#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 K alternative_last_exon CUFF.254 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131726-101132017 553;1245 K alternative_acceptor CUFF.250 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 86;835 K jcn_only_AA CUFF.244,CUFF.249 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 868;204 K alternative_last_exon CUFF.246 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525432-25525626 chr13:25539638-25539718 97;967 K alternative_first_exon CUFF.253 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97647081 chr13:97646552-97646800 126;252 K alternative_first_exon CUFF.253,CUFF.254 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133506 chr13:101133234-101133348 118;358 K alternative_first_exon CUFF.256 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 5459;1511 K intron_retention CUFF.256 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 18;347 K jcn_only_AA CUFF.253 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 137;80 K alternative_first_exon CUFF.244 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140530-21141395 chr13:21141809-21142136 186;184 N alternative_donor CUFF.248 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 18;517 N alternative_donor CUFF.256 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 41;72 K alternative_last_exon CUFF.244,CUFF.256 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511386 21;631 K jcn_only_AD CUFF.252,CUFF.253 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 20;91 N alternative_donor CUFF.248 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 335;197 K alternative_acceptor CUFF.253 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 137;127 N jcn_only_AD CUFF.256 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 41;38 K alternative_first_exon CUFF.252,CUFF.255 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102569074 57;112 K jcn_only_AD CUFF.244 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 868;237 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 25;86 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 33;1176 K alternative_donor CUFF.253 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 17;323 K cassette CUFF.244 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 200;1614 K jcn_only_AA CUFF.246 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 47;468 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 33;1302 N jcn_only_AD CUFF.248 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 18;368 N jcn_only_AD CUFF.254 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 21;174 K intron_retention CUFF.244 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 754;97 K alternative_donor CUFF.252,CUFF.253 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 20;356 K cassette CUFF.249 chr13 + chr13:51805516-51825603 chr13:51805516-51819447;chr13:51819556-51825603 chr13:51819448-51819555 2;69 N alternative_acceptor CUFF.245 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 24;1916 K cassette CUFF.244 chr13 + chr13:21179245-21189931 chr13:21179245-21188495;chr13:21188575-21189931 chr13:21188496-21188574 147;172 K jcn_only_AA CUFF.252 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 43;46 N jcn_only_AD CUFF.248 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 335;23 K jcn_only_AA CUFF.250 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 86;142 N jcn_only_AA CUFF.245 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 24;422 K jcn_only_AD CUFF.253 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 17;217 K cassette CUFF.244 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 36;171 K cassette CUFF.247 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 37;24 K alternative_first_exon CUFF.246 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542719 chr13:25541530-25541650 1728;47 K jcn_only_AA CUFF.249 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 34;132 K alternative_acceptor CUFF.252 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 43;1375 K jcn_only_AA CUFF.244 chr13 + chr13:21141396-21148518 chr13:21141396-21141808 75;72 K alternative_last_exon CUFF.246 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 chr13:25525432-25525626 chr13:25541530-25541591 1540;141 K intron_retention CUFF.252 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 20;40 K alternative_acceptor CUFF.195,CUFF.220 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 212;1464 N jcn_only_AD CUFF.236 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 312;26 N intron_retention CUFF.220 chr12 + chr12:53854928-53856264 chr12:53854927-53854928;chr12:53856264-53856265 chr12:53853584-53854927 1090;410 N cassette CUFF.200 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 89;1549 K cassette CUFF.240 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 224;845 K intron_retention CUFF.194 chr12 - chr12:346457-347091 chr12:346456-346457;chr12:347091-347092 892;263 K jcn_only_AA CUFF.205 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 1493;569 K jcn_only_AA CUFF.206 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 59;96 K intron_retention CUFF.207 chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 389;55 K intron_retention CUFF.229 chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 57;3428 K alternative_first_exon CUFF.238 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113623083-113623371 chr12:113621528-113621658 262;90 K cassette CUFF.223 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 98;1432 K intron_retention CUFF.229 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 48;3609 K alternative_acceptor CUFF.240 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 121;148 K intron_retention CUFF.223 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 282;748 N alternative_donor CUFF.200 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 60;171 K cassette CUFF.223 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 198;2665 K cassette CUFF.229 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019114-58019192 chr12:58019019-58019113 108;3727 N cassette CUFF.207 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611490-22612425 chr12:22611418-22611489 86;1148 K intron_retention CUFF.229 chr12 + chr12:58019248-58019364 chr12:58019247-58019248;chr12:58019364-58019365 2506;80 K cassette CUFF.218 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 89;1810 N jcn_only_AA CUFF.220 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 1670;401 N alternative_donor chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 453;67 K jcn_only_AA CUFF.239 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 83;105 N cassette CUFF.207 chr12 - chr12:22646272-22666227 chr12:22646272-22659644;chr12:22659754-22666227 chr12:22659645-22659753 65;1084 K intron_retention CUFF.233 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 223;643 K intron_retention CUFF.236 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 76;125 N jcn_only_AD CUFF.194 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 381;122 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 1493;528 K cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 155;1472 N coord_cassette CUFF.233 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 128;1126 K intron_retention CUFF.205 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 2263;459 N alternative_last_exon CUFF.236 chr12 - chr12:102796345-102813286 chr12:102811782-102813286 chr12:102789546-102796344 chr12:102811188-102811781 432;1003 N cassette CUFF.240 chr12 - chr12:120204987-120210573 chr12:120204987-120208588;chr12:120208715-120210573 chr12:120208589-120208714 7;125 N coord_cassette CUFF.233 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69229608 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 693;1696 N alternative_donor CUFF.220 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 chr12:53854799-53854970;chr12:53853056-53853187 1464;1598 N coord_cassette CUFF.233 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 120;1520 K cassette CUFF.213 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 174;158 K intron_retention CUFF.234 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 2215;114 N coord_cassette CUFF.233 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 131;879 K alternative_first_exon CUFF.220 chr12 + chr12:53846760-53848509,chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837175-53837557 chr12:53845800-53846160 chr12:53848510-53848653 264;2023 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 88;146 N cassette CUFF.208 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 52;880 K intron_retention CUFF.205 chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 1493;1207 N coord_cassette CUFF.208 chr12 - chr12:25699489-25801427 chr12:25699489-25700158;chr12:25700286-25702259;chr12:25702481-25801427 chr12:25700159-25700285;chr12:25702260-25702480 31;226 K jcn_only_AD CUFF.229 chr12 + chr12:58019102-58019192 chr12:58019114-58019192 chr12:58019102-58019113 chr12:58019101-58019102 3620;111 N cassette CUFF.233 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 523;1506 K intron_retention CUFF.229 chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 24;3289 K alternative_last_exon CUFF.208 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25652931-25656671;chr12:25629395-25656671 chr12:25562365-25656671 chr12:25652712-25652930;chr12:25628950-25629394 chr12:25562142-25562364 1090;380 N coord_cassette CUFF.210 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 57;2268 K alternative_last_exon CUFF.206 chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21279042-21279191 chr12:21245447-21245766 730;1611 K intron_retention CUFF.240 chr12 - chr12:120156667-120158282 chr12:120156666-120156667;chr12:120158282-120158283 6;188 K intron_retention CUFF.229 chr12 + chr12:58016425-58016569 chr12:58016424-58016425;chr12:58016569-58016570 159;134 K jcn_only_AA CUFF.240 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 548;507 K jcn_only_AA CUFF.240 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 121;117 N jcn_only_AA chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 452;61 K jcn_only_AD CUFF.211 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 1211;307 K cassette CUFF.233 chr12 + chr12:69207409-69210591 chr12:69207409-69209407;chr12:69209501-69210591 chr12:69209408-69209500 716;463 N jcn_only_AD CUFF.220 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 chr12:53854799-53854970;chr12:53853056-53853187 1464;116 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 37;238 K alternative_last_exon CUFF.208 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25562365-25656671;chr12:25629395-25656671 chr12:25652931-25656671 chr12:25562142-25562364;chr12:25628950-25629394 chr12:25652712-25652930 1267;203 K intron_retention CUFF.229 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 38;94 K cassette CUFF.207 chr12 - chr12:22659754-22666227 chr12:22659754-22665580;chr12:22665614-22666227 chr12:22665581-22665613 409;810 K intron_retention CUFF.208 chr12 - chr12:25679153-25679702 chr12:25679152-25679153;chr12:25679702-25679703 246;141 K cassette CUFF.217 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 150;55 N cassette CUFF.194 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 161;2447 N alternative_donor CUFF.236 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 312;88 N alternative_first_exon CUFF.209 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164623-26164754 128;822 N cassette CUFF.211 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 376;1738 N intron_retention chr12 - chr12:7088742-7090755 chr12:7088741-7088742;chr12:7090755-7090756 89;949 K alternative_last_exon CUFF.208 chr12 - chr12:25655973-25656671,chr12:25650729-25656671;chr12:25652931-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25652712-25652930;chr12:25562142-25562364 chr12:25628950-25629394 707;763 N jcn_only_AD CUFF.195 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 439;612 K intron_retention CUFF.229 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 71;2038 N intron_retention CUFF.194 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 122;3085 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 129;1008 K intron_retention CUFF.229 chr12 + chr12:58015211-58015472 chr12:58015210-58015211;chr12:58015472-58015473 234;143 N jcn_only_AD CUFF.195 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 853;198 K jcn_only_AD CUFF.235 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 872;1310 N alternative_acceptor CUFF.194 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 822;1455 K intron_retention CUFF.222 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 129;104 K jcn_only_AD CUFF.206 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 66;15 K alternative_donor CUFF.234 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 942;4353 K intron_retention CUFF.223 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 70;346 K cassette CUFF.200 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 415;237 N intron_retention chr12 - chr12:56708751-56709604 chr12:56708750-56708751;chr12:56709604-56709605 62;138 K alternative_donor CUFF.211 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 1211;795 K alternative_first_exon CUFF.216 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404232-52404346 227;818 N cassette CUFF.212 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48398019 chr12:48393702-48393908 56;545 N alternative_first_exon CUFF.236 chr12 - chr12:102796345-102811732;chr12:102796345-102813286 chr12:102796345-102809481 chr12:102811733-102811781;chr12:102813287-102813468 chr12:102809482-102809579 270;180 K cassette CUFF.218 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 528;633 K cassette CUFF.229 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 24;1687 N alternative_acceptor CUFF.213 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 4655;50 K cassette CUFF.201 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 79;143 K alternative_first_exon CUFF.233 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69201924-69202271 chr12:69202722-69202866 478;843 N jcn_only_AD CUFF.239,CUFF.240 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 264;59 K intron_retention CUFF.205 chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 569;1066 N alternative_acceptor CUFF.219 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 499;65 N cassette CUFF.207 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 86;1014 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 295;218 K cassette CUFF.234 chr12 + chr12:72083485-72090215 chr12:72083485-72084118;chr12:72084211-72090215 chr12:72084119-72084210 192;246 K jcn_only_AA CUFF.218 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 59;221 N cassette CUFF.213 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 49;1028 N alternative_acceptor chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 169;147 K jcn_only_AD CUFF.206 chr12 + chr12:21229504-21294447 chr12:21284171-21294447 58;592 N mutually_exclusive CUFF.200 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 354;1001 K intron_retention CUFF.233 chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 125;545 N coord_cassette CUFF.213 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 49;2074 N alternative_first_exon CUFF.209 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205426-26205929 206;1240 N intron_retention chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 218;1034 K alternative_donor CUFF.235 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 872;1489 N cassette CUFF.199 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 2176;906 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 chr12:53848510-53848653 64;983 K intron_retention CUFF.240 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 31;211 K cassette CUFF.233 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 461;2494 K intron_retention CUFF.240 chr12 - chr12:120151454-120152001 chr12:120151453-120151454;chr12:120152001-120152002 222;464 N jcn_only_AA CUFF.206,CUFF.220 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 1865;206 N jcn_only_AD CUFF.200 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 60;127 K alternative_acceptor CUFF.238 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 140;3546 K cassette CUFF.207 chr12 - chr12:22646272-22659644 chr12:22646272-22655672;chr12:22655739-22659644 chr12:22655673-22655738 580;776 K intron_retention CUFF.234 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 942;1116 K intron_retention CUFF.229 chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 1268;3547 N cassette CUFF.233 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 460;1486 N jcn_only_AD chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 52;19 N alternative_first_exon CUFF.209 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26205930-26208168;chr12:26164755-26208168 chr12:26148064-26208168 chr12:26205426-26205929;chr12:26164623-26164754 chr12:26147970-26148063 891;11 K coord_cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092 chr12:49349478-49349543;chr12:49349881-49350318 155;314 K jcn_only_AD CUFF.234 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 942;2215 K jcn_only_AD CUFF.243 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 40;812 N cassette CUFF.220 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 chr12:53848510-53848653;chr12:53849245-53849277 378;3666 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 52;564 N intron_retention chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 151;453 K intron_retention CUFF.240 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 961;200 K intron_retention CUFF.203 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 94;139 N jcn_only_AD CUFF.219 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 499;47 N alternative_acceptor CUFF.213 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 4590;115 K jcn_only_AA CUFF.238 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 140;3546 N jcn_only_AD CUFF.225 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1120;205 K cassette CUFF.212 chr12 - chr12:48393909-48398019 chr12:48393909-48394767;chr12:48394878-48398019 chr12:48394768-48394877 192;170 K intron_retention CUFF.223 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 1093;386 N alternative_acceptor CUFF.209,CUFF.228 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 95;123 N alternative_acceptor CUFF.209 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 251;252 K mutually_exclusive CUFF.207 chr12 - chr12:22666314-22672048,chr12:22672174-22676359 chr12:22666314-22670919,chr12:22671072-22676359 chr12:22672049-22672173 chr12:22670920-22671071 931;419 N alternative_first_exon CUFF.236 chr12 - chr12:102796345-102809481;chr12:102796345-102811732 chr12:102796345-102813286 chr12:102809482-102809579;chr12:102811733-102811781 chr12:102813287-102813468 368;82 N coord_cassette CUFF.207 chr12 - chr12:22646272-22666227 chr12:22646272-22659644;chr12:22659754-22665580;chr12:22665614-22666227 chr12:22659645-22659753;chr12:22665581-22665613 65;1358 N alternative_donor CUFF.238 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 201;1582 N coord_cassette CUFF.233 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 693;966 K cassette CUFF.233 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 178;1560 N jcn_only_AA CUFF.198,CUFF.228 chr12 + chr12:57853985-57858455 chr12:57853985-57857447 261;69 N intron_retention CUFF.240 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 59;288 K cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 155;811 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 37;470 N alternative_donor CUFF.198 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 224;243 K cassette CUFF.210 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 243;1531 K alternative_acceptor CUFF.205 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 1493;1002 K cassette CUFF.194 chr12 - chr12:332401-333157 chr12:332401-332911;chr12:333012-333157 chr12:332912-333011 394;120 N alternative_acceptor CUFF.220 chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 5225;1464 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 274;1051 N intron_retention CUFF.194 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 179;254 N jcn_only_AD CUFF.211,CUFF.225 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1256;69 N coord_cassette CUFF.212 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48394767;chr12:48394878-48398019 chr12:48393702-48393908;chr12:48394768-48394877 56;286 N jcn_only_AD CUFF.195 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 810;241 N jcn_only_AA CUFF.209 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 124;3379 N alternative_donor CUFF.194 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 381;507 K intron_retention CUFF.211 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 843;37 N coord_cassette CUFF.233 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 124;431 K alternative_donor CUFF.243 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 40;812 N alternative_donor CUFF.229 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 48;274 K coord_cassette CUFF.220 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 234;2136 K jcn_only_AA CUFF.195,CUFF.220 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 212;1279 K alternative_first_exon CUFF.195 chr12 + chr12:1726310-1740463,chr12:1684008-1740463,chr12:1640117-1740463,chr12:1738538-1740463;chr12:1639176-1740463 chr12:1739393-1740463 chr12:1639057-1639175 chr12:1739027-1739392 1742;2869 N alternative_first_exon CUFF.236 chr12 - chr12:102796345-102809481;chr12:102796345-102813286 chr12:102796345-102811732 chr12:102809482-102809579;chr12:102813287-102813468 chr12:102811733-102811781 262;188 K intron_retention CUFF.200 chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 312;682 K intron_retention CUFF.223 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 172;621 N alternative_acceptor CUFF.213 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 1768;2937 N coord_cassette CUFF.208 chr12 - chr12:25702481-25801427 chr12:25702481-25710172;chr12:25710304-25735355;chr12:25735398-25801427 chr12:25710173-25710303;chr12:25735356-25735397 128;247 K cassette CUFF.223 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 942;618 K alternative_acceptor CUFF.218 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 59;311 K alternative_first_exon CUFF.221 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393881-54394510 342;933 K alternative_acceptor CUFF.207 chr12 - chr12:22611490-22612425 chr12:22611520-22612425 chr12:22611490-22611519 chr12:22611489-22611490 369;359 K cassette CUFF.223 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 442;420 K intron_retention chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 1561;178 K cassette CUFF.213 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 174;1545 N coord_cassette CUFF.233 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 131;1057 N jcn_only_AA chr12 + chr12:57854339-57858455 chr12:57854339-57857447 76;42 N cassette CUFF.199 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 2170;4468 K cassette CUFF.204 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 12;180 N cassette CUFF.220 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 1233;1693 N cassette CUFF.208 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 31;1216 K alternative_first_exon CUFF.198 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444656-4444817 145;239 K alternative_acceptor CUFF.239 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 83;365 N jcn_only_AD CUFF.199 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 3488;36 N intron_retention chr12 - chr12:120156622-120158282 chr12:120156621-120156622;chr12:120158282-120158283 131;196 N coord_cassette CUFF.207 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22655672;chr12:22655739-22659644 chr12:22646157-22646271;chr12:22655673-22655738 64;1310 K intron_retention CUFF.220 chr12 + chr12:53854928-53856276 chr12:53854927-53854928;chr12:53856276-53856277 chr12:53853584-53854927 689;410 K alternative_first_exon CUFF.200 chr12 - chr12:7091066-7125577 chr12:7091066-7091836 chr12:7125578-7125909 chr12:7091837-7091995 1354;1932 K intron_retention CUFF.216 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 1352;1027 N jcn_only_AA CUFF.240 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 131;6 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 37;102 N coord_cassette CUFF.233 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 39;639 N intron_retention chr12 - chr12:22643153-22659644 chr12:22643152-22643153;chr12:22659644-22659645 64;69 N jcn_only_AA CUFF.209 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 251;116 N cassette CUFF.208 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 33;276 N cassette CUFF.225 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 62;2850 N cassette CUFF.205 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 190;6814 N coord_cassette CUFF.207 chr12 - chr12:22646272-22666227 chr12:22646272-22655672;chr12:22655739-22659644;chr12:22659754-22665580;chr12:22665614-22666227 chr12:22655673-22655738;chr12:22659645-22659753;chr12:22665581-22665613 65;1618 N alternative_last_exon CUFF.209,CUFF.220 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173530 310;618 N coord_cassette CUFF.233 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 39;1045 K cassette CUFF.199 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665669-4668022 chr12:4665519-4665668 54;4727 N coord_cassette CUFF.233 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 124;1158 N alternative_donor CUFF.219 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 499;53 N jcn_only_AA CUFF.220 chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 607;1464 N cassette CUFF.233 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 95;1104 N coord_cassette CUFF.233 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 56;1841 K intron_retention CUFF.240 chr12 - chr12:120172163-120172964 chr12:120172162-120172163;chr12:120172964-120172965 121;133 K jcn_only_AA CUFF.207 chr12 - chr12:22611490-22612425 chr12:22611520-22612425 chr12:22611490-22611519 chr12:22611489-22611490 369;221 K alternative_donor CUFF.229 chr12 + chr12:58019102-58019192 chr12:58019114-58019192 chr12:58019102-58019113 chr12:58019101-58019102 3620;111 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 84;525 N jcn_only_AD CUFF.229 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 48;225 K intron_retention CUFF.219 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 423;289 K intron_retention chr12 - chr12:7088742-7090165 chr12:7088741-7088742;chr12:7090165-7090166 588;198 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 408;105 K alternative_acceptor CUFF.243 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 193;1652 K intron_retention CUFF.207 chr12 - chr12:22697114-22697253 chr12:22697113-22697114;chr12:22697253-22697254 412;266 K intron_retention CUFF.220 chr12 + chr12:53849278-53849668 chr12:53849277-53849278;chr12:53849668-53849669 chr12:53849245-53849277;chr12:53849669-53849785 3691;104 K cassette CUFF.206 chr12 + chr12:21229504-21279041 chr12:21229504-21272537;chr12:21272562-21279041 chr12:21272538-21272561 76;365 N jcn_only_AA CUFF.213 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 176;625 N coord_cassette CUFF.233 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69229608 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 446;1595 K alternative_first_exon CUFF.237 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834567-111834677 99;260 K jcn_only_AA CUFF.194 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 1956;425 K jcn_only_AD CUFF.239 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 57;29 N alternative_first_exon CUFF.209 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26148064-26208168;chr12:26205930-26208168 chr12:26164755-26208168 chr12:26147970-26148063;chr12:26205426-26205929 chr12:26164623-26164754 797;105 K intron_retention CUFF.219 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 107;637 N jcn_only_AA chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 384;129 K intron_retention CUFF.220 chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 212;346 N cassette CUFF.207 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 64;1894 K coord_cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 155;1939 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 531;2420 N jcn_only_AA CUFF.208 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 98;246 N jcn_only_AD chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 453;67 N jcn_only_AD CUFF.212 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 86;7 K intron_retention CUFF.205 chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 2772;584 N alternative_acceptor CUFF.206 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 1379;610 K intron_retention CUFF.243 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 193;768 N jcn_only_AA CUFF.220 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 chr12:53853584-53854927 689;1090 N coord_cassette CUFF.233 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 128;1853 N intron_retention chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 61;1089 N jcn_only_AA CUFF.213 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 751;50 N jcn_only_AD CUFF.209 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 206;91 N intron_retention CUFF.199 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 57;1226 K intron_retention CUFF.216 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 641;283 K alternative_first_exon CUFF.207 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22631247-22631411 chr12:22630196-22630294 1066;177 K intron_retention CUFF.234 chr12 + chr12:72080101-72080439 chr12:72080100-72080101;chr12:72080439-72080440 51;97 N alternative_acceptor CUFF.220 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 4205;2484 N cassette CUFF.238 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 33;2359 K cassette CUFF.218 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 528;370 N jcn_only_AA chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 169;11 K intron_retention CUFF.229 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 1025;1017 N mutually_exclusive CUFF.220 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 2082;297 N alternative_last_exon CUFF.205 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756508 chr12:1748850-1749142 1430;2572 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 19;180 N jcn_only_AA chr12 - chr12:351921-352844 chr12:351932-352844 269;157 N alternative_donor CUFF.199 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 228;264 N cassette CUFF.233 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 1189;1432 N cassette CUFF.211 chr12 - chr12:48276558-48298737;chr12:48272899-48298737 chr12:48276558-48293619,chr12:48272899-48293619;chr12:48293742-48298737 chr12:48293620-48293741 1193;390 K intron_retention chr12 - chr12:56709027-56709604 chr12:56709026-56709027;chr12:56709604-56709605 1051;32 N cassette CUFF.233 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 509;3200 K intron_retention CUFF.223 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 902;245 N alternative_donor chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 52;2158 N coord_cassette CUFF.199 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 317;1040 K jcn_only_AA CUFF.243 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 193;446 N jcn_only_AD CUFF.198 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 224;104 K intron_retention CUFF.215 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 355;185 K intron_retention CUFF.200 chr12 - chr12:7086908-7087502 chr12:7086907-7086908;chr12:7087502-7087503 543;264 N coord_cassette CUFF.233 chr12 + chr12:69207409-69214104 chr12:69207409-69209407;chr12:69209501-69210591;chr12:69210726-69214104 chr12:69209408-69209500;chr12:69210592-69210725 309;646 N alternative_first_exon CUFF.228 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853825-57853984 chr12:57854241-57854338 82;42 K coord_cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49349981-49351092 chr12:49349478-49349543;chr12:49349881-49349980 155;234 N alternative_acceptor CUFF.240 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 131;61 N alternative_donor CUFF.240 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 94;52 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 320;1633 N jcn_only_AD CUFF.199 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 228;264 K alternative_last_exon CUFF.209 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232921 chr12:26221630-26224588 282;3422 K alternative_acceptor CUFF.194 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 1956;457 N alternative_donor CUFF.212 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 342;29 K alternative_last_exon CUFF.203 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743401 chr12:11716635-11717337 788;428 K intron_retention CUFF.218 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 530;677 K intron_retention CUFF.220 chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 1279;356 K intron_retention CUFF.194 chr12 - chr12:333283-333566 chr12:333282-333283;chr12:333566-333567 1956;59 K intron_retention CUFF.200 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 1152;1036 K alternative_acceptor CUFF.229 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 1025;3493 K cassette CUFF.229 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 108;7236 N jcn_only_AD CUFF.240 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 94;11 K cassette CUFF.229 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 1268;105 K intron_retention CUFF.235 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 1316;25 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 225;477 N alternative_acceptor chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 328;784 N alternative_first_exon CUFF.209 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26148064-26208168;chr12:26164755-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26164623-26164754 chr12:26205426-26205929 327;575 N alternative_first_exon CUFF.228 chr12 + chr12:57857875-57858455;chr12:57853985-57858455 chr12:57854339-57858455 chr12:57853825-57853984 chr12:57854241-57854338 381;76 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 48;406 K alternative_donor CUFF.229 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 71;5497 N alternative_donor CUFF.225 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1748;205 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 chr12:53853584-53854209;chr12:53854799-53854970 116;968 N cassette CUFF.213 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 38;1132 K intron_retention CUFF.197 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 174;838 K jcn_only_AD CUFF.216 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 805;641 N jcn_only_AA CUFF.194 chr12 - chr12:347177-369016 chr12:352980-369016 chr12:347177-352979 chr12:347176-347177 822;390 K coord_cassette CUFF.229 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 24;123 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 109;2330 N alternative_acceptor CUFF.213 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 3102;1603 K cassette CUFF.208 chr12 - chr12:25699489-25702259 chr12:25699489-25700158;chr12:25700286-25702259 chr12:25700159-25700285 489;113 N coord_cassette CUFF.207 chr12 - chr12:22646272-22666227 chr12:22646272-22655672;chr12:22655739-22659644;chr12:22659754-22666227 chr12:22655673-22655738;chr12:22659645-22659753 65;1093 N jcn_only_AD CUFF.212 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 342;6 N jcn_only_AA chr12 - chr12:347177-351779 chr12:347510-351779 chr12:347177-347509 chr12:347176-347177 328;189 N jcn_only_AA CUFF.209,CUFF.228 chr12 + chr12:57857575-57858485 chr12:57857575-57857781 chr12:57857782-57858485 chr12:57858485-57858486 95;46 K intron_retention CUFF.235 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 1071;537 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 263;474 N alternative_donor CUFF.209 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 206;267 K intron_retention CUFF.238 chr12 - chr12:113599188-113599697 chr12:113599187-113599188;chr12:113599697-113599698 161;4908 N alternative_donor CUFF.239,CUFF.240 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 264;61 N jcn_only_AA CUFF.206 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 1379;91 K intron_retention CUFF.235 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 39;26 N coord_cassette CUFF.213 chr12 - chr12:49334972-49350767 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767 chr12:49349478-49349543;chr12:49349881-49350133 49;260 N cassette CUFF.220 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 263;2772 K intron_retention CUFF.229 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 3579;239 K alternative_donor CUFF.214 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 494;1959 N jcn_only_AA CUFF.219 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 499;59 K mutually_exclusive CUFF.211 chr12 - chr12:48272899-48293619,chr12:48293742-48298737 chr12:48272899-48276476,chr12:48276558-48298737 chr12:48293620-48293741 chr12:48276477-48276557 64;1480 N coord_cassette CUFF.211 chr12 - chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619;chr12:48293742-48298737 chr12:48276477-48276557;chr12:48293620-48293741 350;430 K intron_retention CUFF.220 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 chr12:53849131-53849154;chr12:53849245-53849277 1208;801 N alternative_acceptor CUFF.220 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 chr12:53853584-53854927 689;1104 N coord_cassette CUFF.233 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 446;865 N cassette CUFF.207 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 143;765 N alternative_donor CUFF.199 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 3488;171 K jcn_only_AA CUFF.229 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 1025;2506 N alternative_donor CUFF.211,CUFF.225 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1838;115 K alternative_last_exon CUFF.239 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633148-113633694 chr12:113637755-113638618 347;1258 K intron_retention CUFF.200 chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 302;897 N jcn_only_AD chr12 - chr12:120158391-120287977 chr12:120158391-120159113 352;160 N jcn_only_AD CUFF.238 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 201;328 N alternative_acceptor CUFF.206,CUFF.220 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 chr12:53853056-53853187;chr12:53854799-53854970 3948;2741 N cassette CUFF.220 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 378;3503 K coord_cassette CUFF.213 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 155;2350 N cassette CUFF.205 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 26;3569 K cassette CUFF.235 chr12 - chr12:77254194-77256955 chr12:77254194-77256589;chr12:77256740-77256955 chr12:77256590-77256739 1316;112 N jcn_only_AA CUFF.213 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 703;98 K alternative_acceptor CUFF.240 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 548;507 K intron_retention chr12 + chr12:69214155-69218142 chr12:69214154-69214155;chr12:69218142-69218143 862;67 K jcn_only_AD CUFF.214 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 494;364 N cassette CUFF.219 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 92;1445 K intron_retention CUFF.216 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 805;472 N alternative_acceptor CUFF.209 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 124;9256 K intron_retention CUFF.194 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 822;365 K jcn_only_AD CUFF.229 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 71;3579 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173530 263;3516 N coord_cassette CUFF.233 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 128;906 K intron_retention CUFF.229 chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 157;3506 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 205;650 N alternative_acceptor CUFF.223 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 151;586 K alternative_first_exon CUFF.205 