246923 chr1:245246787-245246923 chr1:245246786-245246786 chr1:245246785-245246786 1;629 K alternative_last_exon CUFF.173 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613752 21;652 K intron_retention CUFF.110 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 chr1:153924873-153924922;chr1:153925047-153925111 159;37 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 200;120 N jcn_only_AA CUFF.132 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 7;97 K alternative_first_exon CUFF.151 chr1 + chr1:196913069-196919981 chr1:196918780-196919981 chr1:196912896-196913068 chr1:196918585-196918779 6;28 N jcn_only_AA CUFF.2 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 136;6 N alternative_acceptor CUFF.41 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;10 K alternative_first_exon CUFF.34 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656738-28656886 301;314 N alternative_donor CUFF.4 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 315;16 K cassette CUFF.172 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 90;16 K alternative_acceptor CUFF.48 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 48;44 N jcn_only_AA CUFF.72 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 109;80 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 189;44 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 204;70 N alternative_acceptor CUFF.44 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 316;0 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 301;91 N cassette CUFF.142 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 98;96 N alternative_donor CUFF.4 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 389;2 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 200;188 K intron_retention chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 74;164 N jcn_only_AA CUFF.41 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;3 N cassette CUFF.135 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 43;122 K intron_retention CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 69;21 N jcn_only_AD CUFF.57 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 130;27 N alternative_acceptor chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 84;9 N jcn_only_AA CUFF.92 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 4;2 N intron_retention chr1 + chr1:110212198-110213911 chr1:110212197-110212198;chr1:110213911-110213912 2;22 N alternative_first_exon CUFF.174 chr1 + chr1:230203154-230338882 chr1:230314058-230338882 chr1:230202929-230203153 chr1:230313964-230314057 28;58 K intron_retention CUFF.45 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 73;75 K intron_retention CUFF.163 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 56;12 K jcn_only_AD CUFF.153 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 213;134 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 18;32 K cassette CUFF.157 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 44;11 N alternative_first_exon CUFF.183 chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246924-245246990 chr1:245270523-245270599 34;28 N alternative_acceptor CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 343;22 N jcn_only_AA CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 187;59 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 197;36 N jcn_only_AD CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 596;9 K alternative_donor CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 234;197 N alternative_acceptor CUFF.157,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 41;11 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 334;28 N jcn_only_AD CUFF.4 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 413;49 N jcn_only_AA CUFF.4 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 389;35 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 859;59 N alternative_donor CUFF.188 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 9;7 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11076179;chr1:11076312-11076900 chr1:11076180-11076311 422;36 K cassette CUFF.102 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 172;101 N jcn_only_AD CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 187;70 K coord_cassette CUFF.135 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 10;34 K intron_retention CUFF.174 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 132;59 N alternative_acceptor CUFF.18,CUFF.41 chr1 + chr1:31783012-31791955 chr1:31783012-31791013 chr1:31791014-31791955 chr1:31791955-31791956 351;5 K jcn_only_AA CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 71;32 N alternative_donor CUFF.142,CUFF.147 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 71;7 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 76;276 K intron_retention CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 54;74 K jcn_only_AA CUFF.135,CUFF.144 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 15;264 K coord_cassette CUFF.134 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 37;24 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 40;4 N cassette CUFF.41 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 19;215 N alternative_acceptor CUFF.104 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 166;10 K alternative_first_exon CUFF.156 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601169 chr1:205594760-205594885 39;44 K jcn_only_AD CUFF.34 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 21;336 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 241;120 N coord_cassette CUFF.57 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 98;105 N jcn_only_AD CUFF.180 chr1 + chr1:245246786-245246923 chr1:245246787-245246923 chr1:245246786-245246786 chr1:245246785-245246786 1;1261 N alternative_acceptor CUFF.114 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 5;22 N cassette CUFF.57 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 137;790 N jcn_only_AD CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 64;38 K cassette CUFF.163 chr1 - chr1:213181809-213188954 chr1:213181809-213186434;chr1:213186761-213188954 chr1:213186435-213186760 72;66 N cassette CUFF.44 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 48;296 N alternative_donor CUFF.147 chr1 - chr1:174084788-174124764 chr1:174084788-174091221 chr1:174091222-174124764 chr1:174124764-174124765 228;0 N jcn_only_AA CUFF.110 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 72;53 N alternative_donor CUFF.69 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 166;0 K intron_retention CUFF.110 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 chr1:153923736-153924142;chr1:153924494-153924738 121;27 N coord_cassette CUFF.135 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 109;27 N jcn_only_AD chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 10;18 N alternative_acceptor CUFF.116 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 64;16 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 214;60 N alternative_donor CUFF.122 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 9;4 K alternative_donor CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 61;290 K intron_retention CUFF.118 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 chr1:158584043-158584096 204;54 K intron_retention CUFF.110 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 chr1:153925047-153925111;chr1:153925281-153925310 51;14 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 76;341 N cassette CUFF.111 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 18;121 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 51;105 K alternative_last_exon CUFF.56 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387223-54387440 46;96 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 106;244 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 47;38 N alternative_last_exon CUFF.54 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53902700-53904721 58;149 N jcn_only_AA chr1 - chr1:156449139-156450625 chr1:156449589-156450625 38;10 N cassette CUFF.32 chr1 - chr1:27436269-27480473 chr1:27436269-27440316;chr1:27440778-27480473 chr1:27440317-27440777 14;120 N mutually_exclusive CUFF.90 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 4;67 K alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 54;152 N intron_retention chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 18;6 N alternative_last_exon chr1 + chr1:10494748-10511433 chr1:10494748-10500403 chr1:10511434-10512210 chr1:10500404-10500470 52;114 N alternative_acceptor CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 187;16 N jcn_only_AD chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174128025-174129054 chr1:174129054-174129055 30;391 N alternative_acceptor CUFF.44 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 chr1:32542165-32557272 chr1:32557272-32557273 73;4 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 13;63 K cassette CUFF.49 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 56;240 K jcn_only_AD CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 234;347 N jcn_only_AD CUFF.4 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 315;24 K alternative_acceptor CUFF.18 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 144;6 N alternative_donor CUFF.122 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 10;22 N jcn_only_AA CUFF.49 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 77;224 K cassette CUFF.134 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 18;27 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 189;1 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 262;12 K intron_retention CUFF.172 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 68;12 N jcn_only_AA CUFF.54 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 50;50 K alternative_first_exon CUFF.153 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877582-200877677 161;58 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 55;117 N alternative_donor CUFF.4 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 413;1 N jcn_only_AD chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 55;87 K cassette CUFF.166 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 228;30 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 159;74 N intron_retention chr1 + chr1:155180419-155182175 chr1:155180418-155180419;chr1:155182175-155182176 18;16 N alternative_donor chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 55;109 K alternative_acceptor CUFF.45 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 79;57 K intron_retention CUFF.116 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 35;33 K alternative_first_exon CUFF.180 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245133007-245133100 chr1:245133631-245133745 858;598 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 21;604 K cassette CUFF.97 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 29;275 K alternative_first_exon CUFF.153 chr1 + chr1:200860830-200867434;chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860088-200860530 chr1:200863869-200864215 45;233 K intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 87;48 K cassette CUFF.126 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 230;10 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 1166;44 N jcn_only_AD chr1 + chr1:32541856-32542363 chr1:32542248-32542363 12;46 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 23;451 K alternative_first_exon CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072320-11072485 chr1:11072671-11072800 127;120 N alternative_donor CUFF.188 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 127;15 K alternative_acceptor CUFF.188 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 115;48 K intron_retention CUFF.147 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 66;110 N jcn_only_AD CUFF.180 chr1 + chr1:245245464-245246743 chr1:245245465-245246743 chr1:245245464-245245464 chr1:245245463-245245464 2;1363 N jcn_only_AA CUFF.18,CUFF.41 chr1 + chr1:31783012-31791955 chr1:31783012-31791013 chr1:31791014-31791955 chr1:31791955-31791956 351;32 K cassette CUFF.120 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 106;139 N alternative_first_exon chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941710 chr1:156939790-156939835 2;139 N jcn_only_AA CUFF.4 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 202;330 N alternative_donor CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 64;20 K intron_retention CUFF.4 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 354;17 N jcn_only_AD CUFF.54,CUFF.88 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 50;103 N cassette CUFF.142 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 53;113 K intron_retention CUFF.120 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 122;64 K alternative_acceptor CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 69;282 N jcn_only_AA chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 84;238 N alternative_acceptor chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 74;3 N alternative_donor CUFF.4 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 291;183 K alternative_donor CUFF.86 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 78;256 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 551;21 K alternative_first_exon CUFF.48,CUFF.84 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642250 78;43 K alternative_acceptor CUFF.135 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 52;32 K intron_retention CUFF.88 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 559;24 N alternative_donor CUFF.111 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 84;41 K intron_retention CUFF.153 chr1 + chr1:200883188-200883601 chr1:200883187-200883188;chr1:200883601-200883602 34;18 K jcn_only_AA CUFF.135 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 52;24 N alternative_acceptor CUFF.72 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 109;3 N jcn_only_AA CUFF.68,CUFF.86 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 274;41 N alternative_acceptor CUFF.132 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 7;48 N alternative_donor chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 10;7 N alternative_acceptor CUFF.180,CUFF.6 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 959;9 K intron_retention CUFF.28 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 462;202 K intron_retention CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 71;71 K intron_retention CUFF.49 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 205;59 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 23;1208 K jcn_only_AD CUFF.104 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 84;64 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 422;66 N intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 64;29 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 328;60 K alternative_acceptor CUFF.153 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 71;66 N cassette CUFF.20 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 7;78 K alternative_acceptor CUFF.122,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 113;268 K alternative_last_exon CUFF.122,CUFF.86 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160156066-160156157 chr1:160152482-160152527 425;51 K intron_retention CUFF.97 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 81;18 N alternative_first_exon chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612240 chr1:120572529-120572610 4;4 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 23;40 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 40;1 N coord_cassette CUFF.57 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 39;105 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 1191;19 N jcn_only_AD CUFF.111 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 84;87 N jcn_only_AD CUFF.4 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 354;14 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 74;70 N alternative_donor chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 41;74 N jcn_only_AD CUFF.147 chr1 - chr1:174084788-174124764 chr1:174084788-174091221 chr1:174091222-174124764 chr1:174124764-174124765 228;34 K alternative_first_exon CUFF.2 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1655951-1656202 chr1:1663953-1664283 102;152 N alternative_first_exon chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905648 chr1:53905100-53905337 47;150 N alternative_donor CUFF.44 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 316;2 N jcn_only_AA chr1 + chr1:106012919-106148564 chr1:106012919-106148550 9;2 K alternative_donor CUFF.104 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 84;64 N jcn_only_AD CUFF.111 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 167;18 K intron_retention CUFF.110 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 chr1:153927349-153927465;chr1:153927541-153927642 115;62 N jcn_only_AA CUFF.44 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 chr1:32542165-32557272 chr1:32557272-32557273 73;47 K intron_retention CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 343;103 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 4;96 K intron_retention CUFF.153 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 35;37 K alternative_last_exon CUFF.6 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512210 chr1:10502322-10502866 105;253 K jcn_only_AA CUFF.188 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 115;55 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 179;1031 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 20;39 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 904;213 K alternative_first_exon CUFF.104 chr1 - chr1:151158427-151167754 chr1:151158427-151162599,chr1:151158427-151162480 chr1:151167755-151167886 chr1:151162600-151162664 23;110 K intron_retention CUFF.56 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 247;76 K cassette CUFF.166 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 63;1128 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 12;36 N alternative_acceptor CUFF.49 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 77;217 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 113;161 K alternative_acceptor CUFF.135,CUFF.144 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 15;218 N alternative_acceptor chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 54;0 N jcn_only_AA CUFF.180,CUFF.6 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 959;510 N alternative_last_exon CUFF.28 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226591-26227578 21;488 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 39;151 K cassette CUFF.155 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 6;45 N jcn_only_AD chr1 - chr1:156453223-156470277 chr1:156453223-156469223 54;23 K intron_retention CUFF.118 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 chr1:158589012-158589124 4;16 N alternative_donor CUFF.106 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 10;6 K cassette CUFF.51 chr1 + chr1:47139892-47152344 chr1:47139892-47147852;chr1:47147937-47152344 chr1:47147853-47147936 236;18 N alternative_donor CUFF.180 chr1 + chr1:245245464-245246743 chr1:245245465-245246743 chr1:245245464-245245464 chr1:245245463-245245464 2;680 N cassette CUFF.135 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 5;272 N coord_cassette CUFF.166 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 18;94 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 65;12 K alternative_first_exon CUFF.163,CUFF.49 chr1 - chr1:213186761-213188954 chr1:213186761-213188567 chr1:213188955-213189263 chr1:213188568-213188883 5;74 K intron_retention CUFF.116 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 64;7 N jcn_only_AD CUFF.188 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 9;9 K alternative_acceptor CUFF.110 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 chr1:153925281-153925310;chr1:153925047-153925111 51;56 N jcn_only_AA CUFF.44 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 316;11 K intron_retention CUFF.134 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 56;13 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 19;95 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076179;chr1:11076312-11076900;chr1:11077065-11078789 chr1:11076180-11076311;chr1:11076901-11077064 13;33 K cassette CUFF.68 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 329;55 N jcn_only_AA CUFF.104 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 166;14 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 38;47 N alternative_acceptor CUFF.54 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 50;5 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 41;15 N alternative_last_exon chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230338883-230339036 chr1:230227336-230227780 18;264 K intron_retention CUFF.118 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 chr1:158589960-158590256 3;61 N jcn_only_AD CUFF.142,CUFF.147 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 71;13 K intron_retention CUFF.116 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 49;5 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930771 chr1:153927541-153927642 83;105 K cassette CUFF.16 chr1 + chr1:15753781-15755088 chr1:15753781-15754393;chr1:15754506-15755088 chr1:15754394-15754505 18;25 N jcn_only_AD CUFF.4 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 291;63 N alternative_acceptor CUFF.2 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 136;35 K intron_retention CUFF.32 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 105;14 N cassette CUFF.84 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 29;658 N jcn_only_AD CUFF.135 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 191;32 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 89;483 K intron_retention CUFF.180 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 18;118 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 44;15 K jcn_only_AA CUFF.48 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 48;60 N alternative_donor CUFF.4 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 354;3 K alternative_first_exon CUFF.6 chr1 + chr1:10490626-10493898 chr1:10491459-10493898 chr1:10490061-10490625 chr1:10490851-10491458 62;99 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 20;27 K alternative_first_exon CUFF.110 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 chr1:153925742-153925845 80;103 N jcn_only_AD CUFF.41 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 354;15 N jcn_only_AD CUFF.135 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 238;67 K intron_retention CUFF.104 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 173;17 N jcn_only_AA CUFF.116 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 64;18 K intron_retention CUFF.27 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 184;151 N alternative_donor chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174128025-174129054 chr1:174129054-174129055 30;132 K cassette CUFF.110 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 chr1:153920934-153921120;chr1:153921591-153921860 153;65 K jcn_only_AA CUFF.45 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 79;106 K alternative_first_exon CUFF.171 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401076 chr1:224397943-224398212 315;144 K cassette CUFF.57 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 846;121 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26230304 chr1:26219005-26219098 17;14 K intron_retention CUFF.97 chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 30;49 K alternative_last_exon CUFF.84 chr1 - chr1:106143382-106146784;chr1:106132408-106146784 chr1:106146181-106146784 chr1:106132302-106132407 chr1:106144755-106146180 107;385 N mutually_exclusive CUFF.44 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 41;28 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 167;28 N alternative_acceptor CUFF.4 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 413;3 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 57;290 N cassette CUFF.86 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 5;238 N jcn_only_AA CUFF.166 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 162;49 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 54;2 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 205;69 N jcn_only_AD CUFF.116,CUFF.28 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 17;6 K intron_retention CUFF.110 chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 chr1:153925047-153925126;chr1:153925281-153925310 105;16 K cassette CUFF.151 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 21;59 K intron_retention CUFF.166 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 63;120 N alternative_donor CUFF.54,CUFF.88 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 50;9 N cassette CUFF.180 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 99;1086 K alternative_last_exon CUFF.153 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877291 214;50 N alternative_acceptor CUFF.4 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 389;8 N jcn_only_AA chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 54;30 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 14;19 N alternative_donor CUFF.49 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 26;44 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 150;211 K intron_retention chr1 - chr1:114423763-114424394 chr1:114423762-114423763;chr1:114424394-114424395 128;6 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 4;7 K