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349562-13349806 chr12:13352370-13352467 8794;37 K intron_retention CUFF.223 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 278;934 K intron_retention CUFF.202 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 512;291 N cassette CUFF.233 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 1170;3974 N coord_cassette CUFF.233 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 131;330 K alternative_donor CUFF.216 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 805;862 N alternative_donor CUFF.212 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 86;10 K alternative_last_exon CUFF.220 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53873190-53875044 chr12:53868653-53869905 14050;5374 N jcn_only_AA CUFF.223 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 151;172 N jcn_only_AA CUFF.213 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 773;28 K intron_retention CUFF.223 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 1180;367 K intron_retention CUFF.229 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 164;3525 N jcn_only_AA CUFF.194 chr12 - chr12:332401-344255 chr12:336835-344255 58;319 K cassette CUFF.186 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 398;2003 K jcn_only_AD CUFF.146 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 422;157 N intron_retention chr11 + chr11:118403177-118404134 chr11:118403176-118403177;chr11:118404134-118404135 301;690 N alternative_donor CUFF.160 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 344;4395 N jcn_only_AD CUFF.174 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 242;145 K intron_retention CUFF.136 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 164;708 K intron_retention CUFF.142 chr11 - chr11:6637735-6637891 chr11:6637734-6637735;chr11:6637891-6637892 414;749 N alternative_acceptor CUFF.157 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 250;5222 K intron_retention CUFF.146 chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 143;302 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 59;591 N jcn_only_AA CUFF.134 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 992;78 K mutually_exclusive CUFF.137 chr11 + chr11:3239790-3241456,chr11:3241590-3242799 chr11:3239790-3240929,chr11:3241019-3242799 chr11:3241457-3241589 chr11:3240930-3241018 226;108 K alternative_first_exon CUFF.179 chr11 + chr11:117072658-117073717;chr11:117070149-117073717,chr11:117070546-117073717 chr11:117071059-117073717 chr11:117070037-117070148 chr11:117070960-117071058 487;64 K jcn_only_AD CUFF.132 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 638;127 N jcn_only_AD CUFF.157 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 250;55 K jcn_only_AD CUFF.179 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 42;374 K intron_retention CUFF.157 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 801;2433 N jcn_only_AD CUFF.140 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 206;973 K intron_retention CUFF.175 chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 386;85 N alternative_donor CUFF.146,CUFF.171 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 1697;126 K alternative_first_exon CUFF.175 chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104915918-104916016;chr11:104972135-104972250 chr11:104916018-104916042 94;386 N alternative_acceptor CUFF.175 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 386;198 K jcn_only_AA CUFF.157 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 668;518 K alternative_first_exon CUFF.140 chr11 - chr11:5701469-5705215;chr11:5701469-5958630 chr11:5701469-5706245,chr11:5701469-5706097 chr11:5958631-5958735 chr11:5706246-5706624 150;376 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 3416;28 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 33;458 N intron_retention chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 80;1097 K intron_retention CUFF.182 chr11 - chr11:118923542-118924832 chr11:118923541-118923542;chr11:118924832-118924833 221;109 K jcn_only_AD CUFF.153 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 2508;235 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 136;1476 N cassette CUFF.143 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 50;2055 K intron_retention CUFF.132 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 375;1023 N jcn_only_AD CUFF.171 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 329;603 N mutually_exclusive CUFF.130 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 402;1351 K cassette CUFF.130 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 139;3482 K jcn_only_AA CUFF.149,CUFF.153 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 368;1455 K intron_retention CUFF.160 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 3286;334 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 417;448 N jcn_only_AD CUFF.188 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 7725;192 N intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 991;3579 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 81;60 K intron_retention CUFF.180 chr11 + chr11:118403923-118404571 chr11:118403922-118403923;chr11:118404571-118404572 1175;1069 K alternative_last_exon CUFF.167 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 31;301 N jcn_only_AA CUFF.190 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 870;24 N alternative_acceptor CUFF.188 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 2211;8220 K intron_retention CUFF.182 chr11 - chr11:118923142-118923348 chr11:118923141-118923142;chr11:118923348-118923349 248;142 K alternative_first_exon CUFF.130,CUFF.175 chr11 - chr11:104915386-104916017;chr11:104915386-104915917 chr11:104915386-104972134 chr11:104916018-104916042;chr11:104915918-104916016 chr11:104972135-104972250 419;61 K alternative_donor CUFF.140 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 202;1429 K intron_retention CUFF.155 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 501;109 K intron_retention CUFF.131 chr11 - chr11:556376-556491 chr11:556375-556376;chr11:556491-556492 23;186 K cassette CUFF.175 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 344;458 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 2245;203 K intron_retention CUFF.164 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 1294;1548 N alternative_acceptor CUFF.186 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1168;265 N jcn_only_AA CUFF.180 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 1658;163 K intron_retention CUFF.179 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 42;440 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 207;43 K intron_retention CUFF.179 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 698;97 N cassette CUFF.149 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 32;1058 K alternative_acceptor CUFF.152 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 89;42 K mutually_exclusive CUFF.177 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 317;1005 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 26;52 N alternative_donor CUFF.153 chr11 + chr11:61594904-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61584169-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 8228;2378 K intron_retention CUFF.182 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 403;508 K alternative_last_exon CUFF.174 chr11 - chr11:102933144-102936997 chr11:102935107-102936997 chr11:102932706-102933143 chr11:102934992-102935106 1487;758 N cassette CUFF.182 chr11 - chr11:118926880-118927785;chr11:118926880-118927730 chr11:118926880-118926990;chr11:118927130-118927730,chr11:118927130-118927785 chr11:118926991-118927129 614;4842 N jcn_only_AD CUFF.133,CUFF.174 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 296;91 N alternative_first_exon CUFF.132 chr11 + chr11:827712-828259;chr11:827319-828259,chr11:827460-828259 chr11:826267-828259 chr11:827558-827711;chr11:827206-827318 chr11:826053-826266 905;168 K intron_retention CUFF.155 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 157;59 N alternative_donor chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 2672;1148 N alternative_first_exon CUFF.157 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999007-63999436 chr11:64000176-64000337 464;3112 N alternative_first_exon CUFF.132 chr11 + chr11:826267-828259;chr11:827319-828259,chr11:827460-828259 chr11:827712-828259 chr11:826053-826266;chr11:827206-827318 chr11:827558-827711 972;101 K intron_retention CUFF.178 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 281;314 K intron_retention ENSG00000134817.9 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 592;40 N jcn_only_AA CUFF.131 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 98;68 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 2686;1104 N alternative_last_exon CUFF.187 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230894-119230944 chr11:119243545-119244231 28;164 N alternative_acceptor CUFF.164 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 1003;368 N cassette CUFF.164 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 73;5637 N intron_retention chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 438;149 K jcn_only_AA CUFF.156 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 573;242 N jcn_only_AA chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 413;1383 K intron_retention CUFF.132 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 691;28 K intron_retention CUFF.168 chr11 + chr11:74624828-74630577 chr11:74624827-74624828;chr11:74630577-74630578 41;214 N jcn_only_AD CUFF.149 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 20;742 K intron_retention CUFF.186 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 516;67 N jcn_only_AA CUFF.190 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 682;212 K jcn_only_AA CUFF.149,CUFF.157 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 3098;222 K alternative_donor CUFF.132 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 375;981 N alternative_donor CUFF.160 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 4031;143 K intron_retention CUFF.160 chr11 + chr11:65482215-65482291 chr11:65482214-65482215;chr11:65482291-65482292 3340;189 K intron_retention CUFF.186 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 538;877 N jcn_only_AD CUFF.146 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 121;39 K jcn_only_AA CUFF.145 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 713;2025 N cassette CUFF.173 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 121;2774 K jcn_only_AA CUFF.132,CUFF.157 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 465;233 K intron_retention CUFF.171 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 226;1076 K intron_retention CUFF.161 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 1202;2492 N cassette CUFF.131 chr11 - chr11:558980-560682 chr11:558980-559346;chr11:559499-560682 chr11:559347-559498 20;103 K intron_retention chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 527;427 N alternative_donor CUFF.188 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 10801;192 K alternative_first_exon CUFF.165 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819519-67819908 667;986 N jcn_only_AA CUFF.164 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 2249;66 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 236;151 N alternative_acceptor CUFF.140 chr11 - chr11:5687504-5699433 chr11:5691178-5699433 chr11:5687504-5691177 chr11:5687503-5687504 28;75 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 28;1199 N jcn_only_AD CUFF.134,CUFF.182 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 794;10 K intron_retention CUFF.186 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 688;192 K intron_retention CUFF.132 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 107;715 K cassette CUFF.143 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 196;1399 N jcn_only_AD CUFF.186 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 85;688 K intron_retention CUFF.182 chr11 - chr11:118926052-118926204 chr11:118926051-118926052;chr11:118926204-118926205 4880;100 K alternative_first_exon CUFF.190 chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124768294-124768494 chr11:124767622-124768177 433;1731 N alternative_acceptor CUFF.186 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 427;1006 K intron_retention CUFF.141 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 1076;232 K jcn_only_AA CUFF.174 chr11 - chr11:102937297-102953984 chr11:102953569-102953984 401;552 N jcn_only_AD CUFF.146,CUFF.171 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 882;50 N alternative_donor CUFF.149 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 3757;57 K intron_retention CUFF.161 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 60;2437 N cassette CUFF.146 chr11 - chr11:10828929-10830251;chr11:10828433-10830251 chr11:10828433-10829823,chr11:10828929-10829823;chr11:10830056-10830251 chr11:10829824-10830055 781;417 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 43;546 K intron_retention CUFF.188 chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 4161;1785 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 44;164 N cassette CUFF.134 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 304;1461 N alternative_donor chr11 + chr11:118402242-118402489;chr11:118402317-118402489 chr11:118401950-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 1660;2160 K alternative_first_exon CUFF.168 chr11 + chr11:74630071-74630577;chr11:74624828-74630577 chr11:74622471-74630577 chr11:74629826-74630070;chr11:74624740-74624827 chr11:74622307-74622470 328;218 K intron_retention CUFF.188 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 1092;179 K intron_retention CUFF.160 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 3474;284 N jcn_only_AA chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 132;3593 N intron_retention chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 89;255 K alternative_acceptor CUFF.190 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 162;3243 K cassette CUFF.132 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 446;678 N jcn_only_AD CUFF.160 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 4031;130 N intron_retention chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 63;3454 K intron_retention chr11 - chr11:118919599-118919729 chr11:118919598-118919599;chr11:118919729-118919730 213;32 K cassette CUFF.174 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 842;2149 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 112;349 K intron_retention CUFF.160 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 3468;627 N jcn_only_AA CUFF.190 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 236;658 N alternative_donor CUFF.153 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61596070-61605249 chr11:61583899-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 10534;72 K cassette CUFF.160 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 836;11041 N jcn_only_AA CUFF.146 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 97;157 N alternative_first_exon CUFF.132 chr11 + chr11:827712-828229;chr11:826267-828229 chr11:827460-828229 chr11:827558-827711;chr11:826053-826266 chr11:827206-827459 777;158 K intron_retention CUFF.146 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 78;230 N jcn_only_AA CUFF.188 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 4286;348 N alternative_acceptor CUFF.160 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 599;2170 N coord_cassette CUFF.182 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118926990;chr11:118927130-118927785 chr11:118926782-118926879;chr11:118926991-118927129 91;8421 N alternative_acceptor CUFF.180 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 20031;163 K cassette CUFF.138 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 chr11:3405397-3405514 25;1589 N intron_retention chr11 + chr11:118401950-118402489 chr11:118401949-118401950;chr11:118402489-118402490 2160;675 N intron_retention chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 229;1155 N alternative_first_exon CUFF.132 chr11 + chr11:827712-828259;chr11:826267-828259 chr11:827319-828259,chr11:827460-828259 chr11:827558-827711;chr11:826053-826266 chr11:827206-827318 269;804 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 145;533 K intron_retention CUFF.136 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 517;73 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 470;369 N alternative_donor CUFF.146 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 2403;45 N alternative_acceptor CUFF.180 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 19395;799 N jcn_only_AD CUFF.160 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 3468;236 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 97;913 N jcn_only_AA CUFF.133 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 237;52 K intron_retention CUFF.130 chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 62;273 N cassette CUFF.146 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 99;2227 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 151;9 N alternative_acceptor CUFF.143 chr11 - chr11:8502162-8615629;chr11:8486370-8615629;chr11:8474454-8615629 chr11:8588841-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 5154;2904 N cassette CUFF.180 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 421;12505 K jcn_only_AA CUFF.165 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 120;701 K intron_retention chr11 - chr11:2187999-2188116 chr11:2187998-2187999;chr11:2188116-2188117 515;375 N alternative_acceptor CUFF.143 chr11 - chr11:8588841-8615629;chr11:8486370-8615629;chr11:8474454-8615629 chr11:8502162-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 3119;4939 N alternative_donor CUFF.188 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 9774;1219 K intron_retention CUFF.132 chr11 + chr11:828773-828851 chr11:828772-828773;chr11:828851-828852 942;795 K intron_retention CUFF.132 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 638;285 K intron_retention CUFF.142 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 753;613 N alternative_donor CUFF.186 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 85;1208 K intron_retention CUFF.151 chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 47;502 N jcn_only_AD CUFF.186 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 538;112 K cassette CUFF.130 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 774;145 K jcn_only_AD CUFF.140 chr11 - chr11:5701469-5706245 chr11:5701469-5706097 chr11:5706098-5706245 chr11:5706245-5706246 57;174 K jcn_only_AA CUFF.190 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 162;161 K alternative_donor CUFF.150 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 21;1079 N jcn_only_AA CUFF.167,CUFF.178 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 44;89 N intron_retention chr11 + chr11:65480527-65480818 chr11:65480526-65480527;chr11:65480818-65480819 344;436 K coord_cassette CUFF.170 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 12;248 K intron_retention CUFF.186 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 445;187 K intron_retention CUFF.140 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 443;230 N jcn_only_AD CUFF.149 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 201;596 K intron_retention CUFF.132 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 204;423 N alternative_acceptor CUFF.143 chr11 - chr11:8588841-8615629;chr11:8502162-8615629;chr11:8474454-8615629 chr11:8486370-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 7928;130 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 250;5664 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 38;63 N jcn_only_AA CUFF.132,CUFF.179 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 42;76 K intron_retention CUFF.134 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 992;318 K jcn_only_AA CUFF.136 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 66;622 K alternative_donor CUFF.146 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 422;661 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 44;243 N intron_retention chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 69;175 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 149;57 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 506;2871 N jcn_only_AD chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 2341;229 K cassette CUFF.170 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 12;344 K alternative_last_exon CUFF.152 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61516015-61517214 chr11:61521403-61521917 504;957 N alternative_acceptor CUFF.164 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 2249;193 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 1090;469 K intron_retention CUFF.134 chr11 - chr11:2186994-2187231 chr11:2186993-2186994;chr11:2187231-2187232 1072;191 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 63;5046 K intron_retention CUFF.140 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 220;681 N jcn_only_AA CUFF.131 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 40;45 N alternative_acceptor CUFF.132,CUFF.179 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 42;580 N jcn_only_AA CUFF.132 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 127;60 N alternative_donor CUFF.149 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 3620;194 N alternative_first_exon chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119252183-119252421 chr11:119249717-119249894 101;250 K intron_retention CUFF.177 chr11 + chr11:107925520-107925601 chr11:107925519-107925520;chr11:107925601-107925602 137;516 K coord_cassette CUFF.134 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188116;chr11:2188263-2188664 chr11:2187863-2187998;chr11:2188117-2188262 304;2693 N intron_retention chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 236;961 N intron_retention chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 16;116 K intron_retention CUFF.147 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 35;1131 K mutually_exclusive CUFF.170 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 450;219 N alternative_acceptor CUFF.188 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 10327;104 N jcn_only_AD CUFF.153 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 71;246 N alternative_donor chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 1411;9582 K intron_retention CUFF.171 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 147;666 K intron_retention CUFF.187 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 416;77 K intron_retention chr11 + chr11:118401950-118402492 chr11:118401949-118401950;chr11:118402492-118402493 2225;685 N jcn_only_AA CUFF.188 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 4572;62 N alternative_acceptor CUFF.153 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 871;2909 N alternative_donor CUFF.153 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61583899-61605249 chr11:61596070-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 7283;3323 N intron_retention chr11 + chr11:118404267-118404571 chr11:118404266-118404267;chr11:118404571-118404572 621;1256 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 245;4410 N alternative_acceptor chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 413;1383 N jcn_only_AD CUFF.153 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61583899-61605249 chr11:61596070-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 592;95 N cassette CUFF.156 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 150;1722 N mutually_exclusive CUFF.146 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 581;286 K alternative_last_exon CUFF.177 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107948903-107948967 chr11:107944527-107944891 28;836 N alternative_first_exon CUFF.132 chr11 + chr11:827712-828229;chr11:827460-828229 chr11:826267-828229 chr11:827558-827711;chr11:827206-827459 chr11:826053-826266 530;405 N alternative_donor chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 3308;512 N jcn_only_AD chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 1047;527 K alternative_first_exon CUFF.135 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798216-2798262 chr11:2798728-2799043 79;533 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 72;246 K alternative_first_exon CUFF.168 chr11 + chr11:74630071-74630577;chr11:74622471-74630577 chr11:74624828-74630577 chr11:74629826-74630070;chr11:74622307-74622470 chr11:74624740-74624827 505;41 K intron_retention CUFF.153 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 662;121 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 726;179 N jcn_only_AD chr11 - chr11:406539-407061 chr11:406539-406842 501;470 K cassette CUFF.156 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 251;1460 N intron_retention chr11 + chr11:118402587-118403631 chr11:118402586-118402587;chr11:118403631-118403632 67;694 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 620;441 K intron_retention CUFF.190 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 227;59 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 88;59 K cassette CUFF.145 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 81;2388 N alternative_donor CUFF.143 chr11 - chr11:8483457-8494709 chr11:8483457-8486255 chr11:8486256-8494709 chr11:8494709-8494710 81;2552 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 816;245 K intron_retention CUFF.182 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 1223;672 N cassette CUFF.156 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 715;589 N jcn_only_AD chr11 + chr11:118402242-118402489;chr11:118402317-118402489 chr11:118401950-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 410;2160 K intron_retention CUFF.134 chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 157;223 K intron_retention CUFF.150 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 23;1387 K intron_retention CUFF.132 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 465;164 N jcn_only_AD CUFF.142 chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 177;287 N intron_retention CUFF.160 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 169;5677 N alternative_acceptor CUFF.190 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 3952;24 K alternative_acceptor CUFF.161 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 1202;450 N cassette CUFF.182 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 135;474 N alternative_donor CUFF.174 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 694;145 N jcn_only_AA chr11 + chr11:36317989-36422546 chr11:36317989-36318920 189;22 N intron_retention CUFF.146 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 39;1476 K intron_retention CUFF.189 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 45;215 N cassette CUFF.182 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 91;5417 N alternative_donor chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 67;74 N alternative_acceptor CUFF.130 chr11 - chr11:406539-407061 chr11:406994-407061 chr11:406539-406993 chr11:406538-406539 501;4061 K intron_retention CUFF.138 chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 chr11:3405397-3405514;chr11:3418347-3419385 386;124 K intron_retention CUFF.132 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 233;129 K alternative_acceptor CUFF.165 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 120;701 K cassette CUFF.170 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 12;508 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 94;79 N jcn_only_AD CUFF.179 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 69;633 N alternative_acceptor CUFF.132 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 127;139 N jcn_only_AA CUFF.140 chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 174;56 N alternative_donor chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 417;965 N jcn_only_AA CUFF.143 chr11 - chr11:8588841-8615629;chr11:8486370-8615629;chr11:8474454-8615629 chr11:8502162-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 159;92 K intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 668;3911 N jcn_only_AA CUFF.186 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1260;139 N jcn_only_AA CUFF.140 chr11 - chr11:5687504-5699433 chr11:5691178-5699433 chr11:5687504-5691177 chr11:5687503-5687504 28;75 K jcn_only_AA CUFF.140 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 202;443 K cassette CUFF.137 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 125;226 N intron_retention chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 336;134 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 63;1238 N coord_cassette CUFF.138 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 206;923 K coord_cassette CUFF.130 chr11 - chr11:408894-414822 chr11:408894-409216;chr11:409309-409867;chr11:410028-414822 chr11:409217-409308;chr11:409868-410027 75;292 K intron_retention CUFF.190 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 202;74 N jcn_only_AA CUFF.182 chr11 - chr11:118927117-118927730 chr11:118927130-118927730 chr11:118927117-118927129 chr11:118927116-118927117 2220;10 K intron_retention CUFF.132 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 446;493 N intron_retention chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 96;1052 K intron_retention CUFF.134 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 1165;187 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 53;38 N jcn_only_AA CUFF.169 chr11 - chr11:75520420-75522468;chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 698;391 N alternative_donor CUFF.179 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 69;773 K alternative_first_exon CUFF.133 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785299 chr11:1783363-1783715 112;269 K alternative_donor CUFF.136 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 106;3069 N mutually_exclusive CUFF.140 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 118;918 K intron_retention CUFF.146 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 157;285 K cassette CUFF.149 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 507;1735 N jcn_only_AA CUFF.180 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 1646;175 N jcn_only_AA CUFF.149 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 1016;68 N jcn_only_AA chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 338;1483 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 125;257 N jcn_only_AD chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 67;29 N jcn_only_AA CUFF.169 chr11 - chr11:75514771-75522468;chr11:75520420-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 507;582 N mutually_exclusive CUFF.180 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 278;1125 K coord_cassette CUFF.156 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 53;600 N alternative_acceptor CUFF.133 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 237;86 N mutually_exclusive CUFF.149 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 79;940 K intron_retention CUFF.157 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 718;412 K intron_retention CUFF.142 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 1357;626 K intron_retention CUFF.130 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 1172;1965 K intron_retention CUFF.190 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 187;49 K cassette CUFF.137 chr11 + chr11:3239790-3242799 chr11:3239790-3240929;chr11:3241019-3242799 chr11:3240930-3241018 125;108 K intron_retention CUFF.146 chr11 - chr11:10825751-10825833 chr11:10825750-10825751;chr11:10825833-10825834 1242;221 K alternative_acceptor CUFF.149,CUFF.157 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 3098;222 K intron_retention CUFF.140 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 202;420 K intron_retention CUFF.153 chr11 + chr11:61615757-61624482 chr11:61615756-61615757;chr11:61624482-61624483 871;112 K intron_retention CUFF.181 chr11 - chr11:118531625-118531868 chr11:118531624-118531625;chr11:118531868-118531869 1482;63 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 247;4453 N jcn_only_AA CUFF.169 chr11 - chr11:75514771-75522468;chr11:75514563-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 973;116 K intron_retention chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 254;159 K intron_retention CUFF.140 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 57;302 K alternative_acceptor CUFF.145 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 713;3258 K intron_retention chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 139;173 K intron_retention CUFF.142 chr11 - chr11:6637735-6638589 chr11:6637734-6637735;chr11:6638589-6638590 54;740 N jcn_only_AD CUFF.186 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 254;53 N coord_cassette CUFF.130 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 611;315 N alternative_donor CUFF.142 chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 177;975 N mutually_exclusive CUFF.146 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 581;286 N cassette CUFF.140 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 438;711 N alternative_acceptor CUFF.140 chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 174;162 N cassette CUFF.130 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 860;3126 N jcn_only_AD CUFF.160 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 344;4167 K alternative_first_exon CUFF.164 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67775960-67776162 chr11:67777709-67777862 689;2510 N intron_retention chr11 + chr11:118403177-118404571 chr11:118403176-118403177;chr11:118404571-118404572 120;648 N jcn_only_AA CUFF.143 chr11 - chr11:8483457-8494709 chr11:8486370-8494709 chr11:8483457-8486369 chr11:8483456-8483457 81;544 K intron_retention CUFF.151 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 1075;435 K cassette CUFF.172 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 12;441 K cassette CUFF.170 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 81;123 K intron_retention CUFF.190 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 682;1049 K cassette CUFF.182 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 142;9632 K intron_retention CUFF.161 chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 508;3253 N jcn_only_AD CUFF.143 chr11 - chr11:8483457-8494709 chr11:8483457-8486255 chr11:8486256-8494709 chr11:8494709-8494710 81;704 N jcn_only_AD chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 340;7577 N alternative_acceptor CUFF.169 chr11 - chr11:75514771-75522468;chr11:75520420-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 2008;582 N alternative_acceptor CUFF.146 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 97;1225 N alternative_acceptor CUFF.190 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 989;2987 N intron_retention chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 1047;893 N alternative_acceptor CUFF.169 chr11 - chr11:75520420-75522468;chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 1166;1424 N cassette CUFF.138 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 368;274 K jcn_only_AA CUFF.161 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 1202;60 K alternative_first_exon CUFF.141 chr11 - chr11:6622006-6624633 chr11:6622006-6622155 chr11:6624634-6624921 chr11:6622156-6622285 2467;171 N alternative_acceptor CUFF.131 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 98;73 N alternative_donor CUFF.157 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 250;65 N alternative_first_exon CUFF.174,CUFF.190 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768494 chr11:124767622-124768177 267;65 N cassette CUFF.140 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 59;1174 N cassette CUFF.134 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 182;207 N alternative_first_exon CUFF.142 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615903 chr11:8494710-8494823 53;612 K jcn_only_AA CUFF.188 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 4725;1092 K intron_retention CUFF.130 chr11 - chr11:407535-407816 chr11:407534-407535;chr11:407816-407817 412;808 N alternative_acceptor chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 132;8755 K intron_retention CUFF.178 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 44;466 N alternative_donor CUFF.149 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 251;3563 K alternative_first_exon CUFF.174 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102963031 chr11:102959956-102960047 1939;821 N mutually_exclusive CUFF.182 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 278;175 N jcn_only_AA chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 692;75 K intron_retention CUFF.155 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 149;573 N intron_retention chr11 - chr11:8486370-8615629 chr11:8486369-8486370;chr11:8615629-8615630 24;90 K alternative_first_exon CUFF.187 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119252183-119252421 chr11:119234559-119234996 74;1268 N jcn_only_AA CUFF.143 chr11 - chr11:8502162-8615629;chr11:8486370-8615629;chr11:8474454-8615629 chr11:8588841-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 201;50 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 441;2937 N alternative_donor CUFF.171 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 405;1418 K cassette CUFF.135 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 91;570 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 101;1181 K jcn_only_AA CUFF.141 chr11 - chr11:6623446-6624633;chr11:6623495-6624633 chr11:6622006-6624633 243;844 K intron_retention CUFF.146 chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 160;152 K intron_retention CUFF.142 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 567;685 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 63;1101 K cassette CUFF.182 chr11 - chr11:118926880-118927730 chr11:118926880-118926990;chr11:118927117-118927730 chr11:118926991-118927116 225;6195 N jcn_only_AA CUFF.157 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 250;52 N alternative_donor CUFF.138 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 376;291 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 506;2289 N mutually_exclusive CUFF.156 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 1318;191 K cassette CUFF.143 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 72;1496 K jcn_only_AD CUFF.174 chr11 - chr11:102933144-102936997 chr11:102933144-102935003 406;606 N jcn_only_AA CUFF.175 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 386;59 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 41;168 K intron_retention CUFF.161 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 3025;599 K intron_retention CUFF.169 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 352;2265 K intron_retention CUFF.169 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 413;2589 N alternative_donor CUFF.136 chr11 - chr11:8496364-8615290;chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 499;406 K intron_retention CUFF.182 chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 4604;237 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 274;4057 K alternative_acceptor CUFF.140 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 202;4915 N alternative_acceptor CUFF.149 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 571;988 K intron_retention CUFF.146 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 463;373 K cassette CUFF.142 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 255;2214 N cassette CUFF.130 chr11 - chr11:408207-414822;chr11:408894-414822 chr11:408894-409867,chr11:408207-409867;chr11:410028-414822 chr11:409868-410027 324;4114 K jcn_only_AA CUFF.152 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 89;36 K alternative_first_exon CUFF.175 chr11 - chr11:104915386-104916017;chr11:104915386-104972134 chr11:104915386-104915917 chr11:104916018-104916042;chr11:104972135-104972250 chr11:104915918-104916016 447;33 K alternative_acceptor CUFF.132,CUFF.157 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 465;282 N alternative_donor CUFF.153 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 71;458 K intron_retention CUFF.136 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 106;442 K jcn_only_AD CUFF.132 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 375;107 K intron_retention CUFF.146 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 541;807 K jcn_only_AD CUFF.181 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 1057;92 N jcn_only_AA CUFF.164 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 1003;62 N alternative_donor CUFF.153 chr11 + chr11:61584169-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61594904-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 5773;4833 N intron_retention chr11 + chr11:118401950-118403631 chr11:118401949-118401950;chr11:118403631-118403632 296;209 K cassette CUFF.188 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 123;11738 K intron_retention CUFF.155 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 137;106 N alternative_first_exon CUFF.132 chr11 + chr11:826267-828229;chr11:827460-828229 chr11:827712-828229 chr11:826053-826266;chr11:827206-827459 chr11:827558-827711 563;372 N cassette CUFF.149 chr11 + chr11:36424929-36453402 chr11:36424929-36440804;chr11:36440854-36453402 chr11:36440805-36440853 237;1364 K intron_retention CUFF.160 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 599;4715 N jcn_only_AA CUFF.188 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 473;4161 K jcn_only_AA CUFF.130 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 412;2289 K jcn_only_AD CUFF.140 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 202;220 K cassette CUFF.149 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 393;563 K alternative_acceptor CUFF.188 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 4725;2071 N alternative_acceptor CUFF.169 chr11 - chr11:75514771-75522468;chr11:75514563-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 2006;584 N alternative_acceptor CUFF.149 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 1457;102 N alternative_last_exon CUFF.160 chr11 + chr11:63999437-63999865;chr11:63999437-64001365 chr11:63999437-63999981,chr11:63999437-63999901 chr11:64001366-64001857 chr11:63999982-64000086 1225;1412 N alternative_donor CUFF.171 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 1544;279 K alternative_acceptor CUFF.157 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 668;3042 K intron_retention CUFF.160 chr11 + chr11:65480530-65480818 chr11:65480529-65480530;chr11:65480818-65480819 4167;439 N jcn_only_AA CUFF.132 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 81;196 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 81;346 N alternative_acceptor chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 692;1732 N alternative_last_exon CUFF.146 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818498-10819428 chr11:10823596-10823756 1123;665 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 53;43 N jcn_only_AD CUFF.134 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 157;68 N alternative_first_exon CUFF.161 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8615630-8615903 chr11:8615291-8615625 231;130 K alternative_donor CUFF.132 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 638;378 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 87;60 K intron_retention CUFF.161 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 135;129 K intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 378;439 K alternative_acceptor CUFF.169 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 413;971 K alternative_first_exon CUFF.148,CUFF.181 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264158 354;204 K jcn_only_AA CUFF.141 chr11 - chr11:6623446-6624633;chr11:6622006-6624633 chr11:6623495-6624633 892;195 K cassette CUFF.181 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 1151;377 N alternative_acceptor CUFF.174 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 89;347 K intron_retention CUFF.160 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 4733;67 N alternative_acceptor CUFF.188 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 8387;2044 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 518;2881 K cassette CUFF.174 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 36;674 K alternative_last_exon CUFF.168 chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74631166 chr11:74624740-74624827 1030;258 N jcn_only_AD CUFF.186 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 139;26 N jcn_only_AA CUFF.143 chr11 - chr11:8588841-8615629;chr11:8502162-8615629;chr11:8474454-8615629 chr11:8486370-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 227;24 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 1866;1578 K cassette CUFF.145 chr11 - chr11:8941998-8947009 chr11:8941998-8942840;chr11:8943063-8947009 chr11:8942841-8943062 66;225 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 119;28 N alternative_donor CUFF.186 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 139;188 N alternative_donor CUFF.134,CUFF.182 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 794;1764 K intron_retention CUFF.146 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 422;417 N intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 839;2701 N jcn_only_AA CUFF.186 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1145;254 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118402960 787;274 N intron_retention chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 1006;159 N alternative_acceptor CUFF.143 chr11 - chr11:8483457-8494709 chr11:8486370-8494709 chr11:8483457-8486369 chr11:8483456-8483457 81;667 K intron_retention CUFF.146 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 883;1073 N alternative_acceptor CUFF.190 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 3011;965 K intron_retention CUFF.155 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 168;74 N alternative_acceptor CUFF.186 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 1271;162 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 417;378 N jcn_only_AA CUFF.143 chr11 - chr11:8588841-8615629;chr11:8502162-8615629;chr11:8486370-8615629 chr11:8474454-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 166;85 N jcn_only_AD CUFF.153 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61596070-61605249 chr11:61583899-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 615;72 K intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 151;260 N jcn_only_AA CUFF.174 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 89;151 K intron_retention CUFF.146 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 9;1999 N alternative_acceptor CUFF.167,CUFF.178 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 44;300 N intron_retention chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 78;407 N jcn_only_AA CUFF.188 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 4571;63 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 1606;1838 N alternative_acceptor CUFF.134 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 992;242 N mutually_exclusive CUFF.130 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 402;1351 N alternative_donor CUFF.146,CUFF.174 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 398;2050 N alternative_donor CUFF.133,CUFF.174 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 514;325 K alternative_acceptor CUFF.156 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 573;242 N alternative_acceptor CUFF.143 chr11 - chr11:8588841-8615629;chr11:8502162-8615629;chr11:8486370-8615629 chr11:8474454-8615629 chr11:8474454-8486369;chr11:8486370-8502161;chr11:8502162-8588840 chr11:8474453-8474454;chr11:8486369-8486370;chr11:8502161-8502162 7973;85 K cassette CUFF.164 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 267;4696 N jcn_only_AA CUFF.186 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 393;1006 N jcn_only_AD CUFF.149 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 740;57 N cassette CUFF.181 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 119;1392 K alternative_first_exon CUFF.141,CUFF.161 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67772277-67772546 chr11:67771418-67771625 1683;2691 K intron_retention CUFF.138 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 376;496 N alternative_donor CUFF.160 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 3468;387 N intron_retention CUFF.178 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 89;465 N intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 60;60 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 1413;179 K intron_retention CUFF.133 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 127;237 K intron_retention chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 883;690 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 112;970 K alternative_first_exon CUFF.130,CUFF.155 chr11 - chr11:410028-417293;chr11:410028-417324 chr11:410028-414822 chr11:417325-417545 chr11:414823-415071 516;2559 N alternative_donor CUFF.149 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 20;4893 K alternative_first_exon CUFF.148,CUFF.155 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367812 chr11:62366690-62366788 505;80 K intron_retention CUFF.179 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 633;78 N intron_retention chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 24;271 K intron_retention CUFF.180 chr11 + chr11:118403923-118404134 chr11:118403922-118403923;chr11:118404134-118404135 1852;1111 N cassette CUFF.156 chr11 + chr11:63656437-63662630 chr11:63656437-63657693;chr11:63657768-63662630 chr11:63657694-63657767 52;783 N jcn_only_AD CUFF.188 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 7769;148 N alternative_acceptor chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 962;19232 N cassette CUFF.134 chr11 - chr11:2187999-2188664 chr11:2187999-2188116;chr11:2188263-2188664 chr11:2188117-2188262 189;1764 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 615;469 N intron_retention chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 181;1053 N jcn_only_AA CUFF.130 chr11 - chr11:406539-407061 chr11:406994-407061 chr11:406539-406993 chr11:406538-406539 501;893 K jcn_only_AD CUFF.136 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 106;517 K intron_retention CUFF.138 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 chr11:3418319-3418636 217;283 N jcn_only_AD CUFF.153 chr11 + chr11:61594904-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61584169-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 319;368 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 585;320 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 63;1413 K alternative_first_exon CUFF.155 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369406 chr11:62368495-62368588 496;53 K intron_retention CUFF.146 chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 44;1010 N jcn_only_AD CUFF.171 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 653;279 K intron_retention chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 861;790 N jcn_only_AA CUFF.160 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 599;169 N jcn_only_AD CUFF.153 chr11 + chr11:61584169-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61594904-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 535;152 K intron_retention CUFF.174 chr11 - chr11:102937103-102937187 chr11:102937102-102937103;chr11:102937187-102937188 1117;1569 K jcn_only_AA CUFF.193 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 58;231 N jcn_only_AA CUFF.168 chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 960;101 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 53;26 K intron_retention CUFF.133 chr11 - chr11:1776259-1778553 chr11:1776258-1776259;chr11:1778553-1778554 209;146 K intron_retention CUFF.143 chr11 - chr11:8474454-8476290 chr11:8474453-8474454;chr11:8476290-8476291 727;140 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 62;1847 N alternative_donor CUFF.134 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 157;113 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 125;81 K intron_retention CUFF.143 chr11 - chr11:8474454-8615629 chr11:8474453-8474454;chr11:8615629-8615630 85;26 N jcn_only_AD CUFF.138 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 376;33 K intron_retention CUFF.132 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 130;612 K cassette CUFF.146 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 143;265 N alternative_donor CUFF.186 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 254;215 N jcn_only_AA CUFF.153 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 871;525 K intron_retention chr11 + chr11:118403177-118403631 chr11:118403176-118403177;chr11:118403631-118403632 2777;723 K alternative_acceptor CUFF.130 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 412;3076 N jcn_only_AD CUFF.146,CUFF.174 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 93;67 N alternative_acceptor CUFF.146 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 422;664 N intron_retention chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 348;1570 N alternative_donor CUFF.186 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 538;557 N jcn_only_AD chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 2389;181 K intron_retention CUFF.153 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 965;386 K alternative_acceptor CUFF.193 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 58;492 K jcn_only_AD CUFF.142,CUFF.187 chr11 - chr11:6637735-6638589 chr11:6637735-6637891 54;414 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 76;1556 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 94;966 K jcn_only_AA CUFF.169 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 413;352 K alternative_first_exon CUFF.135 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466423-2466714 chr11:2483037-2483207 141;719 K intron_retention CUFF.130 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 893;539 N jcn_only_AD CUFF.146 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 115;45 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 85;550 N jcn_only_AD CUFF.136 chr11 - chr11:8496364-8615290;chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797;chr11:8588798-8615290 chr11:8588797-8588798;chr11:8615290-8615291 222;28 K alternative_donor CUFF.140 chr11 - chr11:5701469-5706245 chr11:5701469-5706097 chr11:5706098-5706245 chr11:5706245-5706246 57;491 K alternative_first_exon CUFF.168 chr11 + chr11:74624828-74630577;chr11:74622471-74630577 chr11:74630071-74630577 chr11:74624740-74624827;chr11:74622307-74622470 chr11:74629826-74630070 259;287 N alternative_donor chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 1047;1859 N jcn_only_AA CUFF.146 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 422;59 K intron_retention chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 470;1295 K jcn_only_AA CUFF.141 chr11 - chr11:6622006-6624633;chr11:6623495-6624633 chr11:6623446-6624633 1039;48 K intron_retention CUFF.143 chr11 - chr11:8476380-8478887 chr11:8476379-8476380;chr11:8478887-8478888 746;52 K cassette CUFF.177 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 438;230 K intron_retention CUFF.186 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 537;29 K intron_retention CUFF.188 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 4725;1049 N alternative_acceptor CUFF.182 chr11 - chr11:118927117-118927730 chr11:118927130-118927730 chr11:118927117-118927129 chr11:118927116-118927117 2220;59 N intron_retention CUFF.146 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 67;1930 N alternative_acceptor CUFF.188 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 10368;63 K intron_retention CUFF.132 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 595;259 N alternative_acceptor CUFF.132 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 81;275 N alternative_donor CUFF.146 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 2298;150 K alternative_acceptor CUFF.136 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 66;622 N jcn_only_AD chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 138;68 N intron_retention CUFF.179 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 76;726 K alternative_donor CUFF.179 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 42;1759 N jcn_only_AA CUFF.149 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 537;547 K intron_retention CUFF.182 chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 2220;113 N alternative_acceptor CUFF.131 chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 40;66 N jcn_only_AD CUFF.149 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 653;144 K intron_retention CUFF.138 chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 chr11:3405397-3405514 25;256 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 71;179 N intron_retention chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 501;909 K alternative_first_exon CUFF.143 chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615903 chr11:8476291-8476379 186;727 K jcn_only_AD CUFF.150 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 21;867 K intron_retention CUFF.146 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 57;1398 K intron_retention CUFF.142 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 600;482 K intron_retention CUFF.106 chr10 + chr10:70673036-70673105 chr10:70673035-70673036;chr10:70673105-70673106 132;213 K coord_cassette CUFF.125 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 50;1578 K alternative_first_exon CUFF.120 chr10 + chr10:103113986-103190101 chr10:103114367-103190101 chr10:103113820-103113985 chr10:103114273-103114366 340;73 N jcn_only_AA CUFF.114 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 1314;18 K intron_retention CUFF.110 chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 chr10:74092489-74094375;chr10:74095538-74095689 259;357 K cassette CUFF.106 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 995;170 K jcn_only_AD CUFF.100 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 140;646 K alternative_first_exon CUFF.108 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73976579-73976983;chr10:73975965-73976127 chr10:73975540-73975867 1531;1143 K jcn_only_AA CUFF.108 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 1708;278 N jcn_only_AA CUFF.108 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 1433;132 K cassette CUFF.108 chr10 - chr10:73956748-73963184 chr10:73956748-73958206;chr10:73958424-73963184 chr10:73958207-73958423 1594;1519 K alternative_first_exon CUFF.119 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491904-101492166 134;2358 K coord_cassette CUFF.100 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 chr10:46113588-46113708;chr10:46143742-46143982 56;5645 N coord_cassette CUFF.91 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 100;1839 N jcn_only_AD CUFF.107,CUFF.113 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 757;19 N alternative_acceptor CUFF.113 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1896;730 N alternative_acceptor CUFF.113 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 991;44 K coord_cassette CUFF.83 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5123873;chr10:5124078-5138601 chr10:5122938-5123093;chr10:5123874-5124077 421;942 N alternative_acceptor CUFF.114 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 771;25 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 96;937 K cassette CUFF.88 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 25;284 N jcn_only_AA CUFF.108 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 1403;162 K coord_cassette CUFF.108 chr10 - chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607;chr10:73862726-73887839 chr10:73862092-73862170;chr10:73862608-73862725 451;796 N alternative_acceptor CUFF.113 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 1173;1460 K intron_retention CUFF.94 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 42;61 K alternative_first_exon CUFF.93 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 353;138 N jcn_only_AA CUFF.108 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 1366;199 N jcn_only_AA CUFF.114 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 771;19 K cassette CUFF.117 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 177;2105 K alternative_donor CUFF.117 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 24;845 K alternative_donor CUFF.100 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 1170;97 K cassette CUFF.100 chr10 - chr10:46148508-46158989 chr10:46148508-46158027;chr10:46158130-46158989 chr10:46158028-46158129 chr10:46148432-46148507;chr10:46158990-46159290 151;1182 N cassette CUFF.91 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 260;1223 N jcn_only_AA CUFF.113 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 326;96 N cassette CUFF.91 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 180;1333 N alternative_acceptor CUFF.113 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 757;11 K intron_retention CUFF.108 chr10 - chr10:73964264-73970489 chr10:73964263-73964264;chr10:73970489-73970490 278;292 N jcn_only_AD CUFF.119 chr10 + chr10:101507148-101514285 chr10:101510154-101514285 chr10:101507148-101510153 chr10:101507147-101507148 1177;263 N coord_cassette CUFF.91 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 100;1561 N alternative_acceptor CUFF.113 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 2049;577 N coord_cassette CUFF.121 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 46;213 N cassette CUFF.96 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 64;5295 K coord_cassette CUFF.84 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 12;4194 N alternative_donor CUFF.107,CUFF.113 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 757;19 K cassette CUFF.117 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 853;56 K cassette CUFF.84 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 973;980 K cassette CUFF.83 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5138601 chr10:5120062-5120169 372;833 K jcn_only_AA CUFF.113 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 475;283 N jcn_only_AA CUFF.108 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 1106;459 N jcn_only_AD CUFF.114,CUFF.87 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 1314;14 K intron_retention CUFF.87 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 169;58 K alternative_acceptor CUFF.96 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 5266;6479 N cassette CUFF.91 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 64;1440 K alternative_first_exon CUFF.125 chr10 + chr10:124134323-124152696,chr10:124134364-124152696 chr10:124151889-124152696 chr10:124134212-124134322 chr10:124151819-124151888 101;393 K alternative_first_exon CUFF.108 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73970490-73970589 chr10:73964180-73964278 1724;688 K intron_retention CUFF.125 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 40;116 K intron_retention CUFF.123 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 6;55 K cassette CUFF.91 chr10 - chr10:27059275-27065993 chr10:27059275-27059451;chr10:27059470-27065993 chr10:27059452-27059469 60;354 N intron_retention chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 11;141 N alternative_donor CUFF.91 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 689;13 N alternative_acceptor CUFF.91 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 689;49 N jcn_only_AA CUFF.91 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 689;11 K cassette CUFF.103 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 109;81 N alternative_donor CUFF.100,CUFF.113 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 78;3393 N coord_cassette CUFF.91 chr10 - chr10:27059275-27112066 chr10:27059275-27059451;chr10:27059470-27065993;chr10:27066171-27112066 chr10:27059452-27059469;chr10:27065994-27066170 64;759 N alternative_acceptor CUFF.95 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 499;611 N jcn_only_AA CUFF.108 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 952;613 K cassette CUFF.82 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 chr10:518379-518489;chr10:532399-532470 11;615 N mutually_exclusive CUFF.124 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 155;247 K cassette CUFF.82 chr10 - chr10:410523-412214 chr10:410523-410754;chr10:410962-412214 chr10:410755-410961 chr10:410314-410522;chr10:412215-412351 28;217 N cassette CUFF.108 chr10 - chr10:73857209-73862607;chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607,chr10:73862171-73887839 chr10:73862092-73862170 518;699 K cassette CUFF.108 chr10 - chr10:73970590-73972944 chr10:73970590-73971945;chr10:73972044-73972944 chr10:73971946-73972043 1571;381 N alternative_acceptor CUFF.113 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 1747;886 N jcn_only_AA CUFF.113 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 757;11 N jcn_only_AA CUFF.113 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 991;44 N jcn_only_AD CUFF.82 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 chr10:532399-532470;chr10:735434-735606 276;7 N cassette CUFF.124 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 113;650 N alternative_donor CUFF.96 chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 625;6556 K intron_retention CUFF.96 chr10 + chr10:35495980-35500583 chr10:35495979-35495980;chr10:35500583-35500584 5266;1077 K alternative_first_exon CUFF.128,CUFF.82 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 215;334 N cassette CUFF.124 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 50;318 N jcn_only_AD chr10 + chr10:35426808-35437295;chr10:35416496-35437295 chr10:35416122-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 1826;1328 K alternative_first_exon CUFF.89 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833402 94;141 N cassette CUFF.96 chr10 + chr10:35464634-35477127 chr10:35464634-35468061;chr10:35468205-35477127 chr10:35468062-35468204 780;5726 K cassette CUFF.84 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 180;2579 N alternative_acceptor CUFF.113 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 326;1438 K mutually_exclusive CUFF.91 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 320;168 N coord_cassette CUFF.96 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 151;3190 K cassette CUFF.125 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 103;317 K cassette CUFF.101 chr10 + chr10:48231815-48235818 chr10:48231815-48235121;chr10:48235174-48235818 chr10:48235122-48235173 133;59 K cassette CUFF.84 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 41;2412 K cassette CUFF.101 chr10 + chr10:48221540-48231778 chr10:48221540-48229090;chr10:48229192-48231778 chr10:48229091-48229191 140;62 K intron_retention CUFF.110 chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 chr10:74092489-74094375;chr10:74095592-74095689 21;479 K alternative_first_exon CUFF.125 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134127-124134477 chr10:124145561-124145703 643;132 K alternative_last_exon CUFF.111 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476801-75476950 chr10:75477773-75477923 113;189 K alternative_first_exon CUFF.100,CUFF.95 chr10 - chr10:35360268-35378823,chr10:35360268-35379357;chr10:35360268-35379106 chr10:35360268-35363119 chr10:35379107-35379354 chr10:35363120-35363277 379;434 K cassette CUFF.84 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 13;2424 N jcn_only_AA CUFF.113 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 344;78 K alternative_last_exon CUFF.124 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499845-123503373 chr10:123541934-123542214 6222;806 N jcn_only_AD CUFF.113,CUFF.87 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 991;43 K cassette CUFF.106 chr10 + chr10:70661228-70666466 chr10:70661228-70665981;chr10:70666094-70666466 chr10:70665982-70666093 47;821 N jcn_only_AD CUFF.120 chr10 + chr10:103190210-103221737 chr10:103213314-103221737 chr10:103190210-103213313 chr10:103190209-103190210 46;66 N coord_cassette CUFF.96 chr10 + chr10:35464634-35477127 chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127 chr10:35467817-35467914;chr10:35468062-35468204 780;8554 K alternative_last_exon CUFF.82 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370480-370959 chr10:372946-373116 8;1588 K mutually_exclusive CUFF.113 chr10 - chr10:78729826-78761164,chr10:78761339-78771724 chr10:78729826-78734244,chr10:78734332-78771724 chr10:78761165-78761338 chr10:78734245-78734331 1133;371 K cassette CUFF.121 chr10 + chr10:106976881-106982873 chr10:106976881-106977601;chr10:106977724-106982873 chr10:106977602-106977723 36;126 K jcn_only_AA CUFF.84 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 998;8 K alternative_first_exon CUFF.84 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186826-6186976 chr10:6244735-6245299 62;5064 K jcn_only_AA CUFF.95 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 66;382 K cassette CUFF.84 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 12;1885 N jcn_only_AA CUFF.114 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 17;1080 K intron_retention CUFF.106 chr10 + chr10:70673036-70673146 chr10:70673035-70673036;chr10:70673146-70673147 58;446 K jcn_only_AD CUFF.100 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 689;97 N jcn_only_AA chr10 + chr10:103113986-103213257 chr10:103113986-103190101 chr10:103190102-103213257 chr10:103213257-103213258 91;183 N intron_retention chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 98;36 K alternative_acceptor CUFF.106 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 58;388 K alternative_first_exon CUFF.100,CUFF.110 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46147414-46147481 chr10:46145180-46145275 chr10:46143742-46143982 773;83 N alternative_donor chr10 + chr10:35426808-35437295;chr10:35416122-35437295 chr10:35416496-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 3560;495 K coord_cassette CUFF.84 chr10 + chr10:6266177-6274857 chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857 chr10:6267124-6267211;chr10:6268155-6268328 180;1483 N jcn_only_AA CUFF.95 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 499;180 K jcn_only_AD CUFF.90 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 4;3 N alternative_donor chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 431;6582 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 162;108 K cassette CUFF.84 chr10 + chr10:6266177-6268154 chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266469-6266586 973;137 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 248;31 K cassette CUFF.84 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 160;1516 K coord_cassette CUFF.101 chr10 + chr10:48216059-48221504 chr10:48216059-48216427;chr10:48216497-48218794;chr10:48218864-48221504 chr10:48216428-48216496;chr10:48218795-48218863 119;122 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 625;474 N cassette CUFF.91 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 180;1627 N cassette CUFF.114 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 16;259 K cassette CUFF.129 chr10 - chr10:135060555-135061294 chr10:135060555-135061057;chr10:135061206-135061294 chr10:135061058-135061205 38;1993 K alternative_first_exon CUFF.98 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572428-43572779 chr10:43606655-43606913 304;75 N cassette CUFF.124 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 71;500 K cassette CUFF.91 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 60;728 N cassette CUFF.83 chr10 + chr10:5123094-5138601 chr10:5123094-5123873;chr10:5124078-5138601 chr10:5123874-5124077 91;645 N jcn_only_AD CUFF.113,CUFF.128 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 1260;31 K jcn_only_AD CUFF.117 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 24;817 K alternative_acceptor CUFF.95 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 66;426 K intron_retention CUFF.108 chr10 - chr10:73892940-73912626 chr10:73892939-73892940;chr10:73912626-73912627 740;357 K alternative_donor CUFF.100 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 168;1099 N cassette CUFF.124 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 71;627 N alternative_acceptor CUFF.119,CUFF.96 chr10 + chr10:101507148-101514285 chr10:101507148-101510125 chr10:101510126-101514285 chr10:101514285-101514286 1177;246 K jcn_only_AA CUFF.104 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 60;718 K intron_retention CUFF.108 chr10 - chr10:73892940-73921295 chr10:73892939-73892940;chr10:73921295-73921296 174;294 N cassette CUFF.96 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 1428;9664 N alternative_donor CUFF.120 chr10 + chr10:103190210-103221737 chr10:103213314-103221737 chr10:103190210-103213313 chr10:103190209-103190210 46;66 K jcn_only_AA CUFF.88 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 31;108 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 66;31 K mutually_exclusive CUFF.124 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 464;500 N jcn_only_AD CUFF.100,CUFF.113 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 78;66 N alternative_acceptor CUFF.113 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 2346;287 K intron_retention CUFF.108 chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 199;133 N intron_retention chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 132;357 N alternative_first_exon chr10 - chr10:17636383-17645558 chr10:17636383-17641288 chr10:17645559-17645858 chr10:17641289-17641410 70;161 K jcn_only_AD CUFF.125 chr10 + chr10:124187833-124189139 chr10:124187937-124189139 chr10:124187833-124187936 chr10:124187832-124187833 72;97 K alternative_donor CUFF.100 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 1196;71 K alternative_last_exon CUFF.105 chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69925240-69925255 chr10:69921486-69922020 50;1581 K jcn_only_AA CUFF.118,CUFF.120 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 115;199 N jcn_only_AA CUFF.113 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 908;199 K cassette CUFF.104 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 665;1739 N alternative_last_exon CUFF.87 chr10 - chr10:17636383-17645558 chr10:17641411-17645558 chr10:17636204-17636382 chr10:17641003-17641410 86;318 K coord_cassette CUFF.100 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158027;chr10:46158130-46158989 chr10:46148432-46148507;chr10:46158028-46158129 chr10:46147414-46147481;chr10:46158990-46159290 74;1711 N alternative_donor CUFF.108 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 786;2101 N jcn_only_AD CUFF.106 chr10 + chr10:70679738-70695761 chr10:70694675-70695761 62;84 K cassette CUFF.103 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 219;1577 N alternative_donor CUFF.82 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 chr10:532399-532470;chr10:735434-735606 276;14 K cassette CUFF.95 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 118;915 N jcn_only_AD CUFF.96 chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 625;105 K alternative_donor CUFF.90 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 4;13 N alternative_donor CUFF.124 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 12;2064 K jcn_only_AD CUFF.125 chr10 + chr10:124134323-124152696 chr10:124134364-124152696 chr10:124134323-124134363 chr10:124134322-124134323 40;51 N alternative_donor chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 1057;871 N jcn_only_AA CUFF.113 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 508;287 N jcn_only_AA chr10 + chr10:35416496-35437295 chr10:35416496-35426709 379;314 N cassette CUFF.83 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 421;524 K cassette CUFF.108 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 174;1792 K alternative_first_exon CUFF.108 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975539 chr10:73973090-73975964 chr10:73976579-73976983;chr10:73975540-73975867 chr10:73975965-73976127 2058;616 N alternative_acceptor chr10 + chr10:103113986-103213257 chr10:103113986-103190101 chr10:103190102-103213257 chr10:103213257-103213258 91;210 K alternative_donor CUFF.121 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 57;37 N coord_cassette CUFF.96 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 488;3898 N jcn_only_AA CUFF.113 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 377;730 K alternative_first_exon CUFF.112,CUFF.89 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290405 chr10:76289051-76289159 220;245 K alternative_last_exon CUFF.100 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143742-46143982 chr10:46146988-46147073 chr10:46147414-46147481 1770;30 N jcn_only_AA CUFF.95 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 54;36 N alternative_donor CUFF.119 chr10 + chr10:101507148-101514285 chr10:101510154-101514285 chr10:101507148-101510153 chr10:101507147-101507148 1177;263 K alternative_acceptor CUFF.105,CUFF.120 chr10 + chr10:103190210-103221737 chr10:103190210-103221720 chr10:103221721-103221737 chr10:103221737-103221738 46;342 N cassette CUFF.96 chr10 + chr10:35437420-35467816;chr10:35464634-35467816 chr10:35464634-35464780,chr10:35437420-35464780;chr10:35464928-35467816 chr10:35464781-35464927 1185;2452 K cassette CUFF.125 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187833-124189139 chr10:124187792-124187832 103;244 K cassette CUFF.100 chr10 - chr10:46135412-46143741 chr10:46135412-46135688;chr10:46135870-46143741 chr10:46135689-46135869 chr10:46135264-46135411;chr10:46143742-46143982 329;166 K alternative_donor CUFF.110,CUFF.112 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 chr10:74092489-74094375;chr10:74095592-74095689 21;630 N cassette CUFF.108 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 622;799 N alternative_donor chr10 + chr10:35426808-35437295;chr10:35416496-35437295 chr10:35416122-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 2727;1328 K alternative_first_exon CUFF.99 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274351 chr10:44274030-44274074 95;59 K cassette CUFF.112 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 181;255 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 431;131 N coord_cassette CUFF.91 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 64;1563 K alternative_acceptor CUFF.88 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 31;108 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 66;31 N alternative_acceptor CUFF.113 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 1516;248 K jcn_only_AD CUFF.121 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 57;24 N jcn_only_AD CUFF.91 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 689;13 N cassette CUFF.96 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 3918;4724 K alternative_donor CUFF.125 chr10 + chr10:124134323-124152696 chr10:124134364-124152696 chr10:124134323-124134363 chr10:124134322-124134323 40;143 K intron_retention chr10 - chr10:73956748-73963184 chr10:73956747-73956748;chr10:73963184-73963185 1594;264 K alternative_first_exon CUFF.116 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833616-94833880 552;153 K intron_retention CUFF.103 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 49;737 N coord_cassette CUFF.96 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 151;11361 N mutually_exclusive CUFF.124 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 252;295 K jcn_only_AA CUFF.98 chr10 + chr10:43572780-43607546 chr10:43572780-43595906 122;21 K coord_cassette CUFF.83 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 205;3286 N jcn_only_AA CUFF.113 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 468;327 K jcn_only_AD CUFF.110,CUFF.112 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 chr10:74092489-74094375;chr10:74095592-74095689 21;259 K alternative_acceptor CUFF.84 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 998;13 K cassette CUFF.104 chr10 - chr10:69583151-69597691 chr10:69583151-69587299;chr10:69587442-69597691 chr10:69587300-69587441 1032;371 N alternative_acceptor CUFF.114 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 1314;24 N alternative_donor CUFF.113,CUFF.128 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 1260;71 N coord_cassette CUFF.96 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 488;12069 N alternative_acceptor CUFF.113 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1307;1319 K alternative_first_exon CUFF.124 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123688409 chr10:123687359-123687551 1064;334 N jcn_only_AD CUFF.124 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 12;1585 K alternative_last_exon CUFF.118,CUFF.84 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277594 