alternative_first_exon CUFF.110,CUFF.159 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207995549-207996083 chr1:207992307-207992491 20;29 N cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 13;418 K cassette CUFF.163 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 90;140 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 55;4 N jcn_only_AD CUFF.188 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 127;16 K intron_retention CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 113;142 K jcn_only_AA CUFF.18 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 144;11 N jcn_only_AA CUFF.132 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 343;19 K cassette CUFF.68 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 53;65 N alternative_donor CUFF.135 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 187;16 N coord_cassette CUFF.135 chr1 + chr1:167353189-167365522 chr1:167353189-167356417;chr1:167356485-167358824;chr1:167358999-167365522 chr1:167356418-167356484;chr1:167358825-167358998 43;62 N alternative_donor CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 596;49 K cassette CUFF.72 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 263;221 N alternative_donor CUFF.57 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 130;7 K jcn_only_AA CUFF.122,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 113;214 N jcn_only_AA CUFF.114 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 5;39 N cassette CUFF.135 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 119;121 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 65;4 N cassette CUFF.44 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 57;225 N jcn_only_AD CUFF.49 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 26;30 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 152;38 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 10;275 N jcn_only_AD CUFF.69 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 166;3 K jcn_only_AD CUFF.86 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 78;487 K cassette CUFF.27 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 33;160 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 241;120 K cassette CUFF.33 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 64;90 K intron_retention CUFF.34 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 111;421 N jcn_only_AD CUFF.44 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 316;14 K cassette CUFF.174 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 26;74 K jcn_only_AA CUFF.86 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 69;596 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 331;30 N jcn_only_AA CUFF.4 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 413;50 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 125;19 K alternative_first_exon CUFF.118,CUFF.13 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158582607-158582751 chr1:158581576-158581911 chr1:158580496-158581179 75;183 K alternative_first_exon CUFF.116 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933651 51;21 K jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 54;263 N cassette CUFF.110 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 chr1:153921591-153921860;chr1:153924494-153924738 47;224 N alternative_donor CUFF.116,CUFF.28 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 17;2 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 65;45 N alternative_acceptor CUFF.68,CUFF.86 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 274;23 N jcn_only_AD CUFF.114 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 16;51 N intron_retention CUFF.116 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 38;8 N jcn_only_AD chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 41;31 K cassette CUFF.114 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 41;45 K intron_retention CUFF.86 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 596;21 K alternative_donor CUFF.34 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 21;309 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 522;50 K intron_retention CUFF.9 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 214;74 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 195;79 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 85;0 N jcn_only_AA chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 36;360 K cassette CUFF.1119 chr9 - chr9:15214248-15225914 chr9:15214248-15224357;chr9:15224504-15225914 chr9:15224358-15224503 349;93 N cassette CUFF.1136 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 9;9 K cassette CUFF.1163 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 21;12 N alternative_donor CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 7;7 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 27;895 K intron_retention CUFF.1200 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 chr9:139744465-139744589 412;37 K alternative_last_exon CUFF.1178 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125636065-125637647 148;226 K alternative_last_exon CUFF.1157 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000273-100000367 300;21 N alternative_donor CUFF.1136 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 30;8 K alternative_last_exon CUFF.1185 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017544 chr9:131016288-131016441 385;36 K jcn_only_AD CUFF.1148 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 7;7 N jcn_only_AD CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 48;191 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 13;394 K cassette CUFF.1170 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 77;150 K alternative_donor CUFF.1168 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 76;99 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667713 chr9:125655188-125655305 15;164 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 290;729 K intron_retention CUFF.1186 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 286;26 N cassette CUFF.1188 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 82;469 N cassette CUFF.1185 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 195;233 N coord_cassette CUFF.1186 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 47;512 K cassette CUFF.1188 chr9 + chr9:133320383-133327610 chr9:133320383-133325658;chr9:133325721-133327610 chr9:133325659-133325720 49;453 N alternative_donor chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 20;79 N intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 1787;53 K intron_retention CUFF.1186 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 1170;169 N alternative_donor CUFF.1175 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125027218-125028059 chr9:125027217-125027218 chr9:125033232-125033354;chr9:125026792-125027217 404;20 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 1062;318 N jcn_only_AA CUFF.1192 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 14;7 N alternative_donor CUFF.1178 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 37;132 N alternative_donor CUFF.1178,CUFF.1192 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 29;4 N jcn_only_AD CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131009403-131009653 chr9:131008783-131009402 chr9:131008782-131008783 451;5 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 79;33 N alternative_donor CUFF.1188 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 704;125 K cassette CUFF.1152 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 19;117 K cassette CUFF.1175 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 chr9:125033232-125033354;chr9:125047448-125047566 19;803 N jcn_only_AD CUFF.1159 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 148;6 K alternative_last_exon CUFF.1130 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35078100-35078340 32;376 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 978;41 N intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 28;282 K intron_retention CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 246;117 N alternative_acceptor CUFF.1170 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 14;181 N cassette CUFF.1139 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 29;11 K cassette CUFF.1148 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 47;18 K intron_retention CUFF.1185 chr9 + chr9:131010215-131010861 chr9:131010214-131010215;chr9:131010861-131010862 359;72 N jcn_only_AA CUFF.1185 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 141;36 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 