chr10:6270159-6270315 1483;1399 K alternative_first_exon CUFF.108 chr10 - chr10:73973090-73975534;chr10:73973090-73975539;chr10:73973090-73975964 chr10:73973090-73976578 chr10:73975540-73975867;chr10:73975965-73976127 chr10:73976579-73976983 1857;817 K jcn_only_AA CUFF.106 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 58;132 K intron_retention CUFF.123 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 46;88 K cassette CUFF.100 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 chr10:46147414-46147481;chr10:46158990-46159290 74;836 K alternative_acceptor CUFF.118,CUFF.120 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 115;199 K cassette CUFF.113 chr10 - chr10:78729826-78771724 chr10:78729826-78734244;chr10:78734332-78771724 chr10:78734245-78734331 151;398 N alternative_acceptor CUFF.114 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 17;5747 N alternative_acceptor CUFF.95 chr10 - chr10:35360268-35379106 chr10:35378930-35379106 chr10:35360268-35378929 chr10:35360267-35360268 54;220 K alternative_donor CUFF.125 chr10 + chr10:124187833-124189139 chr10:124187937-124189139 chr10:124187833-124187936 chr10:124187832-124187833 72;138 K alternative_acceptor CUFF.104 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 60;718 N jcn_only_AA CUFF.113 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 174;248 N alternative_donor CUFF.114,CUFF.87 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 1314;20 N jcn_only_AA CUFF.119,CUFF.96 chr10 + chr10:101507148-101514285 chr10:101507148-101510125 chr10:101510126-101514285 chr10:101514285-101514286 1177;246 N alternative_acceptor CUFF.113 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 900;311 K jcn_only_AA CUFF.128 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 58;46 N jcn_only_AD chr10 + chr10:35426808-35437295;chr10:35416122-35437295 chr10:35416496-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 2775;379 K cassette CUFF.88 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 25;202 N jcn_only_AD chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 1057;314 K alternative_last_exon CUFF.87 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17645929-17646046 chr10:17657406-17657963 139;423 K coord_cassette CUFF.84 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266112-6266176;chr10:6266469-6266586 13;202 N alternative_acceptor CUFF.113 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 1686;78 N jcn_only_AD CUFF.108 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 786;372 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 248;3358 K jcn_only_AD CUFF.100 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 743;43 N mutually_exclusive CUFF.108 chr10 - chr10:73857209-73862607,chr10:73862726-73887839 chr10:73857209-73862091,chr10:73862171-73887839 chr10:73862608-73862725 chr10:73862092-73862170 160;269 N alternative_donor chr10 + chr10:35416496-35437295;chr10:35416122-35437295 chr10:35426808-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 1823;2232 K alternative_last_exon CUFF.115,CUFF.98 chr10 + chr10:88993347-88994873 chr10:88993347-88993679 chr10:88994874-88996759 chr10:88993680-88994735 406;514 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 1037;290 K intron_retention CUFF.105 chr10 + chr10:69921510-69925458 chr10:69921509-69921510;chr10:69925458-69925459 32;51 K jcn_only_AA CUFF.105,CUFF.120 chr10 + chr10:103190210-103221737 chr10:103190210-103221720 chr10:103221721-103221737 chr10:103221737-103221738 46;342 K alternative_first_exon CUFF.110,CUFF.82 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:428587-428701 chr10:418953-419152 chr10:415434-415573 125;64 K cassette CUFF.88 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 75;288 N coord_cassette CUFF.124 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 50;716 K cassette CUFF.104 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575888-69583071 chr10:69575798-69575887 665;1081 N jcn_only_AD chr10 + chr10:35416496-35437295;chr10:35416122-35437295 chr10:35426808-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 1707;1447 K intron_retention CUFF.125 chr10 + chr10:124134364-124152696 chr10:124134363-124134364;chr10:124152696-124152697 51;256 K intron_retention CUFF.108 chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 459;148 K mutually_exclusive CUFF.91 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 409;168 N jcn_only_AA CUFF.113 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 900;59 N coord_cassette CUFF.83 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5122937;chr10:5123094-5138601 chr10:5120062-5120169;chr10:5122938-5123093 372;394 N jcn_only_AA CUFF.113 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 614;181 N jcn_only_AA CUFF.113 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 929;178 K coord_cassette CUFF.96 chr10 + chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35490378;chr10:35490415-35495822 chr10:35477128-35477316;chr10:35490379-35490414 1043;6300 K intron_retention CUFF.108 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 613;748 K jcn_only_AA CUFF.96 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 5266;1442 K jcn_only_AD CUFF.105 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 5;284 K cassette CUFF.124 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 88;929 K cassette CUFF.111 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 119;212 N jcn_only_AA chr10 - chr10:78737397-78771724 chr10:78755467-78771724 29;39 K alternative_first_exon CUFF.107,CUFF.108 chr10 - chr10:73515224-73520624 chr10:73515224-73517334 chr10:73520625-73520681 chr10:73517335-73517478 11;82 K alternative_first_exon CUFF.110 chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74113100-74113198 chr10:74104708-74104885 chr10:74103124-74103269 32;434 K cassette CUFF.124 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 132;1422 N coord_cassette CUFF.96 chr10 + chr10:35464634-35468061 chr10:35464634-35464780;chr10:35464928-35467816;chr10:35467915-35468061 chr10:35464781-35464927;chr10:35467817-35467914 64;2454 K cassette CUFF.123 chr10 - chr10:119774622-119798482 chr10:119774622-119793492;chr10:119793553-119798482 chr10:119793493-119793552 6;127 K cassette CUFF.113 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 151;1133 N alternative_donor CUFF.113,CUFF.87 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 991;43 K cassette CUFF.456 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 2185;1513 N intron_retention chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 78;233 N coord_cassette CUFF.456 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 50;933 N jcn_only_AD CUFF.452 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 41;1630 N jcn_only_AA CUFF.457 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 352;167 K coord_cassette CUFF.459 chr17 - chr17:79354385-79358928 chr17:79354385-79355676;chr17:79355741-79358745;chr17:79358833-79358928 chr17:79355677-79355740;chr17:79358746-79358832 134;5992 N jcn_only_AD CUFF.413 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 523;1055 N jcn_only_AD CUFF.461 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 1865;74 N jcn_only_AD CUFF.413 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 923;121 K intron_retention CUFF.452 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 336;531 K jcn_only_AA CUFF.412 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 chr17:5421066-5421207 595;9 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 14;747 N jcn_only_AA CUFF.412 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 chr17:5487613-5487820;chr17:5487007-5487279 3;115 K intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 91;94 K intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 355;187 N jcn_only_AA CUFF.413 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 1055;90 K jcn_only_AD CUFF.410 chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 158;110 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 117;616 N cassette CUFF.409 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 107;516 N alternative_donor CUFF.452 chr17 + chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66508721-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 2469;140 N cassette CUFF.435 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 78;1007 K intron_retention CUFF.450 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 1808;283 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 145;158 N alternative_acceptor CUFF.460 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 70;2903 N intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 268;654 K alternative_acceptor CUFF.415 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 216;557 N alternative_donor CUFF.461 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 3414;523 K jcn_only_AD CUFF.412,CUFF.456 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 chr17:5436142-5436304;chr17:5436624-5436704 506;48 K alternative_first_exon CUFF.409,CUFF.465 chr17 - chr17:79993940-79994066,chr17:79993940-79994057 chr17:79993940-79994022 chr17:79994067-79994184 chr17:79994023-79994057 3184;83 N alternative_donor CUFF.443 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 2938;170 K intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 863;1098 N cassette CUFF.456 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 723;5535 K intron_retention CUFF.452 chr17 + chr17:66521100-66521894 chr17:66521099-66521100;chr17:66521894-66521895 815;139 K alternative_first_exon CUFF.441 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307939-47308214 chr17:47307830-47307890 441;262 K alternative_last_exon CUFF.452 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66547225-66547559 chr17:66526418-66529036 259;14129 K cassette CUFF.412 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 chr17:5421066-5421207;chr17:5424844-5425106 318;655 K alternative_donor CUFF.465 chr17 - chr17:79993940-79994066 chr17:79993940-79994057 chr17:79994058-79994066 chr17:79994066-79994067 2033;656 N jcn_only_AD CUFF.413 chr17 + chr17:6352728-6353681 chr17:6353393-6353681 208;611 N intron_retention CUFF.450 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 270;448 N alternative_donor CUFF.426 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 95;59 N alternative_donor CUFF.452 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 41;1867 N jcn_only_AA CUFF.411 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 652;34 N alternative_acceptor CUFF.416 chr17 - chr17:15580592-15580888 chr17:15580595-15580888 chr17:15580592-15580594 chr17:15580591-15580592 395;103 N jcn_only_AA CUFF.457 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 160;251 N jcn_only_AA CUFF.413 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 208;923 N alternative_donor CUFF.452 chr17 + chr17:66508721-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66509413-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 2399;210 N coord_cassette CUFF.456 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 50;2219 N jcn_only_AA CUFF.413 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 611;123 K intron_retention CUFF.435 chr17 - chr17:40738910-40744073 chr17:40738909-40738910;chr17:40744073-40744074 408;167 K intron_retention CUFF.466 chr17 + chr17:80416707-80417875 chr17:80416706-80416707;chr17:80417875-80417876 115;14 K intron_retention CUFF.457 chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 119;425 N alternative_acceptor CUFF.457 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 160;1289 N jcn_only_AD CUFF.450 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 79;4890 N intron_retention CUFF.460 chr17 - chr17:79479387-79479631 chr17:79479386-79479387;chr17:79479631-79479632 12;139 N coord_cassette CUFF.456 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 148;1750 N cassette CUFF.426 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 51;956 K intron_retention CUFF.423 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 101;118 K intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 313;385 N cassette CUFF.465 chr17 - chr17:79994890-79995506 chr17:79994890-79995325;chr17:79995424-79995506 chr17:79995326-79995423 309;1650 N jcn_only_AD CUFF.461 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 1514;425 N jcn_only_AA CUFF.410 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 1051;270 K intron_retention CUFF.450 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 1067;426 K intron_retention CUFF.441 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 72;196 K coord_cassette CUFF.426 chr17 + chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704;chr17:29584745-29585361 chr17:29579956-29580018;chr17:29584705-29584744 51;2472 N mutually_exclusive CUFF.459 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 117;304 N alternative_acceptor CUFF.461 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 108;4953 K intron_retention CUFF.450 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 123;419 N jcn_only_AA CUFF.410 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 1220;101 K intron_retention chr17 + chr17:25970647-25972339 chr17:25970646-25970647;chr17:25972339-25972340 494;200 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 85;737 K intron_retention CUFF.456 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 535;50 N alternative_donor CUFF.461 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 2250;1687 N alternative_donor CUFF.435 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 408;272 K intron_retention CUFF.462 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 chr17:79916811-79916871;chr17:79917347-79917442 877;219 K alternative_last_exon CUFF.418,CUFF.447 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396639 chr17:17388614-17388989 225;282 N intron_retention chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 18;334 N alternative_acceptor CUFF.416 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 1249;837 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 328;914 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 65;737 N jcn_only_AA CUFF.454 chr17 + chr17:29706042-29708890 chr17:29706042-29706123 158;31 N jcn_only_AD chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 200;310 N cassette CUFF.416 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 151;1033 N cassette CUFF.450 chr17 + chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210;chr17:61905284-61905478,chr17:61905284-61905497 chr17:61905211-61905283 1188;1138 K intron_retention CUFF.410 chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 110;788 K alternative_donor CUFF.440 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 216;513 N intron_retention CUFF.411 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 34;189 N intron_retention chr17 + chr17:6353099-6353347 chr17:6353098-6353099;chr17:6353347-6353348 121;599 K jcn_only_AA CUFF.421 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 chr17:21438689-21438799;chr17:21435641-21437282 46;12 N jcn_only_AA CUFF.416 chr17 - chr17:15580592-15580888 chr17:15580595-15580888 chr17:15580592-15580594 chr17:15580591-15580592 395;103 N cassette CUFF.416 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 876;1791 N alternative_acceptor CUFF.422 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 1577;186 N alternative_acceptor CUFF.412 chr17 - chr17:5487280-5487612 chr17:5487424-5487612 chr17:5487280-5487423 chr17:5487279-5487280 chr17:5487613-5487820;chr17:5487007-5487279 3;870 K intron_retention CUFF.452 chr17 + chr17:66522054-66523980 chr17:66522053-66522054;chr17:66523980-66523981 1314;203 K intron_retention CUFF.460 chr17 - chr17:79478653-79478788 chr17:79478652-79478653;chr17:79478788-79478789 211;320 N jcn_only_AD chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 270;863 N intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 206;1624 N jcn_only_AD CUFF.413 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1146;432 N alternative_first_exon CUFF.441 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496809 171;383 N alternative_last_exon CUFF.413 chr17 + chr17:6352728-6353681,chr17:6352728-6353347 chr17:6352728-6353023 chr17:6353682-6354789 chr17:6353024-6353342 3537;2616 N jcn_only_AA CUFF.465 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 2707;117 K intron_retention CUFF.466 chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 22;141 N intron_retention CUFF.416 chr17 - chr17:15546131-15580489 chr17:15546130-15546131;chr17:15580489-15580490 112;408 N jcn_only_AD CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66508637-66511534 chr17:66511294-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 640;202 N jcn_only_AA CUFF.466 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436447-80436675 chr17:80436675-80436676 1017;31 N cassette CUFF.452 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511294-66511534 chr17:66511128-66511293 497;686 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 65;2376 K cassette CUFF.433 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 123;1119 N jcn_only_AD CUFF.426 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 63;52 K cassette CUFF.417 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 53;446 K intron_retention CUFF.411 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 920;214 N intron_retention chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 200;3319 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 105;357 N alternative_first_exon CUFF.409 chr17 - chr17:653150-655857;chr17:653150-654890 chr17:653150-655372 chr17:655858-656061;chr17:654891-655341 chr17:655373-655501 1421;60 K alternative_first_exon CUFF.418 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380222-17380579 chr17:17388614-17388747 96;95 K intron_retention CUFF.411 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 652;227 N intron_retention chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 145;342 K cassette CUFF.414 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 chr17:8638414-8638572;chr17:8644792-8644989 55;267 K cassette CUFF.452 chr17 + chr17:66524042-66525010 chr17:66524042-66524771;chr17:66524861-66525010 chr17:66524772-66524860 982;908 K intron_retention CUFF.450 chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 188;192 K intron_retention CUFF.450 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 121;457 N jcn_only_AD CUFF.461 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 1669;270 K intron_retention CUFF.411 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 540;296 N jcn_only_AA CUFF.410 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 1322;207 N jcn_only_AD CUFF.413 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1487;91 K intron_retention CUFF.431 chr17 - chr17:34499761-34500203 chr17:34499760-34499761;chr17:34500203-34500204 720;388 N jcn_only_AA CUFF.410 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 1219;310 N coord_cassette CUFF.422 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 83;3680 K jcn_only_AD CUFF.465 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 208;2707 N alternative_acceptor CUFF.466 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436447-80436675 chr17:80436675-80436676 1017;31 K intron_retention CUFF.426 chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 688;22 N jcn_only_AA CUFF.410 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 1163;158 N alternative_first_exon CUFF.409 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655858-656061;chr17:655373-655501 chr17:654891-655341 310;1171 K cassette CUFF.410 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 1573;2965 K intron_retention CUFF.450 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 4119;363 K cassette CUFF.416 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 166;1874 K intron_retention CUFF.450 chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 1968;239 K jcn_only_AA CUFF.412 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 chr17:5421066-5421207 539;65 N jcn_only_AD CUFF.457 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 117;61 K intron_retention CUFF.416 chr17 - chr17:15535029-15535822 chr17:15535028-15535029;chr17:15535822-15535823 513;453 N jcn_only_AD CUFF.415 chr17 - chr17:15562191-15584178 chr17:15562191-15580489 233;120 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 117;1062 N cassette CUFF.422 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 46;1976 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 290;2489 K intron_retention CUFF.450 chr17 + chr17:61908587-61908686 chr17:61908586-61908587;chr17:61908686-61908687 3985;178 N jcn_only_AA CUFF.424,CUFF.452 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 1269;79 N alternative_donor CUFF.461 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 3833;104 N mutually_exclusive CUFF.416 chr17 - chr17:15584268-15586167,chr17:15586266-15586349 chr17:15584268-15584364,chr17:15584537-15586349 chr17:15586168-15586265 chr17:15584365-15584536 1683;124 K intron_retention CUFF.426 chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 831;37 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 104;723 K cassette CUFF.460 chr17 - chr17:79478653-79478928 chr17:79478653-79478788;chr17:79478830-79478928 chr17:79478789-79478829 2270;507 N alternative_last_exon CUFF.444 chr17 - chr17:57777551-57784731,chr17:57777238-57784731;chr17:57756906-57784731 chr17:57775340-57784731 chr17:57756728-57756905 chr17:57774636-57775339 1831;390 N cassette CUFF.450 chr17 + chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033;chr17:61905284-61905478,chr17:61905284-61905497 chr17:61905034-61905283 1188;1693 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 142;297 N jcn_only_AD CUFF.461 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 1671;268 N cassette CUFF.447 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 98;3150 K jcn_only_AA CUFF.412 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 chr17:5421066-5421207 74;530 N jcn_only_AD CUFF.411 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 1165;57 N jcn_only_AD CUFF.426 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 113;553 K alternative_last_exon CUFF.454 chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75557027-75559423 chr17:75544053-75544076 1472;91 K intron_retention CUFF.443 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 251;709 N alternative_acceptor CUFF.410 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 8576;211 K intron_retention CUFF.450 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 4890;488 K cassette CUFF.424 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 51;535 K jcn_only_AD CUFF.440 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 216;357 N alternative_donor CUFF.426 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 111;43 K intron_retention CUFF.465 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 3174;355 K alternative_last_exon CUFF.465 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79992914-79993121 chr17:79993656-79993939 227;5645 N jcn_only_AD CUFF.461 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 1626;313 N cassette CUFF.447 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 118;1695 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 47;123 N alternative_acceptor chr17 + chr17:61562734-61563652;chr17:61562734-61563719 chr17:61562734-61563917 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 297;573 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 619;240 N jcn_only_AD CUFF.443 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 358;85 N jcn_only_AA CUFF.457 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 52;336 N cassette CUFF.426 chr17 + chr17:29677337-29683477 chr17:29677337-29679274;chr17:29679433-29683477 chr17:29679275-29679432 116;1086 N intron_retention chr17 - chr17:79477356-79477504 chr17:79477355-79477356;chr17:79477504-79477505 152;2734 K cassette CUFF.466 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 828;4901 N alternative_donor CUFF.416,CUFF.444 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 157;79 K intron_retention CUFF.460 chr17 - chr17:79479169-79479257 chr17:79479168-79479169;chr17:79479257-79479258 1761;502 K intron_retention CUFF.461 chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 128;730 N intron_retention CUFF.450 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 112;743 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 1165;133 K intron_retention CUFF.416 chr17 - chr17:15584268-15584364 chr17:15584267-15584268;chr17:15584364-15584365 54;74 N alternative_first_exon chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57784732-57784776 chr17:57776232-57776329 35;91 N cassette CUFF.447 chr17 + chr17:61560051-61560820 chr17:61560051-61560389;chr17:61560535-61560820 chr17:61560390-61560534 180;739 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 50;1372 N jcn_only_AD CUFF.461 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 1382;557 N mutually_exclusive CUFF.416 chr17 - chr17:15584268-15586174,chr17:15586266-15586349 chr17:15584268-15584364,chr17:15584537-15586349 chr17:15586175-15586265 chr17:15584365-15584536 888;124 N intron_retention chr17 + chr17:25965381-25967668 chr17:25965380-25965381;chr17:25967668-25967669 370;958 K intron_retention CUFF.411 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 626;504 N intron_retention chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 123;270 N jcn_only_AA CUFF.457 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 170;119 N alternative_donor CUFF.454 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 27;178 N jcn_only_AA chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 328;1165 N alternative_acceptor chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 328;5092 N cassette CUFF.459 chr17 - chr17:79354385-79358928;chr17:79355741-79358928 chr17:79355741-79358745,chr17:79354385-79358745;chr17:79358833-79358928 chr17:79358746-79358832 257;3815 N cassette CUFF.456 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 50;3227 K intron_retention CUFF.452 chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 142;255 K cassette CUFF.441 chr17 - chr17:47302494-47304008 chr17:47302494-47303017;chr17:47303140-47304008 chr17:47303018-47303139 chr17:47300627-47302493;chr17:47304009-47304116 205;127 N alternative_donor chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 1297;1811 N alternative_acceptor CUFF.410 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 9573;110 K intron_retention CUFF.413 chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 432;1026 N jcn_only_AD CUFF.443 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 273;170 N jcn_only_AA CUFF.450 chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 633;82 N alternative_acceptor CUFF.443 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 104;1227 K jcn_only_AA CUFF.430 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 263;477 K intron_retention CUFF.465 chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 680;1182 N jcn_only_AD CUFF.447 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 236;565 K cassette CUFF.431 chr17 - chr17:34500807-34502089 chr17:34500807-34501765;chr17:34501989-34502089 chr17:34501766-34501988 124;2266 K jcn_only_AD CUFF.465 chr17 - chr17:79993940-79994066 chr17:79993940-79994057 chr17:79994058-79994066 chr17:79994066-79994067 2033;550 N intron_retention chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 30;282 N alternative_donor CUFF.426 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 113;757 N cassette CUFF.426 chr17 + chr17:29576138-29584704 chr17:29576138-29579955;chr17:29580019-29584704 chr17:29579956-29580018 65;1646 N jcn_only_AA CUFF.426 chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 569;145 N jcn_only_AD CUFF.466 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 1853;57 N jcn_only_AD CUFF.447 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 573;301 K cassette CUFF.440 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 233;849 K cassette CUFF.446 chr17 + chr17:60783831-60813446 chr17:60783831-60784792;chr17:60784969-60813446 chr17:60784793-60784968 93;1268 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 113;547 N intron_retention CUFF.460 chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 77;141 N alternative_acceptor CUFF.450 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 4890;438 K intron_retention CUFF.450 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 139;589 N jcn_only_AA CUFF.461 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 108;2426 N cassette CUFF.459 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 183;4181 N jcn_only_AD chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 253;50 K alternative_first_exon CUFF.412,CUFF.438 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339515 110;545 N alternative_last_exon CUFF.415 chr17 - chr17:15492542-15499827 chr17:15498141-15499827,chr17:15498205-15499827 chr17:15491610-15492541 chr17:15498062-15498140 644;554 N jcn_only_AD CUFF.452 chr17 + chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66508721-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 750;92 N jcn_only_AA CUFF.450 chr17 + chr17:61904875-61905210;chr17:61904875-61905188 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 535;123 K intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 1266;789 N cassette CUFF.417 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 242;2270 K alternative_first_exon CUFF.439 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46711031 chr17:46685591-46685764 244;248 K cassette CUFF.440 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 233;1166 K coord_cassette CUFF.435 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 753;1999 K alternative_first_exon CUFF.424 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421849-29422387 chr17:29455427-29455525 873;99 N alternative_donor CUFF.413 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 2043;432 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 170;395 N intron_retention CUFF.416 chr17 - chr17:15584268-15586167 chr17:15584267-15584268;chr17:15586167-15586168 962;121 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 101;3291 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 880;965 N intron_retention chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 87;861 N alternative_donor CUFF.443 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 1981;1127 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 592;2734 K intron_retention CUFF.440 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 216;371 N intron_retention chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 chr17:5487007-5487423;chr17:5487613-5487820 115;1121 N cassette CUFF.447 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 74;2303 N alternative_donor CUFF.411 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 1165;400 K intron_retention CUFF.416 chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 130;1494 K intron_retention CUFF.450 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 108;388 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 57;886 K intron_retention CUFF.447 chr17 + chr17:61566494-61568314 chr17:61566493-61566494;chr17:61568314-61568315 633;143 N jcn_only_AD CUFF.411 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 30;886 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 72;1548 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 43;575 N jcn_only_AA CUFF.450 chr17 + chr17:61904875-61905033;chr17:61904875-61905210 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 546;112 N jcn_only_AD CUFF.443 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 802;92 K intron_retention CUFF.452 chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 117;152 K intron_retention CUFF.426 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 825;35 K jcn_only_AD CUFF.466 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 940;972 K cassette CUFF.451 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 38;376 K intron_retention CUFF.452 chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 202;494 N alternative_acceptor CUFF.447 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 709;341 N alternative_donor CUFF.411 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 30;1163 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 2111;1032 N intron_retention chr17 + chr17:25970647-25972886 chr17:25970646-25970647;chr17:25972886-25972887 199;90 K intron_retention CUFF.465 chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 89;1322 N alternative_acceptor CUFF.413 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 1055;256 N jcn_only_AA CUFF.457 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 236;53 K alternative_first_exon CUFF.439 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685764 chr17:46710876-46711031 405;87 N alternative_acceptor chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 370;1426 K intron_retention CUFF.413 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 611;416 N jcn_only_AD CUFF.426 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 569;154 N jcn_only_AA CUFF.450 chr17 + chr17:61904875-61905033;chr17:61904875-61905188 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 235;423 K intron_retention CUFF.447 chr17 + chr17:61564435-61566008 chr17:61564434-61564435;chr17:61566008-61566009 709;380 K cassette CUFF.450 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 188;4069 K intron_retention CUFF.417 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 117;138 K cassette CUFF.451 chr17 - chr17:66279265-66287226 chr17:66279265-66281685;chr17:66281784-66287226 chr17:66281686-66281783 20;129 K intron_retention CUFF.434 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 92;84 K intron_retention CUFF.419 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 389;952 N jcn_only_AD CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66511261-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 506;336 K intron_retention CUFF.416 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 1249;382 N jcn_only_AA CUFF.447 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 634;236 N jcn_only_AD CUFF.426 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 95;20 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 255;188 N jcn_only_AD CUFF.416,CUFF.444 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 157;47 N alternative_acceptor CUFF.457 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 264;405 N jcn_only_AD CUFF.411 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 709;121 N jcn_only_AD CUFF.454 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 27;9 N intron_retention chr17 - chr17:79479142-79479257 chr17:79479141-79479142;chr17:79479257-79479258 70;1159 N alternative_acceptor CUFF.410 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 6815;2868 K intron_retention CUFF.457 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 117;426 N jcn_only_AA CUFF.416 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 1249;78 K jcn_only_AA CUFF.465 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 970;679 K jcn_only_AA CUFF.440,CUFF.452 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 74;203 K alternative_donor CUFF.410 chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 158;3866 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 14;3982 N alternative_donor CUFF.426 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 569;776 N alternative_acceptor CUFF.426 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 52;73 K intron_retention CUFF.452 chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 321;269 N jcn_only_AA CUFF.447 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 709;170 N jcn_only_AA CUFF.410 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 1419;110 K alternative_donor CUFF.412,CUFF.456 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 chr17:5436142-5436304;chr17:5436624-5436704 506;48 N alternative_acceptor CUFF.410 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 8170;1513 N cassette CUFF.466 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 847;2753 N intron_retention CUFF.460 chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 64;155 N coord_cassette CUFF.456 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 346;1983 N cassette CUFF.452 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 497;694 N cassette CUFF.422 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 497;1312 N alternative_acceptor CUFF.447 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 634;236 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 155;3843 K alternative_acceptor CUFF.421 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 chr17:21438689-21438799;chr17:21435641-21437282 46;104 N alternative_acceptor CUFF.410 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 7588;1199 N alternative_acceptor CUFF.426 chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 569;145 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 128;1709 K cassette CUFF.417 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 44;396 K intron_retention CUFF.450 chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 633;563 K coord_cassette CUFF.452 chr17 + chr17:66508690-66511534 chr17:66508690-66509050;chr17:66509112-66511127;chr17:66511294-66511534 chr17:66509051-66509111;chr17:66511128-66511293 321;486 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 82;252 N jcn_only_AA CUFF.457 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 172;117 K intron_retention CUFF.452 chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 15;164 N alternative_donor CUFF.426 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 102;52 K cassette CUFF.412 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 chr17:5437217-5437308;chr17:5442735-5442905 204;665 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 208;95 K jcn_only_AA CUFF.466 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 115;1548 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 88;356 K cassette CUFF.416 chr17 - chr17:15584268-15586349 chr17:15584268-15586174;chr17:15586266-15586349 chr17:15586175-15586265 820;888 K cassette CUFF.451 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 92;131 N jcn_only_AA CUFF.411 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 196;62 K alternative_first_exon CUFF.460 chr17 - chr17:79479387-79479489,chr17:79479387-79479631,chr17:79479387-79479640,chr17:79479387-79481572;chr17:79479387-79490667 chr17:79479387-79479759 chr17:79490668-79490972 chr17:79479760-79479900 2148;1022 K alternative_acceptor CUFF.465 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 970;1617 K intron_retention CUFF.450 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 423;691 K alternative_donor CUFF.465 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 208;3269 K alternative_first_exon CUFF.416 chr17 - chr17:15532513-15539349 chr17:15532513-15534932 chr17:15539350-15539583 chr17:15534933-15535384 809;2307 K intron_retention CUFF.460 chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 857;359 K alternative_acceptor CUFF.466 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 115;1553 K alternative_last_exon CUFF.412 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5424844-5425106 chr17:5433166-5433378 chr17:5433801-5434024 1357;335 K alternative_first_exon CUFF.461 chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79900172-79900378 chr17:79894624-79894845 120;2501 K coord_cassette CUFF.456 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 346;1750 K cassette CUFF.422 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 533;2676 N alternative_acceptor CUFF.424,CUFF.452 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 1269;79 N intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 207;566 K cassette CUFF.417 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 189;233 N jcn_only_AD CUFF.426 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 146;69 N alternative_acceptor CUFF.411 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 652;185 N mutually_exclusive CUFF.461 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 96;79 N jcn_only_AA chr17 + chr17:61562734-61563652;chr17:61562734-61563719 chr17:61562734-61563917 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 297;573 N alternative_donor CUFF.413 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 2312;163 K intron_retention CUFF.465 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 2254;1584 N alternative_acceptor CUFF.410 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 9335;348 K intron_retention CUFF.457 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 438;691 K intron_retention CUFF.422 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 1158;200 N alternative_donor CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66508637-66511534 chr17:66511294-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 1624;985 N alternative_acceptor CUFF.410 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 3444;5343 N alternative_acceptor CUFF.410 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 1126;403 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 170;527 N cassette CUFF.435 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 110;648 K coord_cassette CUFF.451 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66281685;chr17:66281784-66287226 chr17:66279138-66279264;chr17:66281686-66281783 92;213 N alternative_first_exon chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77005746-77006044 chr17:77004145-77004234 867;76 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 208;350 N alternative_acceptor CUFF.410 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 8629;158 K coord_cassette CUFF.452 chr17 + chr17:66508690-66511534 chr17:66508690-66509050;chr17:66509112-66511127;chr17:66511261-66511534 chr17:66509051-66509111;chr17:66511128-66511260 321;490 N jcn_only_AA CUFF.422 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 1577;116 N cassette CUFF.461 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 206;2677 N alternative_acceptor CUFF.450 chr17 + chr17:61904875-61905033;chr17:61904875-61905210 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 1595;326 N jcn_only_AD CUFF.435 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 408;197 K intron_retention chr17 + chr17:61571832-61573754 chr17:61571831-61571832;chr17:61573754-61573755 714;412 N alternative_donor chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 200;4066 N alternative_donor CUFF.413 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 923;236 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 58;571 N cassette CUFF.450 chr17 + chr17:61905570-61907211 chr17:61905570-61906853;chr17:61906924-61907211 chr17:61906854-61906923 88;3326 K intron_retention CUFF.415 chr17 - chr17:15501968-15508536 chr17:15501967-15501968;chr17:15508536-15508537 21;265 K intron_retention chr17 + chr17:25965381-25967597 chr17:25965380-25965381;chr17:25967597-25967598 661;267 N jcn_only_AD CUFF.461 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 1907;32 K intron_retention CUFF.465 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 2973;608 K cassette CUFF.436 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 161;834 N alternative_acceptor CUFF.465 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 2707;600 N cassette CUFF.466 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442807-80443372 chr17:80442689-80442806 86;1311 N alternative_donor CUFF.447 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 2836;370 N cassette CUFF.416 chr17 - chr17:15546131-15562115;chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15580489,chr17:15555261-15562115 chr17:15554405-15555260 241;1757 K cassette CUFF.466 chr17 + chr17:80436795-80438957 chr17:80436795-80438282;chr17:80438421-80438957 chr17:80438283-80438420 1762;62 N jcn_only_AD CUFF.452 chr17 + chr17:66508721-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66509413-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 747;95 N alternative_donor CUFF.466 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 1853;848 K intron_retention CUFF.465 chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 208;1045 K intron_retention CUFF.410 chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 158;2956 K jcn_only_AD CUFF.450 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 108;1968 K intron_retention CUFF.459 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 2182;84 N alternative_donor CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66511261-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 1452;1157 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 57;114 N alternative_acceptor CUFF.457 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 550;119 N alternative_donor CUFF.461 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 3350;587 N cassette CUFF.432 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 170;237 K intron_retention CUFF.465 chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 679;383 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 32;642 N jcn_only_AA CUFF.426 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 146;41 K intron_retention chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 747;241 K intron_retention CUFF.460 chr17 - chr17:79478653-79478928 chr17:79478652-79478653;chr17:79478928-79478929 2270;197 K intron_retention CUFF.466 chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 828;372 N intron_retention CUFF.413 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 123;385 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 39;1086 N jcn_only_AD CUFF.447 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 862;65 N alternative_acceptor CUFF.450 chr17 + chr17:61904875-61905033;chr17:61904875-61905188 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 1498;423 N jcn_only_AD CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534 chr17:66508637-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 725;117 N jcn_only_AD CUFF.447 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 688;113 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 65;317 K alternative_first_exon CUFF.466 chr17 + chr17:80417325-80417867,chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416394-80417867 chr17:80416707-80417867 chr17:80416056-80416393 chr17:80416472-80416706 2431;3850 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 592;3963 N alternative_donor CUFF.443 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 802;134 N alternative_acceptor CUFF.410 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 4839;4844 K intron_retention CUFF.416 chr17 - chr17:15584268-15586174 chr17:15584267-15584268;chr17:15586174-15586175 120;121 N alternative_acceptor CUFF.457 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 352;1143 K intron_retention CUFF.460 chr17 - chr17:79478830-79478928 chr17:79478829-79478830;chr17:79478928-79478929 296;143 K cassette CUFF.433 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 9;222 N jcn_only_AD CUFF.426 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 72;43 N jcn_only_AA CUFF.410 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 1121;200 N intron_retention CUFF.435 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 197;104 N alternative_donor CUFF.457 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 117;3240 N alternative_acceptor CUFF.450 chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 633;266 N alternative_donor CUFF.461 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 3863;74 N jcn_only_AA chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 370;661 K intron_retention CUFF.450 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 2060;212 N jcn_only_AA CUFF.426 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 52;34 K coord_cassette CUFF.416 chr17 - chr17:15584268-15586349 chr17:15584268-15584364;chr17:15584537-15586167;chr17:15586266-15586349 chr17:15584365-15584536;chr17:15586168-15586265 820;181 K intron_retention CUFF.450 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 2101;211 N intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 270;604 K intron_retention CUFF.440 chr17 + chr17:46993550-46998521 chr17:46993549-46993550;chr17:46998521-46998522 840;165 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 72;151 K cassette CUFF.457 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 328;300 K alternative_acceptor CUFF.430 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 263;477 N jcn_only_AA CUFF.443 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 104;251 N alternative_acceptor CUFF.457 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 52;1426 K intron_retention CUFF.460 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 1787;176 N coord_cassette CUFF.456 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 229;1775 K cassette CUFF.452 chr17 + chr17:66508690-66511127 chr17:66508690-66509050;chr17:66509112-66511127 chr17:66509051-66509111 15;259 K intron_retention CUFF.465 chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 2707;1030 N alternative_acceptor CUFF.413 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 611;534 K intron_retention CUFF.438 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 47;80 K jcn_only_AA CUFF.415 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 216;338 K alternative_first_exon CUFF.412,CUFF.460 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5409297 chr17:5403351-5404514 chr17:5402649-5403270 4590;4153 N cassette CUFF.456 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 1708;1170 K alternative_first_exon CUFF.439 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46711031;chr17:46685591-46685764 chr17:46687881-46688379 335;157 N jcn_only_AA CUFF.410 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 666;863 K intron_retention chr17 - chr17:40738156-40738782 chr17:40738155-40738156;chr17:40738782-40738783 599;627 N coord_cassette CUFF.426 chr17 + chr17:29664899-29667522 chr17:29664899-29665042;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665043-29665157;chr17:29665722-29665823 133;1312 N alternative_donor CUFF.461 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 3530;407 N alternative_first_exon CUFF.409 chr17 - chr17:653150-654890;chr17:653150-655372 chr17:653150-655857 chr17:654891-655341;chr17:655373-655501 chr17:655858-656061 1231;250 N alternative_donor CUFF.447 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 3093;113 N alternative_donor CUFF.447 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 862;3298 N alternative_acceptor CUFF.450 chr17 + chr17:61904875-61905210;chr17:61904875-61905188 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210 chr17:61905188-61905189;chr17:61905210-61905211 749;1172 K intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 425;509 K cassette CUFF.411 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 207;1560 N intron_retention chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 310;1151 N cassette CUFF.416 chr17 - chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15584364;chr17:15584537-15586167,chr17:15584537-15586349 chr17:15584365-15584536 1782;258 N alternative_acceptor CUFF.426 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 146;41 N jcn_only_AA CUFF.410 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 1126;55 N alternative_acceptor CUFF.413 chr17 + chr17:6352728-6353681 chr17:6352728-6353347 chr17:6353348-6353681 chr17:6353681-6353682 208;1957 N alternative_donor CUFF.447 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 573;1291 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 592;207 K intron_retention CUFF.426 chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 650;12 N alternative_donor CUFF.426 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 146;752 N alternative_donor CUFF.452 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534 chr17:66508637-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 2492;117 N alternative_donor CUFF.411 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 709;347 K intron_retention CUFF.466 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 1762;164 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 52;19 N alternative_acceptor CUFF.413,CUFF.447 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 809;61 K intron_retention CUFF.422 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 1004;46 K intron_retention CUFF.414 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 chr17:8647845-8648038;chr17:8648147-8648236 68;181 N alternative_donor chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 270;4619 N jcn_only_AA CUFF.450 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 4890;270 K intron_retention CUFF.452 chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 1133;222 N alternative_donor CUFF.413 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 595;1880 K alternative_last_exon CUFF.431 chr17 - chr17:34497370-34497912 chr17:34497494-34497912 chr17:34497249-34497369 chr17:34497372-34497493 199;95 N intron_retention chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 109;653 N jcn_only_AA CUFF.413,CUFF.447 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 809;61 K intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 188;750 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 72;4891 N intron_retention CUFF.450 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 176;318 N cassette CUFF.447 chr17 + chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562428-61562596 chr17:61562331-61562427 387;425 K coord_cassette CUFF.417 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 53;687 N alternative_donor CUFF.461 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 3382;555 K intron_retention CUFF.411 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 1350;579 N jcn_only_AD CUFF.447 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 678;123 K intron_retention CUFF.447 chr17 + chr17:61571021-61571282 chr17:61571020-61571021;chr17:61571282-61571283 565;415 N intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 78;569 N intron_retention chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 642;1173 N jcn_only_AA CUFF.410 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 1490;39 N alternative_acceptor CUFF.410 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 6911;1876 N jcn_only_AA CUFF.460 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 70;1761 K intron_retention chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 970;974 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 270;3266 K cassette CUFF.449 chr17 - chr17:61843555-61850771 chr17:61843555-61850136;chr17:61850224-61850771 chr17:61850137-61850223 230;197 K intron_retention CUFF.447 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 215;428 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 309;1703 K intron_retention CUFF.443 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 474;298 N alternative_donor CUFF.447 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 483;2723 N alternative_acceptor CUFF.457 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 524;145 K intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 557;490 K alternative_last_exon CUFF.415 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491610-15492541 47;1416 N jcn_only_AA CUFF.410 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 729;592 K intron_retention chr17 + chr17:6352728-6353347 chr17:6352727-6352728;chr17:6353347-6353348 923;89 N alternative_acceptor CUFF.411 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 196;155 K coord_cassette CUFF.431 chr17 - chr17:34500807-34503839 chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839 chr17:34502090-34502175;chr17:34502339-34502411 374;1312 K intron_retention CUFF.412 chr17 - chr17:5487280-5487612 chr17:5487279-5487280;chr17:5487612-5487613 chr17:5487007-5487279;chr17:5487613-5487820 3;1019 N intron_retention CUFF.450 chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 82;594 K intron_retention CUFF.436 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 261;352 K alternative_first_exon CUFF.440 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985638-46986182 chr17:46990196-46990327 230;772 K cassette CUFF.437 chr17 - chr17:42113669-42114779 chr17:42113669-42114229;chr17:42114471-42114779 chr17:42114230-42114470 chr17:42111904-42113668;chr17:42114780-42114906 186;993 K coord_cassette CUFF.378 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 1525;945 K cassette CUFF.393 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 549;186 K cassette CUFF.364 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 136;861 N alternative_donor CUFF.366,CUFF.404 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 1288;1492 N jcn_only_AD CUFF.373 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 230;241 K intron_retention CUFF.375 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 552;136 K intron_retention CUFF.400 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 209;7 K intron_retention CUFF.387 chr16 + chr16:31371785-31372383 chr16:31371784-31371785;chr16:31372383-31372384 16;7 K jcn_only_AD CUFF.375 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 620;133 K cassette CUFF.395 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 399;747 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 493;39 K alternative_first_exon CUFF.374 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19612986-19613045 chr16:19619043-19619183 964;2465 K intron_retention CUFF.386 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 389;254 N intron_retention CUFF.366 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 371;515 N intron_retention chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 75;103 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 64;1626 N cassette CUFF.378 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 1525;550 N cassette CUFF.363 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 547;12658 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 40;369 N intron_retention chr16 - chr16:4445341-4466459 chr16:4445340-4445341;chr16:4466459-4466460 506;171 K intron_retention CUFF.375 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 24;287 N alternative_donor CUFF.391 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 3043;1128 N jcn_only_AA CUFF.400 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 123;1613 N alternative_acceptor CUFF.366 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 1754;387 N alternative_donor CUFF.363 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 4616;1462 K alternative_first_exon CUFF.408 chr16 + chr16:89788254-89788938;chr16:89786991-89788938 chr16:89787685-89788938 chr16:89787907-89788253;chr16:89786808-89786990 chr16:89787360-89787684 1622;713 K alternative_first_exon CUFF.365 chr16 - chr16:4254636-4289634;chr16:4254636-4256727 chr16:4254636-4292007 chr16:4289635-4289824;chr16:4256728-4258105 chr16:4292008-4292171 674;18 N alternative_acceptor CUFF.355 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 13;1297 K alternative_last_exon CUFF.371 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660204-5660675 278;2240 K intron_retention CUFF.408 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 1263;500 K intron_retention CUFF.408 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 1269;313 N intron_retention CUFF.354 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 79;497 K jcn_only_AD CUFF.400 chr16 + chr16:70395414-70398445 chr16:70395540-70398445 chr16:70395414-70395539 chr16:70395413-70395414 484;51 N coord_cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70390748;chr16:70390810-70394679;chr16:70394798-70395320;chr16:70395414-70398445 chr16:70390749-70390809;chr16:70394680-70394797;chr16:70395321-70395413 46;453 K alternative_acceptor CUFF.407 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 135;73 N jcn_only_AD CUFF.374 chr16 + chr16:19621738-19637498 chr16:19628131-19637498 132;436 K intron_retention chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 76;1335 N jcn_only_AD chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 333;123 N cassette CUFF.366 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 250;2179 N coord_cassette CUFF.374 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 113;5600 K intron_retention CUFF.366 chr16 - chr16:4465854-4466459 chr16:4465853-4465854;chr16:4466459-4466460 323;354 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 226;892 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 4148;23 N cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395540-70398445 chr16:70395321-70395539 46;787 K intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 69;274 K intron_retention CUFF.382 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 477;1444 K intron_retention CUFF.400 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 627;294 N intron_retention chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 219;636 K cassette CUFF.366 chr16 - chr16:4463406-4466459 chr16:4463406-4465715;chr16:4465854-4466459 chr16:4465716-4465853 1111;1278 K cassette CUFF.400 chr16 + chr16:70380952-70384459 chr16:70380952-70381777;chr16:70381894-70384459 chr16:70381778-70381893 482;174 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 348;131 N jcn_only_AA CUFF.363 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 118;209 N alternative_acceptor CUFF.391 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 4153;278 N alternative_acceptor CUFF.406 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 13;3729 N intron_retention chr16 - chr16:57513601-57521042 chr16:57513600-57513601;chr16:57521042-57521043 85;392 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 1307;550 N jcn_only_AD chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 168;311 K intron_retention CUFF.386 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 869;434 K cassette CUFF.375 chr16 + chr16:21737980-21739561 chr16:21737980-21738432;chr16:21738481-21739561 chr16:21738433-21738480 817;35 N jcn_only_AA chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 38;318 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 3661;510 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 777;174 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2707;61 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 1282;172 K alternative_last_exon CUFF.355 chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:597559-598302 chr16:596817-597392 2113;453 K jcn_only_AA CUFF.387 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 249;18 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 1798;429 N jcn_only_AA CUFF.354,CUFF.387 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 1498;79 K alternative_first_exon CUFF.375 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695668-21695873 68;795 K alternative_acceptor CUFF.399 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 15;294 K cassette CUFF.396 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 106;5012 N alternative_donor CUFF.355 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 78;16 K alternative_acceptor CUFF.408 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 201;969 N alternative_acceptor CUFF.389 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 1129;146 K intron_retention CUFF.386 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 1292;79 K alternative_donor CUFF.408 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 766;526 K jcn_only_AA CUFF.399 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 15;294 K jcn_only_AD CUFF.395,CUFF.407 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 183;243 K jcn_only_AA CUFF.374 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 856;219 N jcn_only_AD CUFF.355 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 78;13 K jcn_only_AD CUFF.404 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 chr16:75575248-75575353;chr16:75576500-75576581 320;105 N cassette CUFF.404 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 chr16:75576500-75576581;chr16:75589702-75590255 107;380 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 324;893 N alternative_first_exon CUFF.381 chr16 + chr16:22448814-22466022 chr16:22462980-22466022 chr16:22448329-22448813 chr16:22462915-22462979 34;482 K alternative_first_exon CUFF.389 chr16 + chr16:56269297-56309842;chr16:56227625-56309842;chr16:56260484-56309842 chr16:56226529-56309842 chr16:56227496-56227624;chr16:56260385-56260483 chr16:56226486-56226528 1166;40 K intron_retention CUFF.357 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 328;402 K intron_retention CUFF.381 chr16 + chr16:22494549-22494716 chr16:22494548-22494549;chr16:22494716-22494717 81;788 K intron_retention CUFF.404 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 chr16:75589702-75589871;chr16:75589969-75590255 254;232 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2683;85 N jcn_only_AA CUFF.389 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 367;83 N coord_cassette CUFF.400 chr16 + chr16:70390151-70395320 chr16:70390151-70390748;chr16:70390810-70394679;chr16:70394798-70395320 chr16:70390749-70390809;chr16:70394680-70394797 272;151 K alternative_acceptor CUFF.374 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 856;846 K intron_retention CUFF.378 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 314;1027 K intron_retention CUFF.366 chr16 - chr16:4410365-4410444 chr16:4410364-4410365;chr16:4410444-4410445 1885;191 N jcn_only_AD CUFF.382,CUFF.399 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 124;26 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57520216 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2760;8 K alternative_first_exon CUFF.365 chr16 - chr16:4254636-4289634;chr16:4254636-4292007 chr16:4254636-4256727 chr16:4289635-4289824;chr16:4292008-4292171 chr16:4256728-4258105 103;589 K intron_retention CUFF.408 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 760;190 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57520216 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 4163;8 N mutually_exclusive CUFF.363 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 313;1089 N coord_cassette CUFF.363 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 146;16641 K jcn_only_AA CUFF.407 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 135;53 N alternative_donor CUFF.404 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 chr16:75579724-75579852;chr16:75589702-75590255 296;51 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77776256 chr16:77769725-77770226 1057;2484 N coord_cassette CUFF.378 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 75;349 N jcn_only_AD CUFF.399 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 234;14 K alternative_acceptor CUFF.396 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 118;2198 N cassette CUFF.373 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 123;1171 N alternative_donor CUFF.381 chr16 + chr16:22466187-22470675 chr16:22466927-22470675 chr16:22466187-22466926 chr16:22466186-22466187 551;10 K jcn_only_AD CUFF.375 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 552;7 N mutually_exclusive CUFF.386 chr16 - chr16:30005130-30006423,chr16:30006785-30006861 chr16:30005130-30005226,chr16:30006165-30006861 chr16:30006424-30006784 chr16:30005227-30006164 2420;742 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 131;307 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 154;1071 K cassette CUFF.374 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 33;1136 K alternative_acceptor CUFF.396,CUFF.400 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 556;539 K jcn_only_AD CUFF.375 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 1407;32 N alternative_donor chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 2014;1317 N intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 699;364 N cassette CUFF.387 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 19;216 K jcn_only_AA CUFF.396 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 118;2198 N cassette CUFF.373 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 43;1143 K intron_retention CUFF.361 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 629;397 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 3923;248 K alternative_donor CUFF.375 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 620;378 N cassette CUFF.404 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579976-75589701 chr16:75579724-75579975 chr16:75576500-75576581;chr16:75589702-75590255 107;322 K alternative_first_exon CUFF.385 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523453 chr16:28518102-28518155 158;126 K intron_retention CUFF.382 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 919;1442 N alternative_acceptor CUFF.354,CUFF.387 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 1498;635 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2288;480 N alternative_acceptor CUFF.363 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 118;3316 K alternative_last_exon CUFF.394 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66620900-66621001 chr16:66613929-66614027 150;163 N alternative_donor CUFF.373 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 230;279 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 109;141 K coord_cassette CUFF.378 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 449;5757 N alternative_first_exon CUFF.369 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 chr16:4524691-4524848;chr16:4526289-4526418 chr16:4545844-4546028 1244;237 N cassette CUFF.378 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 152;444 K alternative_acceptor CUFF.395 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 244;1361 K alternative_last_exon CUFF.405 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170165-76170263 chr16:76174260-76174301 219;1755 K alternative_donor CUFF.382 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 919;550 K cassette CUFF.406 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 398;151 K intron_retention CUFF.387 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 18;88 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 410;40 K cassette CUFF.374 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 468;3913 K intron_retention CUFF.381 chr16 + chr16:22477140-22477517 chr16:22477139-22477140;chr16:22477517-22477518 127;68 N cassette CUFF.369 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 50;1758 K intron_retention CUFF.395 chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 791;180 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 103;429 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2069;699 N cassette CUFF.363 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 300;12772 N jcn_only_AD CUFF.366,CUFF.404 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 1288;371 N cassette CUFF.400 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 275;1404 N jcn_only_AD CUFF.363 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 2517;1307 K intron_retention CUFF.366 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 2578;365 N alternative_donor CUFF.399 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 317;27 K intron_retention CUFF.397 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 115;227 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 263;2056 N coord_cassette CUFF.366 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 340;6956 N jcn_only_AD CUFF.399 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 317;18 N cassette CUFF.387 chr16 + chr16:31374696-31382404 chr16:31374696-31381301;chr16:31381420-31382404 chr16:31381302-31381419 35;14 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 360;707 N coord_cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70394679;chr16:70394798-70395320;chr16:70395414-70398445 chr16:70394680-70394797;chr16:70395321-70395413 46;678 K intron_retention chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 28;200 N intron_retention chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 41;362 K jcn_only_AA CUFF.395 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 244;791 K alternative_first_exon CUFF.374 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566465-19566642 chr16:19566683-19567068 492;1904 N alternative_first_exon chr16 - chr16:4445341-4447318,chr16:4445341-4466785;chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466460-4466785 chr16:4455492-4455568 1670;1754 K jcn_only_AA CUFF.400 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 69;777 K jcn_only_AD CUFF.396 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 1680;440 N cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 46;756 N jcn_only_AA CUFF.391 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 4153;55 K intron_retention CUFF.408 chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 838;44 K alternative_last_exon CUFF.384 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097563-25098044;chr16:25111788-25112006 chr16:25096913-25097093 2860;192 N jcn_only_AA CUFF.382 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1812;919 N alternative_first_exon CUFF.369 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 chr16:4524691-4524848;chr16:4545844-4546028 chr16:4526289-4526418 1128;353 N jcn_only_AA CUFF.366 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 1754;282 N cassette CUFF.404 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 chr16:75576500-75576581;chr16:75579724-75579975 44;552 K intron_retention CUFF.397 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 165;267 K jcn_only_AD CUFF.366,CUFF.399 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 10;257 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 131;378 N jcn_only_AA CUFF.355 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 13;20 K alternative_donor CUFF.400 chr16 + chr16:70395414-70398445 chr16:70395540-70398445 chr16:70395414-70395539 chr16:70395413-70395414 484;493 K jcn_only_AA CUFF.404 chr16 - chr16:75579853-75589701 chr16:75579976-75589701 chr16:75579853-75579975 chr16:75579852-75579853 chr16:75589702-75590255;chr16:75579724-75579852 296;111 N jcn_only_AA CUFF.395 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 1790;45 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 4070;101 K jcn_only_AA CUFF.395 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 183;1189 K intron_retention CUFF.366 chr16 - chr16:4409623-4410278 chr16:4409622-4409623;chr16:4410278-4410279 1672;589 K cassette CUFF.361 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 422;771 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 172;456 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 282;158 N cassette CUFF.363 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 506;10934 N alternative_donor CUFF.382,CUFF.399 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 124;26 N jcn_only_AD CUFF.382 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1391;1743 K cassette CUFF.362 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 416;189 K intron_retention CUFF.400 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 556;210 N jcn_only_AD CUFF.404 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 chr16:75579724-75579852;chr16:75589702-75590255 296;43 K intron_retention CUFF.400 chr16 + chr16:70398549-70398919 chr16:70398548-70398549;chr16:70398919-70398920 637;70 K coord_cassette CUFF.400 chr16 + chr16:70380952-70389387 chr16:70380952-70381777;chr16:70381894-70384459;chr16:70384509-70389387 chr16:70381778-70381893;chr16:70384460-70384508 166;305 N alternative_donor CUFF.399 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 234;14 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 1235;40 K alternative_first_exon CUFF.408 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89787360-89787684;chr16:89786808-89786990 chr16:89787907-89788253 1157;1178 N jcn_only_AD CUFF.381 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 367;69 N alternative_acceptor CUFF.366 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 128;8136 N jcn_only_AA CUFF.406 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 13;612 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 710;1517 K intron_retention chr16 - chr16:4463406-4466459 chr16:4463405-4463406;chr16:4466459-4466460 1111;254 K alternative_first_exon CUFF.365 chr16 - chr16:4254636-4256727;chr16:4254636-4292007 chr16:4254636-4289634 chr16:4256728-4258105;chr16:4292008-4292171 chr16:4289635-4289824 607;85 N jcn_only_AD CUFF.382 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 3025;109 N intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 1743;176 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 6260;961 N alternative_donor CUFF.363 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 4771;1307 N alternative_acceptor chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 51;1537 N coord_cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70390748;chr16:70390810-70394679;chr16:70394798-70395320;chr16:70395540-70398445 chr16:70390749-70390809;chr16:70394680-70394797;chr16:70395321-70395539 46;460 N coord_cassette CUFF.386 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 219;2459 K jcn_only_AD CUFF.382 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 919;477 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 37;372 N jcn_only_AD CUFF.381 chr16 + chr16:22466187-22470675 chr16:22466927-22470675 chr16:22466187-22466926 chr16:22466186-22466187 551;6 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 51;120 N jcn_only_AA CUFF.389 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 123;327 N cassette CUFF.389 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 61;137 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2841;1330 K coord_cassette CUFF.378 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 449;5271 K alternative_donor CUFF.396 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 1680;440 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 311;765 N cassette CUFF.391 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 291;6714 N alternative_donor CUFF.363 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 4122;1956 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 1111;1478 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 1915;8935 K intron_retention CUFF.387 chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 46;75 K alternative_acceptor CUFF.400 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 69;1032 N coord_cassette CUFF.366 chr16 - chr16:4455569-4462356 chr16:4455569-4457562;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457563-4457685;chr16:4458182-4458252 340;6104 N jcn_only_AA CUFF.375 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 1407;15 N alternative_acceptor CUFF.389 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 186;1089 K cassette CUFF.374 chr16 + chr16:19586445-19590373 chr16:19586445-19589625;chr16:19589681-19590373 chr16:19589626-19589680 458;667 K intron_retention CUFF.395 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 186;493 K alternative_donor CUFF.366 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 1202;2012 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 1178;1239 N alternative_acceptor CUFF.382 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 4695;359 N jcn_only_AD CUFF.395 chr16 - chr16:4466963-4475478 chr16:4466963-4470359 120;134 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2598;170 K intron_retention CUFF.400 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 484;517 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 311;1116 K alternative_donor CUFF.404 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 chr16:75575248-75575353;chr16:75576500-75576581 320;131 K intron_retention CUFF.366 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 2524;162 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 204;1027 K intron_retention CUFF.381 chr16 + chr16:22493214-22493764 chr16:22493213-22493214;chr16:22493764-22493765 78;306 K alternative_first_exon CUFF.389 chr16 + chr16:56269297-56309842;chr16:56260484-56309842;chr16:56226529-56309842 chr16:56227625-56309842 chr16:56260385-56260483;chr16:56226486-56226528 chr16:56227496-56227624 202;1004 N jcn_only_AA CUFF.381,CUFF.400 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 551;7 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 39;1517 N cassette CUFF.400 chr16 + chr16:70390151-70395320;chr16:70390810-70395320 chr16:70390151-70394679,chr16:70390810-70394679;chr16:70394798-70395320 chr16:70394680-70394797 503;647 K alternative_first_exon CUFF.394 chr16 + chr16:66613796-66620899 chr16:66614088-66620899 chr16:66613259-66613795 chr16:66614042-66614087 1913;1837 N alternative_donor CUFF.363 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 4725;1353 K intron_retention CUFF.354 chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 70;480 N jcn_only_AA CUFF.366 