19;240 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 675;25 N jcn_only_AD CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 47;14 N cassette CUFF.1186 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 61;513 N intron_retention CUFF.1186 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 41;47 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 267;25 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 381;28 K intron_retention CUFF.1118 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 102;3 N jcn_only_AD CUFF.1178 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 37;354 K alternative_donor CUFF.1170,CUFF.1186 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 171;67 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 174;15 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 1964;27 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 447;109 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 239;116 N jcn_only_AA chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 49;57 K jcn_only_AD CUFF.1168 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 76;108 K intron_retention CUFF.1186 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 729;56 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 911;27 K cassette CUFF.1131 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 11;143 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 81;31 N cassette CUFF.1192 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 11;16 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 268;141 N jcn_only_AD CUFF.1148 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 207;14 K jcn_only_AA CUFF.1178 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 60;176 N jcn_only_AA CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 451;71 K intron_retention CUFF.1129 chr9 + chr9:34990810-34993196 chr9:34990809-34990810;chr9:34993196-34993197 41;27 K jcn_only_AD CUFF.1170,CUFF.1186 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 171;63 K mutually_exclusive CUFF.1129 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 31;137 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 169;240 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 1986;5 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 770;249 K intron_retention CUFF.1129 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 169;30 K jcn_only_AA CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 261;124 N jcn_only_AA CUFF.1186 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 168;1815 K intron_retention CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 261;114 N cassette CUFF.1136 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 35;26 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 1846;145 N alternative_acceptor CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 7;7 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 257;2 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 54;76 N jcn_only_AD CUFF.1131 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 9;26 N alternative_acceptor CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 11;1 N intron_retention CUFF.1187 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 31;107 N jcn_only_AA CUFF.1119 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 35;332 K intron_retention CUFF.1128 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 21;51 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 318;620 K alternative_last_exon CUFF.1170 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514246-123515589 chr9:123526445-123527125 64;120 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 119;70 N alternative_acceptor CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 48;8 N alternative_acceptor CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 246;12 K alternative_acceptor CUFF.1166 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 162;13 N alternative_acceptor CUFF.1185 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 141;35 N jcn_only_AA CUFF.1119 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 341;26 N intron_retention chr9 - chr9:130948009-130952997 chr9:130948008-130948009;chr9:130952997-130952998 2;325 K alternative_last_exon CUFF.1177 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906340-124906657 278;29 K cassette CUFF.1166 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 170;47 N alternative_acceptor chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 49;3 K alternative_last_exon CUFF.1166 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 132;17 N alternative_donor CUFF.1185 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 411;28 K jcn_only_AA CUFF.1166 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 188;55 K cassette CUFF.1200 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 chr9:139744465-139744589;chr9:139745207-139745335 627;397 N mutually_exclusive CUFF.1186 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 29;13 N intron_retention CUFF.1200 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 chr9:139744465-139744589 32;38 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 204;1787 N jcn_only_AA CUFF.1178 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 15;170 K intron_retention CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 73;97 N jcn_only_AD chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 20;138 N alternative_donor CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 47;54 N alternative_donor CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131009403-131009653 chr9:131008783-131009402 chr9:131008782-131008783 451;12 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 85;104 K alternative_last_exon CUFF.1136 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43822518-43822779 chr9:43819610-43821366 33;85 K jcn_only_AA CUFF.1166 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 162;27 N alternative_acceptor CUFF.1185 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 451;30 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 64;48 N jcn_only_AA CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 48;118 N jcn_only_AA CUFF.1185 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 167;227 K intron_retention CUFF.1178 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 142;80 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 647;291 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 221;71 N jcn_only_AA CUFF.1170 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 14;171 N jcn_only_AD CUFF.1178,CUFF.1192 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 29;10 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 130;137 N jcn_only_AA CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 7;24 N alternative_donor CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 261;22 K jcn_only_AD CUFF.1130 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 38;169 K intron_retention CUFF.1187 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 18;113 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 28;31 K cassette CUFF.1193 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 6;20 N cassette CUFF.1159 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 3;3 K intron_retention CUFF.1130 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 243;1098 N intron_retention chr9 - chr9:130948015-130953003 chr9:130948014-130948015;chr9:130953003-130953004 2;315 K mutually_exclusive CUFF.1160 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 34;23 N alternative_acceptor CUFF.1192 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 14;0 N intron_retention chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 14;161 N intron_retention chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 209;49 K intron_retention CUFF.1175 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 chr9:125047448-125047566 155;57 K intron_retention CUFF.1186 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 249;134 K alternative_last_exon CUFF.1152 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592055 66;78 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 402;5 N alternative_acceptor CUFF.1185 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 167;29 K alternative_last_exon CUFF.1129,CUFF.1152 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600587 17;38 N jcn_only_AD CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 261;31 K cassette CUFF.1166 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 8;194 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 