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 128;2385 N alternative_acceptor chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 38;1624 N jcn_only_AD chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 145;1253 K intron_retention CUFF.382 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 1608;112 K cassette CUFF.386 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 462;782 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 134;550 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 3999;172 K alternative_donor CUFF.407 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 137;139 K alternative_last_exon CUFF.384 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096913-25097093;chr16:25111788-25112006 chr16:25097563-25098044 2312;740 N intron_retention chr16 - chr16:4412133-4445289 chr16:4412132-4412133;chr16:4445289-4445290 128;509 K alternative_last_exon CUFF.374 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19680482-19680621 chr16:19663677-19664095 646;1330 K jcn_only_AA CUFF.408 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 201;838 K intron_retention CUFF.366 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 1288;461 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 39;228 K intron_retention CUFF.366 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 1223;331 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 765;378 K intron_retention CUFF.354 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 1498;443 K intron_retention CUFF.372 chr16 + chr16:14024748-14026013 chr16:14024747-14024748;chr16:14026013-14026014 844;199 N jcn_only_AD CUFF.363 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 3596;228 K intron_retention CUFF.374 chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 33;527 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2003;765 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 134;1067 K intron_retention chr16 - chr16:4445341-4455491 chr16:4445340-4445341;chr16:4455491-4455492 1754;317 K alternative_donor CUFF.354 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 1498;1534 K alternative_first_exon CUFF.361 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190708-2190950 chr16:2198574-2198979 348;1482 K intron_retention CUFF.378 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 1602;177 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 468;64 N alternative_acceptor CUFF.400 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 123;1728 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 4520;2339 K cassette CUFF.366 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 237;5744 N jcn_only_AD chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1852;1282 K jcn_only_AD CUFF.407 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 137;55 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 4083;88 K jcn_only_AA CUFF.396,CUFF.400 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 556;209 K jcn_only_AA CUFF.397 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 348;249 N intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 311;379 N jcn_only_AD CUFF.363 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 2713;1111 K intron_retention CUFF.369 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 982;461 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 29;311 N alternative_acceptor CUFF.366 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 1288;1339 K alternative_acceptor CUFF.397 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 348;277 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 45;5959 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 68;346 N jcn_only_AA CUFF.382 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 2527;204 N alternative_donor CUFF.382 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 3222;109 K intron_retention chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 455;261 K jcn_only_AD CUFF.354 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 1498;70 K intron_retention CUFF.389 chr16 + chr16:56368770-56370642 chr16:56368769-56368770;chr16:56370642-56370643 54;770 N alternative_acceptor CUFF.381,CUFF.400 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 551;11 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 307;377 N intron_retention chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 29;119 K cassette CUFF.378 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 1124;902 N jcn_only_AD CUFF.391 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 4153;39 N alternative_acceptor CUFF.375 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 1407;319 N alternative_acceptor CUFF.382 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 4135;919 N jcn_only_AA CUFF.382 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1123;1608 K cassette CUFF.374 chr16 + chr16:19659205-19663297 chr16:19659205-19661703;chr16:19661782-19663297 chr16:19661704-19661781 183;1010 K intron_retention CUFF.373 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 36;611 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2596;172 K intron_retention CUFF.408 chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 201;144 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 6152;333 N mutually_exclusive CUFF.363 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 726;264 K alternative_first_exon CUFF.375 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716263-21716358 805;24 N jcn_only_AA CUFF.374 chr16 + chr16:22448814-22466022 chr16:22448814-22462940 6;367 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 37;21 N alternative_donor CUFF.399 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 79;26 N alternative_donor chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 333;123 K alternative_last_exon CUFF.384 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097563-25098044;chr16:25096913-25097093 chr16:25111788-25112006 932;2120 K jcn_only_AD CUFF.408 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 766;526 N cassette CUFF.363 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 475;7266 N alternative_donor CUFF.381 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 367;210 K intron_retention chr16 + chr16:19584564-19586419 chr16:19584563-19584564;chr16:19586419-19586420 841;135 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 146;817 K jcn_only_AD CUFF.366 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 1202;1173 K alternative_donor CUFF.360 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 344;1106 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 45;7082 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 1946;281 N cassette CUFF.387 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 11;114 K intron_retention CUFF.361 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 289;751 K intron_retention CUFF.400 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 587;170 N alternative_acceptor CUFF.395 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 1790;45 N cassette CUFF.400 chr16 + chr16:70390151-70394679;chr16:70390151-70395320 chr16:70390151-70390748;chr16:70390810-70394679,chr16:70390810-70395320 chr16:70390749-70390809 556;394 N coord_cassette CUFF.400 chr16 + chr16:70390151-70398445 chr16:70390151-70394679;chr16:70394798-70395320;chr16:70395540-70398445 chr16:70394680-70394797;chr16:70395321-70395539 46;685 K intron_retention CUFF.364 chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 46;168 N alternative_donor CUFF.382 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1426;1905 N intron_retention chr16 - chr16:4458199-4466480 chr16:4458198-4458199;chr16:4466480-4466481 140;681 N cassette CUFF.366 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 107;3376 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 550;484 N alternative_donor CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 3608;563 N jcn_only_AA chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 51;455 K alternative_donor CUFF.396 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 147;366 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 131;658 K intron_retention CUFF.375 chr16 + chr16:21730513-21730707 chr16:21730512-21730513;chr16:21730707-21730708 781;15 K cassette CUFF.400 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 166;1187 N intron_retention chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 94;761 K intron_retention CUFF.395 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 244;629 K alternative_first_exon CUFF.382 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521877 704;4112 K alternative_first_exon CUFF.389 chr16 + chr16:56269297-56309842;chr16:56227625-56309842;chr16:56226529-56309842 chr16:56260484-56309842 chr16:56227496-56227624;chr16:56226486-56226528 chr16:56260385-56260483 1137;69 N mutually_exclusive CUFF.363 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 313;1089 N alternative_donor chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 145;2697 N jcn_only_AD CUFF.399 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 79;26 K intron_retention CUFF.397 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 469;411 N cassette CUFF.406 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 94;1336 N alternative_acceptor CUFF.374 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 373;1056 N intron_retention chr16 - chr16:4438624-4457652 chr16:4438623-4438624;chr16:4457652-4457653 258;719 K jcn_only_AD CUFF.360 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 344;1106 K cassette CUFF.395 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 227;309 K mutually_exclusive CUFF.396 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 247;120 K intron_retention CUFF.366 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 1913;769 N coord_cassette CUFF.374 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19589625;chr16:19589681-19590373 chr16:19586420-19586444;chr16:19589626-19589680 150;933 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 134;1231 K alternative_acceptor CUFF.387 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 249;74 N cassette CUFF.374 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 150;1299 K alternative_first_exon CUFF.408 chr16 + chr16:89787685-89788938;chr16:89788254-89788938 chr16:89786991-89788938 chr16:89787360-89787684;chr16:89787907-89788253 chr16:89786808-89786990 1891;444 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2747;21 N cassette CUFF.378 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 101;638 N jcn_only_AD CUFF.363 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 2646;1178 K intron_retention CUFF.404 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 chr16:75575248-75575353;chr16:75576500-75576581 320;115 K intron_retention CUFF.374 chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 502;293 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 442;37 N jcn_only_AD CUFF.391 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 2461;307 N alternative_first_exon CUFF.369 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 chr16:4526289-4526418;chr16:4545844-4546028 chr16:4524691-4524848 1167;314 K intron_retention CUFF.394 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 1446;467 K intron_retention CUFF.387 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 249;91 N jcn_only_AA CUFF.374 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 373;1056 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 155;807 K alternative_donor CUFF.375 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 552;11 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 150;273 K jcn_only_AD CUFF.396 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 147;359 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 228;1587 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 20;38 N alternative_donor CUFF.391 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 4153;50 N cassette CUFF.400 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 165;707 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 429;589 N alternative_acceptor CUFF.382 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1278;3776 N jcn_only_AA chr16 - chr16:4466963-4475478 chr16:4470555-4475478 120;122 N jcn_only_AA CUFF.366 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 1288;324 N intron_retention chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 51;405 K alternative_acceptor CUFF.404 chr16 - chr16:75579853-75589701 chr16:75579976-75589701 chr16:75579853-75579975 chr16:75579852-75579853 chr16:75589702-75590255;chr16:75579724-75579852 296;233 N cassette CUFF.372 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 108;961 N cassette CUFF.400 chr16 + chr16:70389439-70395320 chr16:70389439-70390031;chr16:70390151-70395320 chr16:70390032-70390150 275;551 K cassette CUFF.314 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 791;548 K jcn_only_AD CUFF.351 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 374;110 N alternative_donor CUFF.323 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 489;24 N alternative_first_exon chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84898604-84898984 chr15:84873983-84874117 1052;2482 K intron_retention CUFF.335 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 126;440 N jcn_only_AD CUFF.319 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 2942;128 K alternative_first_exon CUFF.311 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45473403;chr15:45492925-45493462 chr15:45479652-45480189 2919;1890 N alternative_donor CUFF.310 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 484;49 N intron_retention chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 82;1595 N cassette CUFF.337 chr15 - chr15:78487069-78526712 chr15:78487069-78518796;chr15:78518948-78526712 chr15:78518797-78518947 45;746 K jcn_only_AD CUFF.324 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 169;22 K alternative_acceptor CUFF.319 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 44;3217 N jcn_only_AD chr15 + chr15:24820151-24832713 chr15:24825478-24832713 162;30 K intron_retention chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 867;215 K intron_retention CUFF.324 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 63;187 N coord_cassette CUFF.315 chr15 - chr15:55485032-55488550 chr15:55485032-55486350;chr15:55486382-55486493;chr15:55486558-55488550 chr15:55486351-55486381;chr15:55486494-55486557 66;205 N jcn_only_AD CUFF.295 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 735;3765 N alternative_donor CUFF.331 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 226;295 N cassette CUFF.310 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 52;1256 N alternative_acceptor CUFF.332 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 70;739 N cassette CUFF.337 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 45;636 N alternative_donor CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 457;1559 K cassette CUFF.313 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 48;311 N alternative_acceptor CUFF.319 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 27034;1309 N alternative_acceptor CUFF.311 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 91;582 N jcn_only_AA chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 181;70 N cassette CUFF.315 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 66;110 K alternative_last_exon CUFF.353 chr15 - chr15:102239639-102241288;chr15:102226266-102241288 chr15:102236243-102241288 chr15:102226099-102226265 chr15:102235864-102236242 219;4382 N jcn_only_AA CUFF.342 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 286;223 N jcn_only_AA CUFF.319 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 4433;64 N jcn_only_AA CUFF.311 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 70;582 N cassette CUFF.310 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 272;1239 K cassette CUFF.353 chr15 - chr15:102194934-102197124 chr15:102194934-102196069;chr15:102196224-102197124 chr15:102196070-102196223 276;198 K coord_cassette CUFF.313 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47685518;chr15:47685683-47687757 chr15:47672654-47672792;chr15:47685519-47685682 48;148 K intron_retention CUFF.345 chr15 - chr15:84874072-84898653 chr15:84874071-84874072;chr15:84898653-84898654 85;912 N jcn_only_AD CUFF.331 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 226;45 K alternative_last_exon CUFF.330 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587760 chr15:69580747-69580903 609;135 K intron_retention CUFF.319 chr15 + chr15:57565461-57574642 chr15:57565460-57565461;chr15:57574642-57574643 3021;727 K jcn_only_AA CUFF.314 chr15 - chr15:50793035-50821993 chr15:50793249-50821993 chr15:50793035-50793248 chr15:50793034-50793035 260;661 N cassette CUFF.325 chr15 - chr15:64669105-64673524 chr15:64669105-64673156;chr15:64673238-64673524 chr15:64673157-64673237 131;793 N alternative_acceptor CUFF.311 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 651;22 K coord_cassette CUFF.344 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 169;342 N cassette CUFF.311 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 104;979 N cassette CUFF.325 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 23;1859 N jcn_only_AD CUFF.342 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 201;48 N alternative_acceptor CUFF.310 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 484;51 N jcn_only_AA CUFF.345 chr15 - chr15:84871760-84872928 chr15:84871773-84872928 chr15:84871760-84871772 chr15:84871759-84871760 75;280 K jcn_only_AD CUFF.328 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 1469;309 K alternative_first_exon CUFF.305 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40731920-40732164 chr15:40733358-40733467 20;13 K intron_retention CUFF.324 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 18;139 K intron_retention CUFF.324 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 14;133 K cassette CUFF.317 chr15 - chr15:55783455-55789909 chr15:55783455-55787325;chr15:55787401-55789909 chr15:55787326-55787400 783;143 K alternative_last_exon CUFF.300,CUFF.331 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74773392-74773742 chr15:74772962-74773057 1005;50 K alternative_donor CUFF.335 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 549;2958 K intron_retention CUFF.310 chr15 - chr15:44889142-44890462 chr15:44889141-44889142;chr15:44890462-44890463 254;114 N cassette CUFF.333 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 150;1677 N alternative_donor CUFF.348 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 72;118 K cassette CUFF.307 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 552;606 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 23;463 K alternative_first_exon CUFF.335 chr15 + chr15:77740154-77750745,chr15:77750627-77750745;chr15:77713080-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77712666-77713079;chr15:77713347-77713436 chr15:77713177-77713346 579;3299 N alternative_donor CUFF.328 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 1343;152 N intron_retention CUFF.303 chr15 + chr15:40558697-40559123 chr15:40558696-40558697;chr15:40559123-40559124 59;76 N alternative_acceptor CUFF.347 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 111;1757 N alternative_acceptor CUFF.310 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 670;287 K jcn_only_AD CUFF.296 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 221;380 K alternative_first_exon CUFF.332 chr15 - chr15:75762341-75766029 chr15:75762341-75763020 chr15:75766030-75766108 chr15:75763021-75763286 338;761 K alternative_acceptor CUFF.305,CUFF.312 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 27;90 N jcn_only_AD CUFF.328 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 1343;43 N jcn_only_AD CUFF.319 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 4391;617 N cassette CUFF.298 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 chr15:29213843-29213921 20;1478 K alternative_last_exon CUFF.312 chr15 + chr15:45768751-45789310;chr15:45768751-45804570 chr15:45768751-45769966 chr15:45804571-45804647 chr15:45769967-45772030 257;2915 K cassette CUFF.317 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 116;1791 K alternative_first_exon CUFF.335 chr15 + chr15:77740154-77750745,chr15:77750627-77750745;chr15:77713080-77750745;chr15:77713347-77750745 chr15:77713437-77750745 chr15:77712666-77713079;chr15:77713177-77713346 chr15:77713347-77713436 3708;170 N cassette CUFF.328 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 242;2855 K cassette CUFF.319 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 1708;959 K intron_retention CUFF.346 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 60;269 N jcn_only_AD CUFF.312 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 85;58 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 101;48 K intron_retention CUFF.303 chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 1430;65 K alternative_first_exon CUFF.306 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780240-40780406 chr15:40800135-40800266 52;235 N jcn_only_AD CUFF.347 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 1616;58 K intron_retention CUFF.308 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 93;232 K alternative_first_exon CUFF.327 chr15 - chr15:66645294-66678757;chr15:66645294-66678987,chr15:66645294-66678944 chr15:66645294-66648976 chr15:66678988-66679149 chr15:66648977-66649054 166;243 N jcn_only_AD CUFF.319 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 805;423 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 79;70 K intron_retention CUFF.337 chr15 - chr15:78474958-78475046 chr15:78474957-78474958;chr15:78475046-78475047 346;394 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 180;1494 K alternative_first_exon CUFF.331 chr15 + chr15:74754369-74758376,chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754224-74754368 chr15:74754374-74754439 756;31 N jcn_only_AA CUFF.311 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 351;59 N intron_retention chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 99;583 N alternative_donor CUFF.347 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 2690;264 K cassette CUFF.337 chr15 - chr15:78500445-78537610 chr15:78500445-78501486;chr15:78501592-78537610 chr15:78501487-78501591 308;197 K alternative_acceptor CUFF.314 chr15 - chr15:50793035-50821993 chr15:50793249-50821993 chr15:50793035-50793248 chr15:50793034-50793035 260;1757 N jcn_only_AA CUFF.342 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 4496;493 K intron_retention CUFF.310 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 61;127 N alternative_acceptor CUFF.342 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 4496;821 K cassette CUFF.341 chr15 - chr15:82981344-82982924 chr15:82981344-82982303;chr15:82982498-82982924 chr15:82982304-82982497 198;1394 K alternative_first_exon CUFF.311 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45479652-45480189;chr15:45492925-45493462 chr15:45473305-45473403 4757;52 N jcn_only_AD CUFF.319 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 1114;3894 K intron_retention CUFF.324 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 197;150 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 152;99 N cassette CUFF.310 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 182;1084 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 205;596 N jcn_only_AA CUFF.331 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 761;3736 K coord_cassette CUFF.310 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 272;1938 N jcn_only_AD CUFF.348 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 21;49 K cassette CUFF.353 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 224;180 K alternative_donor CUFF.328 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 1469;1532 K jcn_only_AA CUFF.296 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 167;311 K intron_retention CUFF.310 chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 751;977 K alternative_first_exon CUFF.320,CUFF.340 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007469 chr15:61945388-61945400 995;264 K jcn_only_AD CUFF.331 chr15 + chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372 chr15:74754368-74754369 76;448 K jcn_only_AA CUFF.331,CUFF.335 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 455;84 N jcn_only_AD CUFF.315 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 16;1907 K intron_retention CUFF.351 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 301;211 N alternative_acceptor CUFF.342 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 201;51 K jcn_only_AD CUFF.311,CUFF.315 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 105;87 N alternative_donor CUFF.319 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 861;2196 N alternative_last_exon CUFF.345 chr15 - chr15:84871760-84872928,chr15:84871773-84872928 chr15:84872839-84872928 chr15:84871622-84871759 chr15:84872530-84872838 471;4979 N cassette CUFF.303 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 103;587 K intron_retention CUFF.308 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 96;288 N jcn_only_AA CUFF.335,CUFF.350 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 2364;18 N mutually_exclusive CUFF.325 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 42;339 K cassette CUFF.296 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 226;3209 N jcn_only_AD chr15 + chr15:24819892-24820053 chr15:24819961-24820053 113;70 K intron_retention CUFF.310 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 493;33 K alternative_first_exon CUFF.335 chr15 + chr15:77740154-77750745,chr15:77750627-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713177-77713346;chr15:77713347-77713436 chr15:77712666-77713079 3574;304 N jcn_only_AD CUFF.348 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 72;108 K cassette CUFF.341 chr15 - chr15:82978166-82980083 chr15:82978166-82978266;chr15:82978466-82980083 chr15:82978267-82978465 523;899 K intron_retention CUFF.345 chr15 - chr15:84869961-84871621 chr15:84869960-84869961;chr15:84871621-84871622 1271;606 N alternative_last_exon CUFF.333 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544709-77544868 chr15:77576079-77576372 149;2330 K alternative_donor CUFF.324 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 169;53 K alternative_last_exon CUFF.332 chr15 - chr15:75762341-75766029 chr15:75763172-75766029 chr15:75762060-75762340 chr15:75763021-75763171 1133;224 N alternative_donor CUFF.315 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357488-83357909 chr15:83357909-83357910 16;8324 K intron_retention CUFF.324 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 225;41 K alternative_first_exon CUFF.300 chr15 + chr15:30771397-30776704 chr15:30773111-30776704 chr15:30771218-30771396 chr15:30772945-30773110 64;310 K alternative_donor CUFF.311,CUFF.345 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 chr15:84898604-84898653 chr15:84898653-84898654 85;466 N jcn_only_AA CUFF.303 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 226;59 K alternative_first_exon CUFF.342 chr15 - chr15:83358206-83358514,chr15:83358206-83366608;chr15:83358206-83378345 chr15:83358206-83377523 chr15:83378346-83378734 chr15:83377524-83377621 12726;69 N cassette CUFF.303 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 260;2272 N jcn_only_AD CUFF.347 chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 334;691 K alternative_acceptor CUFF.319,CUFF.335 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 1976;1188 K cassette CUFF.319 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 222;3929 N jcn_only_AA chr15 + chr15:24825478-24869114 chr15:24825478-24832713 29;30 N jcn_only_AD CUFF.319 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 571;2274 N cassette CUFF.327 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 196;453 K alternative_first_exon CUFF.303 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530867-40531336 104;3402 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 1460;1494 N jcn_only_AD CUFF.319 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 1109;119 K alternative_acceptor CUFF.305 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 89;160 K jcn_only_AD CUFF.311,CUFF.345 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 chr15:84898604-84898653 chr15:84898653-84898654 85;276 K intron_retention CUFF.324 chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 22;38 N coord_cassette CUFF.348 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 29;2498 N cassette CUFF.303 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 123;1237 N intron_retention chr15 - chr15:90378746-90380846 chr15:90378745-90378746;chr15:90380846-90380847 108;1142 N alternative_donor CUFF.303 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 226;248 K jcn_only_AD CUFF.327 chr15 - chr15:66645294-66678987 chr15:66645294-66678944 chr15:66678945-66678987 chr15:66678987-66678988 60;25 K alternative_first_exon CUFF.310,CUFF.347 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44888258-44888599 chr15:44887457-44887657 1793;510 K cassette CUFF.311 chr15 - chr15:45464517-45467416 chr15:45464517-45465773;chr15:45465915-45467416 chr15:45465774-45465914 342;853 K alternative_last_exon CUFF.339 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826098 176;1114 K alternative_donor CUFF.311,CUFF.315 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 105;490 K cassette CUFF.324 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 14;203 N jcn_only_AD CUFF.319 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 4962;46 K jcn_only_AD CUFF.335 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 549;2263 N jcn_only_AD CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 160;1431 N jcn_only_AD CUFF.319 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 3021;274 K alternative_donor CUFF.328,CUFF.337 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 834;2370 N jcn_only_AA CUFF.347 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 111;1179 K intron_retention CUFF.336 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 258;226 N jcn_only_AD CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1522;69 K alternative_last_exon CUFF.333 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77447443-77451038 chr15:77470070-77470365 4339;802 N alternative_donor CUFF.319 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 2882;175 N alternative_donor CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1859;157 K alternative_last_exon CUFF.312 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45752767 542;99 N alternative_donor CUFF.310 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 150;85 K jcn_only_AA CUFF.319,CUFF.335 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 1976;715 N alternative_donor CUFF.319 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 2371;686 N alternative_acceptor CUFF.319 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 28279;64 K intron_retention CUFF.345 chr15 - chr15:84873269-84873351 chr15:84873268-84873269;chr15:84873351-84873352 644;892 K cassette CUFF.344 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 133;405 K jcn_only_AD CUFF.351 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 411;73 N jcn_only_AD CUFF.329 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 7;69 N jcn_only_AD CUFF.298 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 chr15:29346048-29347038;chr15:29287956-29288009 1658;138 K intron_retention CUFF.335 chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 1976;541 N jcn_only_AD CUFF.347 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 1625;49 K alternative_last_exon CUFF.327 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645153-66645293 chr15:66671511-66672278 78;1628 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 1907;1784 K intron_retention CUFF.310 chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 130;760 K alternative_last_exon CUFF.342 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83350172-83350332 chr15:83357093-83357250 3416;1245 N jcn_only_AD CUFF.319 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 542;686 K alternative_first_exon CUFF.311,CUFF.332 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45473403;chr15:45479652-45480189 chr15:45492925-45493462 2012;2797 N cassette CUFF.347 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 910;2115 K intron_retention CUFF.319 chr15 + chr15:57535749-57543547 chr15:57535748-57535749;chr15:57543547-57543548 672;449 K alternative_first_exon CUFF.337 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78537611-78538123 chr15:78504891-78505068 298;132 K intron_retention CUFF.310 chr15 - chr15:44888554-44888981 chr15:44888553-44888554;chr15:44888981-44888982 268;241 K alternative_acceptor CUFF.331,CUFF.335 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 455;90 K alternative_last_exon CUFF.300 chr15 + chr15:30771397-30776704 chr15:30771397-30772944 chr15:30776705-30776892 chr15:30772945-30773361 76;1213 N cassette CUFF.348 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 41;289 N alternative_donor CUFF.329 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 7;1293 N jcn_only_AD CUFF.310 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 668;184 N alternative_donor CUFF.312 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 85;332 N jcn_only_AD chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 118;31 K intron_retention CUFF.342 chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 16;3238 K alternative_last_exon CUFF.314 chr15 - chr15:50793035-50821993,chr15:50793249-50821993 chr15:50805710-50821993 chr15:50792660-50793034 chr15:50805612-50805709 1436;75 K alternative_first_exon CUFF.333 chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 132;612 K intron_retention CUFF.331 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 425;482 K jcn_only_AA CUFF.305 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 89;71 K intron_retention CUFF.310 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 418;203 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 137;2274 K alternative_first_exon CUFF.319 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535670-57535748 chr15:57540142-57540279 672;2478 N jcn_only_AD CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1542;49 K intron_retention CUFF.302 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 47;118 N coord_cassette CUFF.298 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 chr15:29213843-29213921 20;4797 N intron_retention CUFF.345 chr15 - chr15:84871760-84872928 chr15:84871759-84871760;chr15:84872928-84872929 75;301 N jcn_only_AA CUFF.310 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 670;287 K jcn_only_AA CUFF.319 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 44;2942 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 208;43 N jcn_only_AD CUFF.353 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 61;126 N jcn_only_AA CUFF.311 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 634;18 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 111;50 K intron_retention CUFF.333 chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 267;99 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 371;111 K cassette CUFF.344 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 169;570 N jcn_only_AA CUFF.310 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 484;51 N jcn_only_AD CUFF.303 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 226;62 N jcn_only_AA CUFF.319 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 3800;697 K alternative_last_exon CUFF.347 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408663-90408925 1646;791 K intron_retention CUFF.331 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 191;652 K cassette CUFF.348 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 218;106 K cassette CUFF.349 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 205;131 N cassette CUFF.328 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787240;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787241-66787757 242;2941 N jcn_only_AD CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1549;42 K alternative_last_exon CUFF.350 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527478 chr15:94512823-94512924 367;79 N jcn_only_AD CUFF.310 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 484;49 K intron_retention CUFF.324 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 223;29 N intron_retention chr15 - chr15:84869629-84871621 chr15:84869628-84869629;chr15:84871621-84871622 59;1466 K alternative_donor CUFF.351 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 653;301 K cassette CUFF.313 chr15 - chr15:47672793-47687757 chr15:47672793-47685518;chr15:47685683-47687757 chr15:47685519-47685682 97;89 K cassette CUFF.352 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 14;253 N jcn_only_AA CUFF.311 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 600;52 K alternative_first_exon CUFF.312 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742303-45742488 chr15:45752644-45752767 478;69 K jcn_only_AA CUFF.305,CUFF.312 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 27;90 N alternative_donor CUFF.316 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 102;549 K cassette CUFF.345 chr15 - chr15:84873269-84873538 chr15:84873269-84873351;chr15:84873444-84873538 chr15:84873352-84873443 1954;1289 K jcn_only_AD CUFF.328,CUFF.337 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 834;487 N alternative_acceptor CUFF.311 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 351;177 N alternative_first_exon chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55488551-55488886 chr15:55487502-55487789 141;246 N alternative_donor CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1758;258 K jcn_only_AA CUFF.317 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 51;542 N alternative_acceptor CUFF.347 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 108;1704 N coord_cassette CUFF.337 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 54;1525 K cassette CUFF.329 chr15 - chr15:67713837-67752029 chr15:67713837-67722658;chr15:67722739-67752029 chr15:67722659-67722738 3;1022 N alternative_donor CUFF.333,CUFF.347 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 2186;768 K alternative_donor CUFF.351 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 758;196 K cassette CUFF.314 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 820;217 N jcn_only_AD CUFF.319 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 4557;451 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 137;2274 N jcn_only_AD CUFF.316 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 102;81 N jcn_only_AA CUFF.345 chr15 - chr15:84873728-84898603 chr15:84874072-84898603 349;276 N alternative_donor CUFF.298 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 chr15:29287956-29288009;chr15:29213843-29213921 1974;42 N alternative_donor CUFF.310,CUFF.327 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 670;261 N alternative_last_exon CUFF.342 chr15 - chr15:83350333-83357909 chr15:83357584-83357909 chr15:83350172-83350332 chr15:83357093-83357583 29;9417 N alternative_acceptor CUFF.335,CUFF.350 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 2364;44 N intron_retention CUFF.345 chr15 - chr15:84873269-84873347 chr15:84873268-84873269;chr15:84873347-84873348 68;913 K cassette CUFF.298 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 78;3462 K coord_cassette CUFF.314 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 48;683 K alternative_first_exon CUFF.340 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80215794-80216139 chr15:80206930-80207640 227;319 K intron_retention CUFF.351 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 73;208 N jcn_only_AA CUFF.342 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 201;51 N cassette CUFF.315 chr15 - chr15:55485032-55486493 chr15:55485032-55486350;chr15:55486382-55486493 chr15:55486351-55486381 56;189 K alternative_first_exon CUFF.301 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294216-31294233 chr15:31327773-31327859 81;167 N alternative_donor CUFF.353 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 61;136 N alternative_donor CUFF.319 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 3021;822 N jcn_only_AD CUFF.310 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 150;54 N cassette CUFF.298 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 chr15:29385278-29385423;chr15:29390693-29390779 125;304 K cassette CUFF.339 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 422;206 N mutually_exclusive CUFF.310 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 277;118 K alternative_first_exon CUFF.353 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204654 243;227 N alternative_acceptor CUFF.303 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40559124-40564424 chr15:40564424-40564425 226;100 K alternative_last_exon CUFF.332 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801258-75801368 chr15:75805440-75805779 76;638 K intron_retention CUFF.324 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 169;51 N alternative_acceptor CUFF.331 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 1373;26970 N alternative_donor CUFF.348 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 21;112 N cassette CUFF.303 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 3844;824 K intron_retention CUFF.342 chr15 - chr15:83348982-83349223 chr15:83348981-83348982;chr15:83349223-83349224 64;45 N alternative_last_exon CUFF.317 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722410-55722977 122;242 K intron_retention CUFF.324 chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 34;282 K intron_retention CUFF.310 chr15 - chr15:44876757-44877833 chr15:44876756-44876757;chr15:44877833-44877834 419;46 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 16;1231 N jcn_only_AD chr15 + chr15:24825478-24869114 chr15:24832883-24869114 29;79 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 432;50 N jcn_only_AD CUFF.345 chr15 - chr15:64658275-64665896 chr15:64658275-64665354 34;89 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 173;50 K intron_retention CUFF.324 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 140;42 N jcn_only_AD CUFF.310,CUFF.327 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 670;261 K cassette CUFF.319 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 335;2500 N alternative_donor CUFF.347 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 2526;428 N jcn_only_AA chr15 + chr15:24820151-24832713 chr15:24820151-24825373 162;90 N jcn_only_AA CUFF.332 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772256-75780118 chr15:75772255-75772256 70;113 N cassette CUFF.317 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 400;226 N alternative_donor CUFF.295 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 735;10812 K alternative_donor CUFF.331 chr15 + chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372 chr15:74754368-74754369 76;483 K intron_retention CUFF.300 chr15 + chr15:30773111-30776704 chr15:30773110-30773111;chr15:30776704-30776705 134;324 K alternative_acceptor CUFF.317 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 51;850 K intron_retention CUFF.342 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 352;313 N alternative_donor CUFF.298 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 chr15:29346048-29347038;chr15:29287956-29288009 1658;249 N jcn_only_AA CUFF.345 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 59;1271 K coord_cassette CUFF.319 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 335;5972 K alternative_donor CUFF.327 chr15 - chr15:66645294-66678987 chr15:66645294-66678944 chr15:66678945-66678987 chr15:66678987-66678988 60;88 K intron_retention CUFF.351 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 110;104 N alternative_acceptor CUFF.345 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 59;4751 K coord_cassette CUFF.310 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 237;2499 N intron_retention chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 245;99 K cassette CUFF.344 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 364;283 N cassette CUFF.333 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577398-77578764 chr15:77577300-77577397 9;175 N alternative_acceptor CUFF.342 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 286;399 N alternative_acceptor CUFF.311 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 604;69 N alternative_donor CUFF.319 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 2942;177 N jcn_only_AD CUFF.333,CUFF.347 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 1601;73 N jcn_only_AD CUFF.323 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 489;17 N jcn_only_AD chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 161;321 N cassette CUFF.319 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 570;1661 N intron_retention chr15 + chr15:24819892-24820053 chr15:24819891-24819892;chr15:24820053-24820054 113;47 N coord_cassette CUFF.311 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45465773;chr15:45465915-45467416 chr15:45464345-45464516;chr15:45465774-45465914 104;997 N jcn_only_AD CUFF.298 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 chr15:29367124-29367204;chr15:29346048-29347038 209;25 N alternative_acceptor CUFF.345 chr15 - chr15:84871760-84872928 chr15:84871773-84872928 chr15:84871760-84871772 chr15:84871759-84871760 75;386 K alternative_first_exon CUFF.342,CUFF.347 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437113-90437574 chr15:90437109-90437109 2267;28 K coord_cassette CUFF.303 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 3844;1764 N alternative_donor CUFF.310 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 668;470 K intron_retention CUFF.302 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 324;101 N cassette CUFF.345 chr15 - chr15:84871760-84873177;chr15:84871773-84873177 chr15:84871773-84872928,chr15:84871760-84872928;chr15:84873084-84873177 chr15:84872929-84873083 1336;3416 K jcn_only_AD CUFF.351 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 183;301 N jcn_only_AA CUFF.347 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 108;961 K alternative_first_exon CUFF.323 chr15 + chr15:63047893-63053879 chr15:63050859-63053879 chr15:63046548-63047892 chr15:63050751-63050858 376;55 K alternative_first_exon CUFF.294 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115256 chr15:23114586-23114684 789;595 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 212;39 K intron_retention CUFF.342 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 1911;2548 N alternative_donor CUFF.347 chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 334;1292 K alternative_donor CUFF.351 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 497;457 K alternative_last_exon CUFF.337 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471225-78471322 532;60 N alternative_donor CUFF.298 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 chr15:29367124-29367204;chr15:29346048-29347038 209;145 N alternative_donor CUFF.342 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 201;48 K alternative_last_exon CUFF.269 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-58987639 chr14:58979346-59006788 chr14:59003725-59003983;chr14:59014499-59015315;chr14:58987640-58987981 chr14:59006789-59006854 4710;130 K intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 141;177 K cassette CUFF.273 chr14 + chr14:61512886-61517229 chr14:61512886-61514868;chr14:61515016-61517229 chr14:61514869-61515015 898;741 K alternative_last_exon CUFF.269 chr14 + chr14:58979346-59014498;chr14:58979346-59006788;chr14:58979346-58987639 chr14:58979346-59003724 chr14:59014499-59015315;chr14:59006789-59006854;chr14:58987640-58987981 chr14:59003725-59003983 4418;422 K alternative_acceptor CUFF.260,CUFF.279 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 84;4729 N mutually_exclusive CUFF.277 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 819;352 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 44;109 K cassette CUFF.280 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 7;423 K alternative_acceptor CUFF.262 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 513;471 N cassette CUFF.290 chr14 - chr14:104251252-104263707 chr14:104251252-104260913;chr14:104261001-104263707 chr14:104260914-104261000 956;3325 N alternative_donor CUFF.271,CUFF.277 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 187;120 N jcn_only_AA CUFF.282 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 397;146 N cassette CUFF.277 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 106;848 K cassette CUFF.264 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 102;500 K intron_retention CUFF.273 chr14 + chr14:61504402-61509864 chr14:61504401-61504402;chr14:61509864-61509865 1027;101 N alternative_donor CUFF.279 chr14 + chr14:76201633-76211437 chr14:76203951-76211437 chr14:76201633-76203950 chr14:76201632-76201633 60;91 K intron_retention CUFF.261 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 23;36 K intron_retention CUFF.280 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 172;56 K alternative_last_exon CUFF.271 chr14 - chr14:59939809-59942586;chr14:59941245-59942586 chr14:59927892-59942586 chr14:59939243-59939808;chr14:59941157-59941244 chr14:59927690-59927891 893;120 N coord_cassette CUFF.277 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 364;284 N alternative_donor CUFF.279 chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 1694;33 N alternative_last_exon CUFF.271 chr14 - chr14:59939809-59941445 chr14:59941245-59941445 chr14:59939243-59939808 chr14:59941157-59941244 290;415 K jcn_only_AD CUFF.272,CUFF.277 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 122;251 N intron_retention chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 657;815 N alternative_acceptor chr14 + chr14:76201633-76203908;chr14:76201633-76210719 chr14:76201633-76211437 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 1206;60 N jcn_only_AD CUFF.262 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 835;53 K cassette CUFF.277 chr14 - chr14:75136830-75138110 chr14:75136830-75137464;chr14:75137575-75138110 chr14:75137465-75137574 23;445 K cassette CUFF.275 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 11;136 K alternative_first_exon CUFF.282 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924140-77924325 chr14:77924328-77924612 43;742 N jcn_only_AD CUFF.290 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1029;467 K alternative_first_exon CUFF.264 chr14 + chr14:50070337-50074117;chr14:50067416-50074117 chr14:50069187-50074117 chr14:50067123-50067415 chr14:50069088-50069186 272;240 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 1559;1362 N jcn_only_AA CUFF.279 chr14 + chr14:76201633-76203908;chr14:76201633-76211437 chr14:76201633-76210719 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 103;255 K alternative_donor CUFF.275 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 45;36 K cassette CUFF.263 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 422;12630 K alternative_last_exon CUFF.269 chr14 + chr14:58979346-59003724;chr14:58979346-59006788;chr14:58979346-58987639 chr14:58979346-59014498 chr14:59003725-59003983;chr14:59006789-59006854;chr14:58987640-58987981 chr14:59014499-59015315 1619;3221 N jcn_only_AA CUFF.264 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 321;32 N alternative_donor CUFF.273 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 632;2125 K alternative_first_exon CUFF.286 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789867-92790304 8;513 K alternative_first_exon CUFF.291 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046021-105046340 chr14:105047406-105047962 468;2308 K intron_retention CUFF.266 chr14 - chr14:52478402-52481004 chr14:52478401-52478402;chr14:52481004-52481005 231;281 K alternative_last_exon CUFF.291,CUFF.293 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106950171-106951526 chr14:106946394-106946583 816;322 K alternative_first_exon CUFF.269 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894356-58894531 chr14:58894956-58895181 1642;25 K jcn_only_AA CUFF.273 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 124;819 K intron_retention CUFF.265 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 1363;710 N alternative_acceptor CUFF.279 chr14 + chr14:76201633-76211437;chr14:76201633-76210719 chr14:76201633-76203908 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 1089;177 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 131;60 N alternative_donor CUFF.275 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 43;28 K jcn_only_AA CUFF.279 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 16;87 N jcn_only_AD CUFF.283 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 318;451 K cassette CUFF.273 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 239;1448 N alternative_acceptor CUFF.283 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 18;476 N cassette CUFF.260 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 593;1976 N alternative_donor CUFF.290 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 2838;504 N intron_retention chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 55;196 N alternative_acceptor chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 313;33 N alternative_donor CUFF.262 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 835;69 N alternative_acceptor CUFF.279 chr14 + chr14:76201633-76203908;chr14:76201633-76211437 chr14:76201633-76210719 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 237;1029 K alternative_first_exon CUFF.265 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50234229-50235339 chr14:50235512-50235809 9312;1038 K alternative_acceptor CUFF.273 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 124;819 N cassette CUFF.277 chr14 - chr14:75143456-75149998 chr14:75143456-75144881;chr14:75145033-75149998 chr14:75144882-75145032 84;198 N alternative_acceptor CUFF.290 chr14 - chr14:104230817-104245081;chr14:104225643-104245081 chr14:104224089-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 1176;902 N jcn_only_AA CUFF.290 chr14 - chr14:104230817-104245081;chr14:104224089-104245081 chr14:104225643-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 983;538 N alternative_donor CUFF.283 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 chr14:81743245-81745083;chr14:81837332-81837529 368;245 N alternative_acceptor CUFF.274 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 1001;1782 K intron_retention CUFF.290 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 28;1291 N cassette CUFF.258 chr14 + chr14:23390330-23393509 chr14:23390330-23392287;chr14:23392414-23393509 chr14:23392288-23392413 65;657 K intron_retention CUFF.259 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 822;85 K jcn_only_AA CUFF.279 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 133;61 N alternative_donor CUFF.283 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 318;681 N mutually_exclusive CUFF.263 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 1242;1016 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 176;110 N alternative_acceptor CUFF.279 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 156;19 N jcn_only_AA CUFF.279,CUFF.286 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 505;198 N alternative_acceptor CUFF.290 chr14 - chr14:104225643-104245081;chr14:104224089-104245081 chr14:104230817-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 1520;558 N jcn_only_AA CUFF.270 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 174;27 K intron_retention CUFF.265 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 1160;1476 K cassette CUFF.275 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 12;50 K intron_retention CUFF.277 chr14 - chr14:75136830-75137464 chr14:75136829-75136830;chr14:75137464-75137465 118;63 K alternative_acceptor CUFF.272 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 282;112 K alternative_first_exon CUFF.262 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354619-31355532 chr14:31354174-31354429 5609;1021 N alternative_donor CUFF.286 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 178;111 N cassette CUFF.290 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104263707 chr14:104251132-104251251 305;4524 N jcn_only_AD CUFF.279 chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 275;33 K jcn_only_AD CUFF.279 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 148;56 N coord_cassette CUFF.260 chr14 + chr14:24563464-24566100 chr14:24563464-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 431;3415 K cassette CUFF.269 chr14 + chr14:58899176-58909423 chr14:58899176-58906787;chr14:58906879-58909423 chr14:58906788-58906878 1062;207 N jcn_only_AD CUFF.290 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 277;122 N mutually_exclusive CUFF.265 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 380;71 N jcn_only_AA CUFF.277 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 118;133 K alternative_first_exon CUFF.286 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915418-92915560 chr14:92916548-92918990 506;2865 K intron_retention CUFF.260 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 1092;317 K intron_retention CUFF.290 chr14 - chr14:104209161-104212709 chr14:104209160-104209161;chr14:104212709-104212710 277;531 N mutually_exclusive CUFF.258 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392287,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392288-23392413 137;227 N cassette CUFF.259 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 167;1485 K alternative_first_exon CUFF.279 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259259-76259443 chr14:76269467-76269596 715;272 K intron_retention CUFF.282 chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 555;257 K jcn_only_AA CUFF.290 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 112;807 N alternative_donor CUFF.271,CUFF.290 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 648;810 K coord_cassette CUFF.269 chr14 + chr14:58899176-58909423 chr14:58899176-58899829;chr14:58900063-58907938;chr14:58908062-58909423 chr14:58899830-58900062;chr14:58907939-58908061 1062;988 N alternative_acceptor CUFF.282 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 397;395 K alternative_last_exon CUFF.269 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-59006788 chr14:58979346-58987639 chr14:59003725-59003983;chr14:59014499-59015315;chr14:59006789-59006854 chr14:58987640-58987981 3773;1067 N cassette CUFF.277 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 300;558 K intron_retention CUFF.269 chr14 + chr14:58908062-58909423 chr14:58908061-58908062;chr14:58909423-58909424 170;90 K intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 1472;342 N jcn_only_AA chr14 + chr14:76201633-76203908;chr14:76201633-76210719 chr14:76201633-76211437 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 298;60 N alternative_donor chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 1849;1362 K jcn_only_AA CUFF.260,CUFF.279 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 84;1473 N jcn_only_AD CUFF.283 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 chr14:81743245-81745083;chr14:81837332-81837529 368;99 N cassette CUFF.279 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 72;164 N cassette CUFF.277 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 25;1513 N alternative_donor CUFF.283 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 340;70 N alternative_donor CUFF.290 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1406;1936 K intron_retention CUFF.282 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 20;59 K jcn_only_AA CUFF.293 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 163;181 N alternative_acceptor CUFF.277 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 118;142 K intron_retention CUFF.277 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 194;976 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 170;116 K intron_retention CUFF.273 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 936;189 N alternative_last_exon CUFF.274 chr14 - chr14:69522329-69542061 chr14:69529229-69542061 chr14:69517500-69522328 chr14:69529073-69529228 1027;1402 N jcn_only_AD CUFF.290 chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 1879;1042 N alternative_donor CUFF.274 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 146;415 K cassette CUFF.260 chr14 + chr14:24564055-24566100 chr14:24564055-24564351;chr14:24564588-24566100 chr14:24564352-24564587 420;3330 N jcn_only_AD CUFF.271 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 96;1374 N jcn_only_AD CUFF.290 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 319;60 K cassette CUFF.285 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 239;1911 N jcn_only_AD CUFF.290 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 1369;127 K coord_cassette CUFF.259 chr14 + chr14:24459569-24470071 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24470071 chr14:24459984-24460161;chr14:24464241-24464342 120;601 K jcn_only_AA CUFF.270 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 79;285 N jcn_only_AD CUFF.290 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 214;5 K alternative_last_exon CUFF.277 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152303-75152363 chr14:75157667-75157853 141;813 K cassette CUFF.264 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 42;2585 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 141;50 N jcn_only_AD CUFF.279 chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 197;111 N alternative_first_exon CUFF.290 chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204197 154;1443 N alternative_acceptor CUFF.264 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 321;46 K cassette CUFF.269 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 726;517 N alternative_donor CUFF.279 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 121;1158 K alternative_last_exon CUFF.279 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76368485-76368940 chr14:76353043-76353697 1826;1144 K jcn_only_AD CUFF.282 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 35;685 N cassette CUFF.277 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 64;163 N jcn_only_AD CUFF.273 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 632;347 K cassette CUFF.273 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 196;5086 K intron_retention CUFF.290 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 42;817 N alternative_donor CUFF.290 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 394;16 K intron_retention CUFF.266 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 374;107 K coord_cassette CUFF.273 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 38;4958 N jcn_only_AD CUFF.271,CUFF.290 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 276;103 N alternative_first_exon CUFF.271,CUFF.274 chr14 - chr14:59939809-59942586 chr14:59939809-59941445,chr14:59939809-59941156 chr14:59942587-59942724 chr14:59941446-59941982 252;3514 N jcn_only_AD chr14 - chr14:69522329-69542061 chr14:69522329-69529100 32;493 K intron_retention CUFF.273 chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 303;1058 N cassette CUFF.269 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 11;303 K cassette CUFF.288 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 74;67 N coord_cassette CUFF.277 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635 chr14:75158744-75159031;chr14:75165467-75165559 35;715 N cassette CUFF.284 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 54;1337 N cassette CUFF.260 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 31;2727 N intron_retention CUFF.290 chr14 - chr14:104212891-104212988 chr14:104212890-104212891;chr14:104212988-104212989 103;23 K intron_retention CUFF.290 chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 807;119 N jcn_only_AD CUFF.290 chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 2844;77 K intron_retention CUFF.273 chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 854;1861 N jcn_only_AA CUFF.283 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 18;89 K intron_retention CUFF.265 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 1458;674 N jcn_only_AD CUFF.279 chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 144;164 N jcn_only_AA CUFF.290 chr14 - chr14:104225643-104245081;chr14:104224089-104245081 chr14:104230817-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 1440;81 K cassette CUFF.275 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 68;34 N jcn_only_AA CUFF.279 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 156;19 N alternative_donor CUFF.279 chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 1042;685 K alternative_first_exon CUFF.271 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941982 622;2541 N alternative_donor CUFF.271 chr14 - chr14:59939809-59941445 chr14:59939809-59941156 chr14:59941157-59941445 chr14:59941445-59941446 96;1952 K cassette CUFF.273 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 1224;1476 K alternative_last_exon CUFF.279,CUFF.293 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76330010-76330205 chr14:76286946-76287205 403;1830 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 163;216 N jcn_only_AD CUFF.286 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792323-92874778 chr14:92792322-92792323 178;94 N jcn_only_AD CUFF.283 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 149;70 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 226;60 K alternative_first_exon CUFF.259 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439060-24439541 chr14:24457947-24458284 345;6506 N coord_cassette CUFF.260 chr14 + chr14:24564055-24567411 chr14:24564055-24564351;chr14:24564588-24566100;chr14:24566347-24567411 chr14:24564352-24564587;chr14:24566101-24566346 251;5649 K alternative_last_exon CUFF.282 chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935915 chr14:77930941-77931029 2506;555 K alternative_first_exon CUFF.273 chr14 + chr14:61448962-61449225,chr14:61448410-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61447742-61448100 chr14:61448157-61448405 2555;425 N jcn_only_AD CUFF.290 chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 2481;440 N jcn_only_AA CUFF.279 chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 120;190 K cassette CUFF.273 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 255;1497 N alternative_acceptor CUFF.290 chr14 - chr14:104230817-104245081;chr14:104224089-104245081 chr14:104225643-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 1460;618 N jcn_only_AD CUFF.283 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 75;144 N jcn_only_AA CUFF.279 chr14 + chr14:76201633-76211437;chr14:76201633-76210719 chr14:76201633-76203908 chr14:76203909-76210719;chr14:76210720-76211437 chr14:76210719-76210720;chr14:76211437-76211438 315;43 N mutually_exclusive CUFF.258 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392180,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392181-23392413 137;186 K jcn_only_AA CUFF.262 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 513;404 K intron_retention CUFF.261 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 20;11 N intron_retention CUFF.290 chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 841;69 N cassette CUFF.285 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 212;189 K intron_retention CUFF.271 chr14 - chr14:59941245-59942586 chr14:59941244-59941245;chr14:59942586-59942587 403;215 K intron_retention CUFF.260 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 581;480 N jcn_only_AD CUFF.279 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 121;129 N alternative_donor CUFF.290 chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 2634;577 N jcn_only_AD CUFF.274 chr14 - chr14:69589078-69619660 chr14:69589078-69619481 chr14:69619482-69619660 chr14:69619660-69619661 146;92 K alternative_last_exon CUFF.282 chr14 + chr14:77928586-77934425 chr14:77928586-77928984 chr14:77934426-77934716 chr14:77928985-77929102 51;1118 N cassette CUFF.277 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 364;254 K intron_retention CUFF.290 chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 46;768 K intron_retention CUFF.282 chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 558;101 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 110;81 K alternative_donor CUFF.272,CUFF.277 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 122;360 K alternative_first_exon CUFF.271 chr14 - chr14:59946070-59950526;chr14:59946070-59950397 chr14:59946070-59950207 chr14:59950398-59951239 chr14:59950208-59950300 2015;41 K mutually_exclusive CUFF.259 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 62;398 K cassette CUFF.259 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 47;5783 K intron_retention CUFF.290 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 32;1006 K cassette CUFF.279 chr14 + chr14:76219299-76230957 chr14:76219299-76224173;chr14:76224213-76230957 chr14:76224174-76224212 81;287 N intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 84;337 K intron_retention CUFF.282 chr14 + chr14:77931030-77931881 chr14:77931029-77931030;chr14:77931881-77931882 617;138 N mutually_exclusive CUFF.265 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 66;605 K intron_retention CUFF.286 chr14 + chr14:92909161-92909743 chr14:92909160-92909161;chr14:92909743-92909744 253;65 N alternative_first_exon CUFF.274 chr14 - chr14:69589078-69616147,chr14:69589078-69619130;chr14:69589078-69619660,chr14:69589078-69619481 chr14:69589078-69619205 chr14:69619661-69619843 chr14:69619206-69619369 391;599 N alternative_donor CUFF.290 chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 3114;97 N alternative_acceptor CUFF.279 chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 156;190 K intron_retention CUFF.261 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 20;41 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 277;33 N jcn_only_AD CUFF.275 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 43;27 N jcn_only_AD CUFF.260 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 84;1472 N cassette CUFF.265 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 35;3024 K cassette CUFF.272 chr14 - chr14:60010173-60018072 chr14:60010173-60011880;chr14:60012018-60018072 chr14:60011881-60012017 250;198 K intron_retention CUFF.279 chr14 + chr14:76201633-76211437 chr14:76201632-76201633;chr14:76211437-76211438 60;69 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 2440;902 N jcn_only_AD CUFF.279 chr14 + chr14:76201633-76211437 chr14:76203951-76211437 chr14:76201633-76203950 chr14:76201632-76201633 60;53 N cassette CUFF.260 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 251;5713 K intron_retention CUFF.282 chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 54;198 K coord_cassette CUFF.270 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 338;3326 K intron_retention CUFF.266 chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 142;124 N cassette CUFF.260 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 33;2980 N cassette CUFF.274 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 510;1244 K cassette CUFF.280 chr14 - chr14:77275987-77279106 chr14:77275987-77276431;chr14:77276598-77279106 chr14:77276432-77276597 5;633 N alternative_acceptor CUFF.279,CUFF.286 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 505;1040 K jcn_only_AA CUFF.279 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 58;125 K intron_retention CUFF.290 chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 112;159 N cassette CUFF.277 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75179635 chr14:75158744-75159031 35;2258 K coord_cassette CUFF.273 chr14 + chr14:61451522-61497162 chr14:61451522-61453769;chr14:61453876-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61453770-61453875;chr14:61482622-61482674;chr14:61486259-61486298 38;5210 K intron_retention CUFF.271 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 415;309 K jcn_only_AA CUFF.272 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 282;112 N jcn_only_AD CUFF.271,CUFF.277 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 187;120 K intron_retention CUFF.265 chr14 + chr14:50249176-50249259 chr14:50249175-50249176;chr14:50249259-50249260 1496;151 N alternative_acceptor CUFF.270 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 174;34 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 35;90 N jcn_only_AA CUFF.277 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 187;140 N alternative_acceptor CUFF.277 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 187;140 K alternative_last_exon CUFF.271 chr14 - chr14:59939809-59942586;chr14:59927892-59942586 chr14:59941245-59942586 chr14:59939243-59939808;chr14:59927690-59927891 chr14:59941157-59941244 610;403 N cassette CUFF.259 chr14 + chr14:24459569-24464240 chr14:24459569-24459983;chr14:24460162-24464240 chr14:24459984-24460161 587;411 N cassette CUFF.290 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 66;1837 N jcn_only_AA CUFF.274 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 1001;67 N coord_cassette CUFF.290 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104260913;chr14:104261001-104263707 chr14:104251132-104251251;chr14:104260914-104261000 305;5526 N alternative_donor CUFF.260 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563464-24563643 chr14:24563463-24563464 84;2707 K alternative_acceptor CUFF.279 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 58;125 K coord_cassette CUFF.277 chr14 - chr14:75143456-75151156 chr14:75143456-75144881;chr14:75145033-75149998;chr14:75150237-75151156 chr14:75144882-75145032;chr14:75149999-75150236 300;491 K alternative_acceptor CUFF.279 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 133;78 K cassette CUFF.265 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 184;3071 N jcn_only_AA CUFF.274 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 252;1013 N jcn_only_AA CUFF.279,CUFF.282 chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 223;87 K jcn_only_AA CUFF.291 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 113;518 K cassette CUFF.265 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 310;2777 N coord_cassette CUFF.260 chr14 + chr14:24563644-24566100 chr14:24563644-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 162;4094 K cassette CUFF.258 chr14 + chr14:23392414-23395669 chr14:23392414-23393509;chr14:23393651-23395669 chr14:23393510-23393650 59;342 K alternative_last_exon CUFF.289 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237381-103237910 293;404 K cassette CUFF.269 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 275;62 N alternative_donor CUFF.279 chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 chr14:76368568-76373020;chr14:76373021-76407837 chr14:76368567-76368568;chr14:76373020-76373021 718;1009 N jcn_only_AA CUFF.290 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 32;841 N jcn_only_AA CUFF.290 chr14 - chr14:104230817-104245081;chr14:104225643-104245081 chr14:104224089-104245081 chr14:104224089-104225642;chr14:104225643-104230816 chr14:104224088-104224089;chr14:104225642-104225643 619;902 K cassette CUFF.285 chr14 - chr14:92105595-92136157 chr14:92105595-92126180;chr14:92126326-92136157 chr14:92126181-92126325 chr14:92105440-92105594;chr14:92136158-92136274 100;1491 N coord_cassette CUFF.259 chr14 + chr14:24459569-24473545 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24473545 chr14:24459984-24460161;chr14:24464241-24464342 47;438 K coord_cassette CUFF.259 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 2139;1675 K alternative_first_exon CUFF.272 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031765-60031993 chr14:60031076-60031247 138;433 N alternative_donor CUFF.283 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 86;324 N alternative_donor CUFF.290 chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 chr14:104306416-104313111;chr14:104313112-104313344;chr14:104313345-104313635 chr14:104313111-104313112;chr14:104313344-104313345;chr14:104313635-104313636 2036;1175 K alternative_acceptor CUFF.291 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 113;726 N alternative_acceptor CUFF.279,CUFF.282 chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 chr14:76372898-76407766;chr14:76407767-76420766 chr14:76407766-76407767;chr14:76420766-76420767 223;123 N alternative_acceptor CUFF.274 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 252;1013 K alternative_last_exon CUFF.271 chr14 - chr14:59927892-59942586;chr14:59941245-59942586 chr14:59939809-59942586 chr14:59927690-59927891;chr14:59941157-59941244 chr14:59939243-59939808 523;490 N alternative_donor CUFF.290 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 1026;432 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 594;902 K intron_retention CUFF.279 chr14 + chr14:76156666-76165530 chr14:76156665-76156666;chr14:76165530-76165531 67;162 N alternative_donor CUFF.290 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 277;401 K intron_retention CUFF.260 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 611;1221 K jcn_only_AD CUFF.275 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 45;11 K jcn_only_AA CUFF.273 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 1369;689 K alternative_acceptor CUFF.273 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 1369;846 K intron_retention CUFF.279 chr14 + chr14:76129567-76135758 chr14:76129566-76129567;chr14:76135758-76135759 186;83 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 1242;216 K cassette CUFF.286 chr14 + chr14:92958585-92959819 chr14:92958585-92959170;chr14:92959269-92959819 chr14:92959171-92959268 570;79 K coord_cassette CUFF.273 chr14 + chr14:61518854-61545547 chr14:61518854-61519066;chr14:61519704-61540565;chr14:61540660-61545547 chr14:61519067-61519703;chr14:61540566-61540659 303;4619 K cassette CUFF.282 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 54;919 K cassette CUFF.266 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 142;82 K intron_retention CUFF.551 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 570;81 N alternative_donor CUFF.520 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 300;1578 K cassette CUFF.554 chr19 + chr19:52264484-52271897 chr19:52264484-52266614;chr19:52266771-52271897 chr19:52266615-52266770 471;135 N alternative_acceptor CUFF.495 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 5806;206 N alternative_donor CUFF.516 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 1070;401 N alternative_donor CUFF.558 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 164;106 K intron_retention CUFF.508 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 53;663 K jcn_only_AA CUFF.510 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 161;279 K cassette CUFF.511 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 235;552 K intron_retention CUFF.516 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 58;386 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 141;284 K cassette CUFF.499 chr19 - chr19:5897009-5903622 chr19:5897009-5901345;chr19:5901466-5903622 chr19:5901346-5901465 120;2044 N alternative_acceptor CUFF.529 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 1076;140 N jcn_only_AD CUFF.529,CUFF.552 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 1384;72 K intron_retention CUFF.520 chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 33;1627 N cassette CUFF.520 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17448474-17448816 chr19:17447629-17448473 45;4909 N coord_cassette CUFF.529 chr19 - chr19:33984244-34003498 chr19:33984244-33991843;chr19:33991908-34001933;chr19:34002062-34003498 chr19:33991844-33991907;chr19:34001934-34002061 199;2941 N alternative_donor CUFF.543 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 518;652 N alternative_acceptor CUFF.542 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 151;1282 N jcn_only_AD CUFF.516 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 1135;247 K cassette CUFF.562 chr19 + chr19:55084903-55085542 chr19:55084903-55085164;chr19:55085380-55085542 chr19:55085165-55085379 325;2031 K alternative_acceptor CUFF.538 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 31;85 K jcn_only_AA CUFF.535 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 59;393 K cassette CUFF.506 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 85;1689 N alternative_acceptor CUFF.495 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 5287;725 K cassette CUFF.562 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 185;912 K cassette CUFF.554 chr19 + chr19:52264484-52271897 chr19:52264484-52265669;chr19:52265789-52271897 chr19:52265670-52265788 471;274 K cassette CUFF.506 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 66;2783 K