242;17 N cassette CUFF.1131 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 45;180 N alternative_donor CUFF.1159 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 148;4 N jcn_only_AD CUFF.1170 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 9;516 N cassette CUFF.1131 chr9 + chr9:35259048-35295692 chr9:35259048-35291065;chr9:35291102-35295692 chr9:35291066-35291101 16;12 N alternative_acceptor chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 36;306 K mutually_exclusive CUFF.1129 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990495,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990496-34990608 31;103 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 340;15 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 274;426 N alternative_donor CUFF.1131 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 9;0 N jcn_only_AD CUFF.1136 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 30;9 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 200;92 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 35;24 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 24;394 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 451;249 K intron_retention CUFF.1140 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 26;40 K jcn_only_AD CUFF.1119,CUFF.1158 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 18;30 K intron_retention CUFF.1130 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 89;25 N alternative_donor CUFF.1136 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 48;13 N jcn_only_AA CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 482;34 N alternative_acceptor CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 482;24 N cassette CUFF.1175 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 chr9:125047448-125047566 66;131 K alternative_acceptor CUFF.1187 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 261;154 N cassette CUFF.1186 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 90;634 K intron_retention CUFF.1188 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 49;34 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 86;415 N jcn_only_AA chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 chr9:125033232-125033354 22;19 K intron_retention CUFF.1130 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 141;457 N jcn_only_AA CUFF.1119 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 357;9 K intron_retention CUFF.1175 chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 45;51 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 132;223 N cassette CUFF.1186 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 14;1019 K alternative_first_exon CUFF.1119 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15267912-15267946 chr9:15232230-15232565 280;126 N jcn_only_AA CUFF.1119 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 246;12 K alternative_first_exon CUFF.1188 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351721-133351776 564;17 N jcn_only_AD CUFF.1188 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 704;263 K intron_retention CUFF.1170 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 79;100 K alternative_acceptor CUFF.1166 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 188;50 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 102;28 N coord_cassette CUFF.1148 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 13;9 K cassette CUFF.1194 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 53;74 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 399;8 N jcn_only_AD CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 482;32 K intron_retention CUFF.1187 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 124;13 K alternative_first_exon CUFF.1144 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161598 chr9:71160845-71161126 27;32 N cassette CUFF.1198 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 64;56 K cassette CUFF.1166 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 203;7 N jcn_only_AD CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 11;12 K intron_retention CUFF.1198 chr9 + chr9:139794973-139802521 chr9:139794972-139794973;chr9:139802521-139802522 394;5 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 14;48 N jcn_only_AD CUFF.1185 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 411;77 K intron_retention CUFF.1178 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 91;54 K cassette CUFF.1160 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 72;8 K intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 76;135 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 103;27 N jcn_only_AD CUFF.1136 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 7;16 K jcn_only_AA CUFF.1192 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 37;355 N jcn_only_AD chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 1964;27 K intron_retention CUFF.1136 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 13;43 K jcn_only_AD CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 73;79 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 403;15 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 5;42 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 188;104 N cassette CUFF.1175 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 chr9:125047448-125047566;chr9:125054028-125054119 447;94 K alternative_acceptor CUFF.1178 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 60;82 N jcn_only_AA CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 11;11 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 404;22 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 130;31 K cassette CUFF.1129 chr9 + chr9:34989829-34993196 chr9:34989829-34990495;chr9:34990609-34993196 chr9:34990496-34990608 130;103 K alternative_donor CUFF.1170 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 73;81 K alternative_last_exon CUFF.1148 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506210-86506416 chr9:86513565-86513863 18;47 N alternative_donor CUFF.1166 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 11;1 K cassette CUFF.1119 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 133;287 N cassette CUFF.1175 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 chr9:125054028-125054119;chr9:125084819-125085779 69;506 N alternative_acceptor CUFF.1186 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 168;880 N alternative_donor CUFF.1186 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 482;8 K cassette CUFF.1175 chr9 + chr9:125027218-125033142 chr9:125027218-125027740;chr9:125027825-125033142 chr9:125027741-125027824 chr9:125026792-125027217 360;51 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 55;4 N coord_cassette CUFF.1136 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 21;19 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 410;9 K intron_retention CUFF.1129 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 47;32 N alternative_acceptor chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 chr9:125033232-125033354 22;158 K intron_retention CUFF.1200 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 chr9:139743084-139743232;chr9:139743563-139744042 112;156 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 26;360 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 627;7 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 285;13 N alternative_first_exon CUFF.1098 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542531-118543066 29;61 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 29;62 K jcn_only_AA CUFF.1060,CUFF.1089 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 99;41 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 16;36 K alternative_donor CUFF.1082 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 227;137 K cassette CUFF.1082 chr8 - chr8:80963864-80965516 chr8:80963864-80964840;chr8:80964911-80965516 chr8:80964841-80964910 687;250 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 44;35 K alternative_last_exon CUFF.1060 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27528460 10;7 N cassette CUFF.1082 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 16;392 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 1287;3 K intron_retention CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 118;31 N alternative_acceptor CUFF.1074,CUFF.1102 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 47;6 N jcn_only_AD chr8 - chr8:99055004-99057574;chr8:99055004-99057054 chr8:99055004-99057170 71;150 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 16;44 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 32;0 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 7;18 N mutually_exclusive CUFF.1082 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 71;12 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 4;28 K intron_retention CUFF.1056 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 148;23 N jcn_only_AA CUFF.1071 chr8 - chr8:56663717-56675193 chr8:56668971-56675193 chr8:56663717-56668970 chr8:56663716-56663717 84;384 N jcn_only_AA CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 115;25 K intron_retention CUFF.1059 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 203;46 K alternative_acceptor CUFF.1060,CUFF.1089 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 99;19 N intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 28;35 K jcn_only_AA CUFF.1056 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 46;93 N jcn_only_AA CUFF.1059 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 47;70 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 1457;261 N alternative_last_exon chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74895019 chr8:74891314-74891406 4;226 N jcn_only_AD CUFF.1064 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10587706-10683661 chr8:10683661-10683662 12;138 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 44;737 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 32;0 K cassette CUFF.1104 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 21;203 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 195;103 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 1575;144 K cassette CUFF.1101 chr8 - chr8:120807872-120809901 chr8:120807872-120809229;chr8:120809344-120809901 chr8:120809230-120809343 354;3 N cassette CUFF.1071 chr8 - chr8:56668971-56676494 chr8:56668971-56675193;chr8:56675588-56676494 chr8:56675194-56675587 53;692 N jcn_only_AD CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 104;34 K jcn_only_AD CUFF.1082,CUFF.1104 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 38;177 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 70;111 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357364 chr8:144356973-144357147 424;44 N jcn_only_AD CUFF.1104 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 71;46 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 84;359 K cassette CUFF.1065 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 126;19 N alternative_donor CUFF.1116 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 5;2 K coord_cassette CUFF.1092 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 22;19 N cassette CUFF.1092 chr8 + chr8:106370866-106431371 chr8:106370866-106427102;chr8:106427235-106431371 chr8:106427103-106427234 13;51 N alternative_acceptor CUFF.1047 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;8 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 266;31 N alternative_acceptor chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 27;13 K cassette CUFF.1101 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 11;51 N alternative_donor CUFF.1083 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 135;18 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 1284;6 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 226;293 N jcn_only_AA CUFF.1111 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 293;40 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 91;0 N jcn_only_AD chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 144;96 K jcn_only_AD CUFF.1082 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 227;258 N coord_cassette CUFF.1094 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 46;91 N intron_retention chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 27;266 N cassette CUFF.1094 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 54;71 N jcn_only_AA chr8 - chr8:56663717-56668802 chr8:56664106-56668802 502;168 N jcn_only_AD CUFF.1077 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 206;7 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 332;35 N alternative_donor CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 115;0 K intron_retention chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 26;60 N alternative_acceptor CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 115;0 K intron_retention CUFF.1056 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 161;18 N jcn_only_AD CUFF.1111 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 264;24 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 32;0 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 112;97 K alternative_first_exon CUFF.1064 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648831 chr8:30643948-30644093 544;374 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 95;193 N alternative_donor CUFF.1077 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 291;23 N alternative_donor CUFF.1094 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 355;3 N alternative_donor CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 104;7 N alternative_acceptor CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 477;23 N jcn_only_AD CUFF.1092 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 82;4 N alternative_last_exon CUFF.1112 chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552501 chr8:118542962-118543066 10;19 K alternative_donor CUFF.1082,CUFF.1104 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 38;145 K intron_retention CUFF.1090 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 715;30 N alternative_donor chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 144;13 N alternative_acceptor CUFF.1090 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 44;342 K jcn_only_AD CUFF.1054 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 26;110 K cassette CUFF.1085 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 9;97 K alternative_first_exon CUFF.1065 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008916 chr8:38006594-38006724 45;42 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 128;53 N jcn_only_AA CUFF.1074,CUFF.1102 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 47;65 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 158;150 N jcn_only_AA chr8 + chr8:144356973-144358066;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358172 442;26 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 212;422 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 376;143 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 199;29 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 159;123 N alternative_acceptor CUFF.1074,CUFF.1116 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 17;4 K intron_retention CUFF.1065 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 44;20 K jcn_only_AA CUFF.1074 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 73;43 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 120;279 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 467;293 K jcn_only_AA CUFF.1061 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 90;38 N cassette CUFF.1059 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 27;105 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 16;143 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 28;4 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 1675;44 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 22;3 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 140;337 K alternative_last_exon CUFF.1112 chr8 + chr8:144351691-144356889;chr8:144351691-144356873 chr8:144351691-144354565 chr8:144356874-144357816 chr8:144354566-144354644 645;68 K alternative_acceptor CUFF.1074 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 73;23 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 84;283 K alternative_acceptor CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 118;38 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 606;28 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 155;293 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 576;184 K alternative_acceptor CUFF.1056 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 46;50 N cassette CUFF.1071 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 112;154 K alternative_first_exon CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888392-74888726 383;468 N intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 111;440 N jcn_only_AD CUFF.1073 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69224379-69243541 chr8:69243541-69243542 39;21 N alternative_acceptor CUFF.1071 chr8 - chr8:56663717-56675193 chr8:56668971-56675193 chr8:56663717-56668970 chr8:56663716-56663717 84;55 K jcn_only_AA CUFF.1065 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 118;44 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 477;283 N intron_retention CUFF.1082 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 46;51 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 44;397 N jcn_only_AA CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 104;19 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 88;3 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 564;69 N jcn_only_AD CUFF.1094 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 30;10 N jcn_only_AD CUFF.1092 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 115;3 N jcn_only_AD CUFF.1101 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;38 N cassette CUFF.1082 chr8 - chr8:80956444-80963761 chr8:80956444-80962580;chr8:80962707-80963761 chr8:80962581-80962706 14;359 K intron_retention CUFF.1065 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 25;28 K alternative_last_exon CUFF.1094 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107691438-107691520 chr8:107617010-107617438 199;209 K intron_retention CUFF.1064 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 90;136 N cassette CUFF.1078 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 81;220 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 118;111 N jcn_only_AA CUFF.1074,CUFF.1116 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 17;25 N jcn_only_AA CUFF.1090 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 44;715 K jcn_only_AD CUFF.1114 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 39;120 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 140;88 N intron_retention CUFF.1071 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 47;52 K alternative_first_exon CUFF.1094 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726051-107726213 chr8:107738243-107738485 44;85 K alternative_last_exon CUFF.1078 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401107 chr8:75276220-75276525 122;408 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 605;28 N alternative_donor CUFF.1064 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10587706-10683661 chr8:10683661-10683662 12;1 N cassette CUFF.1082 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 474;266 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 91;0 N jcn_only_AA CUFF.1077 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 477;21 N cassette CUFF.1056 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 3;162 K intron_retention CUFF.1065 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 22;34 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 75;118 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 514;418 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 1279;11 K intron_retention CUFF.1082 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 429;21 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 210;88 N intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 288;245 N alternative_acceptor CUFF.1094 chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 29;139 N jcn_only_AA CUFF.1094 chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 29;172 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 737;26 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 436;83 K intron_retention CUFF.1065 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 126;30 N alternative_donor CUFF.1094 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 30;0 N jcn_only_AD chr8 - chr8:99055004-99057170;chr8:99055004-99057054 chr8:99055004-99057574 177;44 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 357;91 N intron_retention chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 48;227 N jcn_only_AD CUFF.1077 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 187;27 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 236;62 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 290;18 N jcn_only_AD CUFF.1094 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 355;59 N alternative_donor CUFF.1104 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 71;106 N alternative_donor CUFF.1101 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;2 N alternative_acceptor CUFF.1101 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 104;5 N intron_retention chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 261;59 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 384;64 N jcn_only_AA CUFF.1089,CUFF.1114 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 120;19 N jcn_only_AA chr8 - chr8:56652778-56657619 chr8:56656180-56657619 51;96 N alternative_donor CUFF.1092 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 82;0 N alternative_acceptor CUFF.1111 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 293;0 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 44;271 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 32;0 N jcn_only_AD CUFF.1083 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 135;22 K alternative_donor CUFF.1114 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 39;123 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 48;12 K jcn_only_AA CUFF.1074 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 100;328 K alternative_first_exon CUFF.1056,CUFF.1087 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085486 chr8:96084945-96085148 32;5 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 21;4 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 56;4 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 65;26 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 244;44 N jcn_only_AD CUFF.1077 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 35;179 N jcn_only_AD CUFF.1065 chr8 - chr8:99055004-99057170;chr8:99055004-99057574 chr8:99055004-99057054 194;27 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 32;0 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357147 chr8:144356973-144357364 357;111 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 590;44 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 318;49 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 20;1270 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 168;140 K jcn_only_AA CUFF.1102 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 53;41 N alternative_acceptor CUFF.1089,CUFF.1114 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 120;4 N jcn_only_AD CUFF.1116 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 5;31 N alternative_donor CUFF.1073 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69224379-69243541 chr8:69243541-69243542 39;0 N jcn_only_AA chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 27;215 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 236;51 K cassette CUFF.1114 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 166;32 K cassette CUFF.1059 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 139;84 N jcn_only_AD CUFF.1077 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 291;14 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 384;123 N intron_retention chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 44;44 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 448;1270 K intron_retention CUFF.1091 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 228;49 N cassette CUFF.1112 chr8 + chr8:144349655-144356873 chr8:144349655-144351529;chr8:144351691-144356873 chr8:144351530-144351690 26;437 K alternative_first_exon CUFF.1061,CUFF.1087 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605704 chr8:29592687-29592739 35;68 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 597;36 N cassette CUFF.1094 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 46;135 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358066 180;288 N alternative_donor CUFF.1111 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 264;7 K intron_retention CUFF.1082 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 687;73 N jcn_only_AA CUFF.1047 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;16 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 164;17 N intron_retention chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 150;314 K alternative_donor CUFF.1054 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 26;54 K alternative_first_exon CUFF.1061,CUFF.1110 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855379 70;132 K alternative_last_exon CUFF.1082 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80947834-80950470 152;513