jcn_only_AD CUFF.555 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1114;254 K intron_retention CUFF.510 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 115;541 K intron_retention CUFF.495 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 734;1693 N jcn_only_AA CUFF.521 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 216;162 K cassette CUFF.515 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 40;1316 K intron_retention CUFF.539 chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 435;2992 K jcn_only_AA CUFF.551 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 119;570 N jcn_only_AA chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1473;270 N alternative_donor CUFF.510 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 44;5409 N intron_retention chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 27;297 K alternative_donor CUFF.507 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 22;390 K intron_retention CUFF.500 chr19 - chr19:6007814-6008116 chr19:6007813-6007814;chr19:6008116-6008117 666;326 K coord_cassette CUFF.551 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 66;1471 K intron_retention CUFF.542 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 140;214 N jcn_only_AD CUFF.520 chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 300;324 K alternative_acceptor CUFF.542,CUFF.555 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 129;1145 K intron_retention CUFF.546 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 279;57 N alternative_acceptor CUFF.558 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 568;61 K intron_retention CUFF.515 chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 240;87 N jcn_only_AD CUFF.520 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 2611;451 K intron_retention CUFF.548 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 2371;60 K cassette CUFF.562 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 185;383 N alternative_acceptor CUFF.520 chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1500;1149 K intron_retention CUFF.536 chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 8;12 N alternative_acceptor chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 228;468 K alternative_first_exon CUFF.541 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725058 133;221 N jcn_only_AA CUFF.520 chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 594;1149 N jcn_only_AD CUFF.520 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 2557;505 K cassette CUFF.511 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 194;706 K intron_retention CUFF.534 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 2817;188 N alternative_donor CUFF.515 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 753;132 N alternative_donor chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 285;2158 K intron_retention CUFF.548 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 2967;131 K intron_retention CUFF.555 chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 129;1087 N alternative_acceptor CUFF.521 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 40;2215 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 51;1016 K intron_retention ENSG00000269399.1 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 501;43 K intron_retention CUFF.534 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 52;219 K alternative_acceptor CUFF.495 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 92;1334 N cassette CUFF.562 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 41;1807 K intron_retention CUFF.520 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 3567;987 N alternative_acceptor CUFF.558 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 2164;415 K jcn_only_AD CUFF.498 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 236;464 N alternative_acceptor CUFF.521 chr19 + chr19:17597767-17597982 chr19:17597767-17597908 chr19:17597909-17597982 chr19:17597982-17597983 114;207 N intron_retention chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 1022;794 N alternative_donor CUFF.520 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 10077;84 K intron_retention CUFF.548 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 133;117 K cassette CUFF.500 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 185;94 K intron_retention CUFF.548 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 2837;102 N jcn_only_AA CUFF.498 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1354;69 K intron_retention CUFF.513 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 9234;128 K intron_retention CUFF.552 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 1171;40 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 71;686 K alternative_acceptor CUFF.547 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 139;67 K intron_retention CUFF.516 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 1158;491 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 70;649 N jcn_only_AD CUFF.516 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 721;284 N alternative_donor CUFF.520 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 8844;1317 K jcn_only_AA CUFF.542,CUFF.558 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 387;171 K intron_retention CUFF.499 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 1293;57 K alternative_first_exon CUFF.552 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538062-51538583 chr19:51538051-51538054 2472;71 N alternative_acceptor CUFF.516 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16206074-16212073 chr19:16212073-16212074 626;953 K intron_retention CUFF.502 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 137;330 N cassette CUFF.516 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 279;3035 N jcn_only_AD CUFF.520 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 2991;71 N jcn_only_AA CUFF.520 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1419;324 N jcn_only_AD CUFF.520 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 1913;1149 K alternative_donor CUFF.534,CUFF.552 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 146;601 K intron_retention CUFF.548 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 362;156 K alternative_first_exon CUFF.523,CUFF.564 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 571;557 N jcn_only_AD CUFF.542 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 268;275 N alternative_acceptor CUFF.495 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 4561;1451 K intron_retention CUFF.540 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 39;599 K intron_retention CUFF.555 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 30;22 K alternative_first_exon CUFF.500,CUFF.546 chr19 - chr19:6047516-6049146,chr19:6047516-6072015,chr19:6047516-6148241;chr19:6047516-6110403 chr19:6047516-6057172 chr19:6110404-6110700 chr19:6057173-6057271 1006;55 N jcn_only_AD CUFF.520 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 3012;50 N alternative_acceptor CUFF.542 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 830;643 K intron_retention chr19 + chr19:16186983-16192722 chr19:16186982-16186983;chr19:16192722-16192723 546;310 K alternative_donor CUFF.498 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 377;1363 N cassette CUFF.515 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 168;1263 K intron_retention CUFF.513 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 15001;85 K alternative_donor CUFF.555 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1202;617 K intron_retention CUFF.552 chr19 - chr19:51537897-51538050 chr19:51537896-51537897;chr19:51538050-51538051 71;36 K alternative_first_exon CUFF.529 chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33980902-33980963 chr19:33978156-33978380 1690;23231 K jcn_only_AA CUFF.520 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 242;1474 K intron_retention CUFF.539 chr19 - chr19:41938314-41939176 chr19:41938313-41938314;chr19:41939176-41939177 1351;993 N jcn_only_AD CUFF.495 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 237;2767 N jcn_only_AA CUFF.495 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 2746;437 N jcn_only_AA CUFF.526 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 25;169 N alternative_donor CUFF.521 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 173;136 N coord_cassette CUFF.515 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866657-14867049 chr19:14865766-14865939;chr19:14866466-14866656 117;2389 N mutually_exclusive CUFF.500 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 571;61 N jcn_only_AD CUFF.542 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 516;27 N cassette CUFF.500 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 32;2312 K intron_retention CUFF.522 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 2863;305 N jcn_only_AA CUFF.495 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 3113;70 N alternative_donor CUFF.529 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 1207;161 K intron_retention CUFF.537 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 39;135 N jcn_only_AA CUFF.558 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 187;210 N jcn_only_AD CUFF.516 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 604;401 K cassette CUFF.566 chr19 + chr19:58963072-58965062 chr19:58963072-58963494;chr19:58964150-58965062 chr19:58963495-58964149 chr19:58962971-58963071;chr19:58965063-58965189 326;25644 K jcn_only_AD CUFF.531 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 808;742 N jcn_only_AD CUFF.516 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 685;320 N cassette CUFF.515 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 408;1515 K intron_retention CUFF.545 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 193;302 K intron_retention chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 270;198 N jcn_only_AA CUFF.529 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 1076;132 K jcn_only_AA CUFF.553 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 164;132 N alternative_acceptor CUFF.543 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 163;543 N jcn_only_AA CUFF.515 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 1003;143 N alternative_donor CUFF.520 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 10090;71 N jcn_only_AD CUFF.534 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 280;2817 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 225;660 K alternative_first_exon CUFF.516 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16191725-16191885;chr19:16186857-16186982 chr19:16190850-16191252 1731;745 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 112;857 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 227;1076 N alternative_acceptor CUFF.542 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 1333;140 K cassette CUFF.552 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 864;1544 K alternative_acceptor CUFF.510 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 161;345 K jcn_only_AA CUFF.542,CUFF.555 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 129;251 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 3295;2717 N cassette CUFF.520 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17447967-17448816 chr19:17447629-17447966 45;3166 N alternative_acceptor CUFF.558 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 2424;155 N alternative_donor CUFF.516 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 910;561 K alternative_first_exon CUFF.503 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6216988 584;404 K intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 300;523 K cassette CUFF.552 chr19 - chr19:51534178-51537235 chr19:51534178-51535035;chr19:51535392-51537235 chr19:51535036-51535391 864;2027 N cassette CUFF.521 chr19 + chr19:17611686-17615263 chr19:17611686-17612081;chr19:17612229-17615263 chr19:17612082-17612228 174;674 K cassette CUFF.506 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 160;5409 N alternative_last_exon CUFF.500 chr19 - chr19:6027346-6039990;chr19:6016283-6039990 chr19:6026249-6039990 chr19:6016101-6016282 chr19:6026131-6026248 112;399 K mutually_exclusive CUFF.554 chr19 + chr19:52264484-52266614,chr19:52266771-52271897 chr19:52264484-52265669,chr19:52265789-52271897 chr19:52266615-52266770 chr19:52265670-52265788 135;274 K intron_retention CUFF.520 chr19 + chr19:17450409-17451915 chr19:17450408-17450409;chr19:17451915-17451916 242;1279 N alternative_donor CUFF.520 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 8503;1658 K intron_retention CUFF.520 chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 1328;1230 K alternative_last_exon CUFF.545 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116165-49116564 chr19:49117331-49117884 619;1429 N intron_retention chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 169;603 N mutually_exclusive CUFF.562 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 642;48 N jcn_only_AD CUFF.542 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 169;24 K intron_retention CUFF.558 chr19 + chr19:54657578-54658995 chr19:54657577-54657578;chr19:54658995-54658996 60;323 N intron_retention CUFF.558 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 43;263 N alternative_acceptor CUFF.498 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1351;82 K intron_retention CUFF.516 chr19 + chr19:16204409-16204493 chr19:16204408-16204409;chr19:16204493-16204494 813;215 K intron_retention CUFF.543 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 518;974 K cassette CUFF.537 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 42;796 K cassette CUFF.539 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 1733;3636 N alternative_donor CUFF.516 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 1135;263 K jcn_only_AA CUFF.498 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 65;571 K cassette CUFF.500 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 607;2225 K intron_retention CUFF.548 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 2690;95 N cassette CUFF.500 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 807;1012 K intron_retention CUFF.520 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 805;1752 K cassette CUFF.550 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 280;673 K cassette CUFF.546 chr19 - chr19:49298722-49299684 chr19:49298722-49299403;chr19:49299587-49299684 chr19:49299404-49299586 439;862 N jcn_only_AA CUFF.558 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 103;415 N intron_retention CUFF.555 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 33;19 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 333;659 N jcn_only_AD CUFF.529 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 1205;98 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 451;920 N alternative_acceptor CUFF.495 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 5211;801 N jcn_only_AA CUFF.536 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 6;37 K alternative_first_exon CUFF.516 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 chr19:16190850-16191252;chr19:16191725-16191885 chr19:16186857-16186982 1706;770 K intron_retention CUFF.516 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 401;263 N jcn_only_AA CUFF.558 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 251;146 K intron_retention CUFF.520 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 258;367 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 154;46 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 31;1195 N intron_retention chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 75;262 K jcn_only_AA CUFF.564 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 439;147 K alternative_first_exon CUFF.551 chr19 - chr19:51528923-51529793;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51530712 chr19:51529794-51530500;chr19:51529012-51529107;chr19:51531200-51531394 chr19:51530713-51530971 1127;347 N cassette CUFF.515 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866657-14867049 chr19:14866466-14866656 408;1358 K alternative_first_exon CUFF.532 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139501-36139810 265;1035 K alternative_acceptor CUFF.535 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 59;949 K cassette CUFF.555 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 20;3431 K jcn_only_AD CUFF.507 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 22;220 N jcn_only_AA CUFF.521 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 40;82 K intron_retention CUFF.548 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 2858;317 K alternative_first_exon CUFF.551 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51529011 chr19:51528923-51531199 chr19:51530713-51530971;chr19:51529794-51530500;chr19:51529012-51529107 chr19:51531200-51531394 1307;167 K alternative_first_exon CUFF.523 chr19 - chr19:20243397-20351308;chr19:20243397-20349096 chr19:20243397-20261169 chr19:20349097-20349343 chr19:20261170-20261357 536;161 N coord_cassette CUFF.521 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17612081;chr19:17612229-17615263 chr19:17611521-17611685;chr19:17612082-17612228 51;1047 K intron_retention CUFF.504 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 51;246 N cassette CUFF.515 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 76;2370 N alternative_acceptor CUFF.551 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 301;52 K alternative_acceptor CUFF.551 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 119;713 K jcn_only_AD CUFF.539 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 696;1351 N alternative_acceptor CUFF.542 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 783;690 N jcn_only_AA CUFF.521 chr19 + chr19:17597767-17597982 chr19:17597767-17597908 chr19:17597909-17597982 chr19:17597982-17597983 114;62 N alternative_donor CUFF.495 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 237;3361 K mutually_exclusive CUFF.550 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 730;454 K alternative_acceptor CUFF.548 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 2603;520 N jcn_only_AD chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 285;2008 K intron_retention CUFF.520 chr19 + chr19:17449261-17449347 chr19:17449260-17449261;chr19:17449347-17449348 3728;235 K alternative_donor CUFF.498 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 1518;222 K cassette CUFF.547 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 104;258 K alternative_last_exon CUFF.526 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21634794-21636579 248;3659 N coord_cassette CUFF.515 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 53;2860 N alternative_acceptor CUFF.511 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 315;174 K alternative_acceptor CUFF.505,CUFF.555 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 19;47 N intron_retention CUFF.521 chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 62;186 K alternative_first_exon CUFF.516 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 chr19:16190850-16191252;chr19:16186857-16186982 chr19:16191725-16191885 1671;805 K intron_retention CUFF.498 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 458;489 K cassette CUFF.547 chr19 - chr19:49316606-49316919 chr19:49316606-49316689;chr19:49316810-49316919 chr19:49316690-49316809 104;202 K intron_retention CUFF.520 chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 82;1386 K jcn_only_AD CUFF.498 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 619;81 N intron_retention chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 324;91 N intron_retention chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 285;363 N alternative_acceptor CUFF.526 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 25;1424 N cassette CUFF.515 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 135;2485 N jcn_only_AA CUFF.542 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 309;55 K alternative_first_exon CUFF.539,CUFF.551 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945787-41946383 chr19:41945379-41945477 2888;481 K alternative_first_exon CUFF.511,CUFF.549 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546692 chr19:11545594-11545925 258;964 N alternative_acceptor CUFF.558 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 483;146 K mutually_exclusive CUFF.562 chr19 + chr19:55087577-55098476,chr19:55098528-55098667 chr19:55087577-55088931,chr19:55089191-55098667 chr19:55098477-55098527 chr19:55088932-55089190 383;912 K intron_retention CUFF.548 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 336;62 K alternative_first_exon CUFF.514 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 77;197 N jcn_only_AD CUFF.529 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 1174;129 N jcn_only_AA CUFF.495 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 3071;112 N jcn_only_AD CUFF.507,CUFF.529 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 10876;52 N jcn_only_AD CUFF.564 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 46;39 N intron_retention chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 218;509 N intron_retention chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 323;264 K jcn_only_AA CUFF.547 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 139;67 K alternative_first_exon CUFF.521 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 chr19:17581275-17581516 chr19:17597372-17598144 413;1706 N jcn_only_AD CUFF.520 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 3031;31 K intron_retention CUFF.520 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 701;1204 N alternative_acceptor CUFF.555 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 30;53 K intron_retention CUFF.495 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 92;1695 K jcn_only_AD CUFF.555 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 505;863 N cassette CUFF.521 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17615263 chr19:17611521-17611685 51;821 K alternative_last_exon CUFF.523 chr19 - chr19:20243397-20349096;chr19:20339293-20349096 chr19:20287619-20349096 chr19:20243270-20243396;chr19:20338732-20339292 chr19:20286842-20287618 1522;560 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 292;1076 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 50;982 K cassette CUFF.547 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 45;307 K intron_retention CUFF.510 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 44;11252 N jcn_only_AD CUFF.509 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 243;262 N alternative_donor CUFF.498 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 1083;51 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 2293;794 K cassette CUFF.527 chr19 + chr19:32851525-32873372 chr19:32851525-32871514;chr19:32871527-32873372 chr19:32871515-32871526 64;32 N jcn_only_AA CUFF.558 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 458;60 N jcn_only_AD CUFF.498 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 1083;51 N coord_cassette CUFF.546 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 203;2241 K alternative_acceptor CUFF.553 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 164;2752 K alternative_donor CUFF.519 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 49;436 K intron_retention CUFF.548 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 2253;57 K intron_retention CUFF.548 chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 1932;71 K alternative_donor CUFF.537 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 25;380 N jcn_only_AD CUFF.495 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 2293;313 K intron_retention chr19 - chr19:6026249-6039990 chr19:6026248-6026249;chr19:6039990-6039991 371;166 N cassette CUFF.555 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 54;147 N alternative_acceptor CUFF.523 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 50;1330 K alternative_donor CUFF.495 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 734;2918 N jcn_only_AD CUFF.558 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 164;81 K intron_retention CUFF.546 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 627;582 N intron_retention chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 71;296 K jcn_only_AD CUFF.564 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 324;98 K alternative_first_exon CUFF.551 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51531199 chr19:51528923-51529011 chr19:51530713-51530971;chr19:51529794-51530500;chr19:51531200-51531394 chr19:51529012-51529107 1328;146 K jcn_only_AD CUFF.537 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 25;372 N alternative_donor CUFF.516 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 962;509 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 142;242 K intron_retention CUFF.558 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 415;322 N jcn_only_AA CUFF.543 chr19 + chr19:45251386-45254483 chr19:45251386-45251951 chr19:45251952-45254483 chr19:45254483-45254484 163;51 K intron_retention CUFF.522 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 400;370 N alternative_donor CUFF.507,CUFF.529 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 10876;148 K jcn_only_AD CUFF.552 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 753;380 K alternative_donor CUFF.507 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 77;127 N alternative_acceptor CUFF.558 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 570;2009 N alternative_donor CUFF.520 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 8493;1668 K intron_retention CUFF.535 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 370;687 N jcn_only_AA CUFF.558 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 475;43 N jcn_only_AA CUFF.510 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 337;73 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 31;11353 K intron_retention CUFF.548 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 2603;236 N alternative_donor CUFF.542 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 762;426 N jcn_only_AA CUFF.520,CUFF.521 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 335;43 N intron_retention CUFF.534 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 228;192 K intron_retention CUFF.507 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 77;45 K intron_retention CUFF.520 chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 977;1559 N alternative_donor CUFF.495 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 2293;3577 N alternative_acceptor CUFF.558 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 207;422 N alternative_acceptor CUFF.536 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 6;141 N mutually_exclusive CUFF.562 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085164,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085165-55085379 642;109 N jcn_only_AD CUFF.543 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 422;49 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 138;272 K intron_retention CUFF.522 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 352;354 K intron_retention CUFF.500 chr19 - chr19:6008236-6010146 chr19:6008235-6008236;chr19:6010146-6010147 896;398 K intron_retention CUFF.495 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 924;717 K jcn_only_AA CUFF.505,CUFF.555 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 19;47 N jcn_only_AD CUFF.529,CUFF.534 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 3045;52 N alternative_donor CUFF.534 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2915;256 K intron_retention CUFF.539 chr19 - chr19:41938314-41939441 chr19:41938313-41938314;chr19:41939441-41939442 696;182 N jcn_only_AA CUFF.555 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 30;33 K alternative_acceptor CUFF.515 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 246;388 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 890;2293 N alternative_donor CUFF.542 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 1161;27 N jcn_only_AA chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 71;27 N jcn_only_AA CUFF.542 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 151;1272 K intron_retention CUFF.548 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 2926;170 N alternative_acceptor CUFF.510 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 623;73 K cassette CUFF.555 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 1314;801 K cassette CUFF.564 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 345;155 N alternative_donor CUFF.509 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 243;1027 N coord_cassette CUFF.529 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 698;45850 K intron_retention CUFF.553 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 257;101 K alternative_donor CUFF.564 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 324;452 K cassette CUFF.521 chr19 + chr19:17598339-17599816 chr19:17598339-17599656;chr19:17599749-17599816 chr19:17599657-17599748 95;1058 N jcn_only_AD CUFF.515 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 753;44 K intron_retention CUFF.531 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 915;431 N jcn_only_AA CUFF.498 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1341;82 N alternative_acceptor CUFF.495 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 5900;112 N cassette CUFF.529 chr19 - chr19:33984244-34001933 chr19:33984244-33991843;chr19:33991908-34001933 chr19:33991844-33991907 95;1801 N alternative_donor CUFF.543 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 422;216 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 161;39 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 131;181 K alternative_acceptor CUFF.542,CUFF.558 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 387;212 N cassette CUFF.522 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 56;9045 N alternative_donor CUFF.542 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 453;735 K alternative_last_exon CUFF.523 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20286842-20287618;chr19:20243270-20243396 chr19:20338732-20339292 801;1281 K cassette CUFF.539 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 746;4487 N intron_retention chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 237;742 K jcn_only_AA CUFF.548 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 2603;362 N jcn_only_AA CUFF.511 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 315;58 N jcn_only_AA CUFF.516 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16206074-16212073 chr19:16212073-16212074 626;209 K alternative_donor CUFF.531 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 808;759 N jcn_only_AA CUFF.521 chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 205;173 N jcn_only_AA CUFF.495 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 3137;46 K alternative_first_exon CUFF.551 chr19 - chr19:51528923-51530712;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51529793 chr19:51530713-51530971;chr19:51529012-51529107;chr19:51531200-51531394 chr19:51529794-51530500 660;814 N jcn_only_AA CUFF.523 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 50;417 K cassette CUFF.520 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 33;2029 K jcn_only_AA CUFF.495 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 92;734 K cassette CUFF.548 chr19 + chr19:50305399-50306205 chr19:50305399-50305790;chr19:50305857-50306205 chr19:50305791-50305856 2371;469 K intron_retention CUFF.534 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 993;3551 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 85;115 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 78;592 K cassette CUFF.562 chr19 + chr19:55084903-55085542 chr19:55084903-55085297;chr19:55085380-55085542 chr19:55085298-55085379 325;870 K alternative_donor CUFF.552 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 753;755 N alternative_donor CUFF.520 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 5011;5150 K alternative_first_exon CUFF.549 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 202;196 K intron_retention CUFF.521 chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 114;243 N alternative_acceptor CUFF.520 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 1760;889 K jcn_only_AD CUFF.495 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 734;924 K jcn_only_AD CUFF.507 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 77;111 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 46;614 N jcn_only_AA CUFF.551 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 301;52 N jcn_only_AD CUFF.542 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 302;241 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 31;1153 N alternative_donor CUFF.542 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 169;136 N alternative_donor CUFF.529 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 1237;131 N jcn_only_AD CUFF.543 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 518;115 N coord_cassette CUFF.500 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 622;2480 K intron_retention CUFF.510 chr19 + chr19:11470633-11471892 chr19:11470632-11470633;chr19:11471892-11471893 165;779 K alternative_last_exon CUFF.499 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894589-5894865 743;3743 K jcn_only_AD CUFF.519 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 49;161 N alternative_donor CUFF.520 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 9948;213 K jcn_only_AD CUFF.547 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 113;52 N jcn_only_AD CUFF.520 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 2257;805 N alternative_donor CUFF.534 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 354;2817 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 266;46 K cassette CUFF.515 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 327;647 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 227;85 N jcn_only_AA CUFF.510 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 345;65 K intron_retention CUFF.558 chr19 + chr19:54647486-54647741 chr19:54647485-54647486;chr19:54647741-54647742 334;29 K alternative_donor CUFF.547 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 113;57 K intron_retention CUFF.515 chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 40;122 K alternative_donor CUFF.497 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 85;38 K intron_retention CUFF.566 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 chr19:58965595-58965711;chr19:58966550-58969200 737;3802 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 31;300 K intron_retention CUFF.516 chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 504;431 K alternative_acceptor CUFF.498 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 65;791 K alternative_donor CUFF.555 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 956;863 K cassette CUFF.532 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 503;1727 K cassette CUFF.519 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 31;173 K alternative_first_exon CUFF.543 chr19 + chr19:45251386-45254483 chr19:45252304-45254483 chr19:45250962-45251385 chr19:45251753-45252303 678;800 N jcn_only_AA CUFF.558 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 356;41 K intron_retention CUFF.555 chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 31;274 K intron_retention CUFF.543 chr19 + chr19:45260673-45260902 chr19:45260672-45260673;chr19:45260902-45260903 409;417 N intron_retention chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 1149;721 K intron_retention CUFF.521 chr19 + chr19:17599927-17608063 chr19:17599926-17599927;chr19:17608063-17608064 690;19 K intron_retention CUFF.535 chr19 + chr19:40485892-40485976 chr19:40485891-40485892;chr19:40485976-40485977 814;80 N intron_retention chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 115;971 K alternative_last_exon CUFF.523 chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20286842-20287618;chr19:20338732-20339292 chr19:20243270-20243396 1841;241 K alternative_donor CUFF.498 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 1585;155 K intron_retention CUFF.520 chr19 + chr19:17450409-17451852 chr19:17450408-17450409;chr19:17451852-17451853 1474;505 K intron_retention CUFF.548 chr19 + chr19:50285228-50296292 chr19:50285227-50285228;chr19:50296292-50296293 1174;24 K jcn_only_AD CUFF.534,CUFF.552 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 146;342 N alternative_acceptor CUFF.510 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 541;155 K intron_retention CUFF.555 chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 26;264 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 181;46 N jcn_only_AD CUFF.534 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 2869;228 K cassette CUFF.564 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 132;730 K jcn_only_AD CUFF.497 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 85;28 K jcn_only_AA CUFF.515 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 246;296 K cassette CUFF.558 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 92;1418 K intron_retention CUFF.526 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 536;36 N cassette CUFF.515 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 53;2449 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 437;663 K intron_retention CUFF.539 chr19 - chr19:41939340-41939441 chr19:41939339-41939340;chr19:41939441-41939442 2065;251 K intron_retention CUFF.548 chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 1857;108 K intron_retention CUFF.548 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 3081;224 K intron_retention chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 2008;255 K alternative_first_exon CUFF.546 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314385 chr19:49314066-49314211 306;98 K intron_retention CUFF.558 chr19 + chr19:54652479-54653294 chr19:54652478-54652479;chr19:54653294-54653295 397;34 N jcn_only_AD CUFF.521 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 350;54 K intron_retention CUFF.498 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 589;345 K intron_retention CUFF.526 chr19 - chr19:21637275-21639262 chr19:21637274-21637275;chr19:21639262-21639263 830;25 K intron_retention CUFF.552 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 757;1077 N alternative_acceptor chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 2038;611 K alternative_last_exon CUFF.539 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41937223-41938313 chr19:41938678-41939339 6726;9289 K intron_retention CUFF.516 chr19 + chr19:16197351-16198836 chr19:16197350-16197351;chr19:16198836-16198837 1603;161 N coord_cassette CUFF.515 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 117;2542 K intron_retention CUFF.522 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 204;502 N intron_retention chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 505;1778 K intron_retention CUFF.535 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 577;185 K alternative_first_exon CUFF.520 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445644-17445931 chr19:17447426-17447536 188;89 N cassette CUFF.500 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 331;3198 K intron_retention CUFF.526 chr19 - chr19:21638407-21639262 chr19:21638406-21638407;chr19:21639262-21639263 228;11 N alternative_acceptor CUFF.498 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 1364;69 K alternative_acceptor CUFF.520 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 242;2501 N alternative_acceptor CUFF.515 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 1003;1315 K intron_retention CUFF.522 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 478;230 K alternative_donor CUFF.555 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1480;339 N alternative_donor CUFF.521 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 350;6453 N jcn_only_AA CUFF.542 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 195;169 N alternative_donor CUFF.529,CUFF.534 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 3073;98 N coord_cassette CUFF.500 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 448;223 K intron_retention CUFF.551 chr19 - chr19:51525921-51526347 chr19:51525920-51525921;chr19:51526347-51526348 119;160 K cassette CUFF.512 chr19 + chr19:11888553-11889144 chr19:11888553-11888930;chr19:11888995-11889144 chr19:11888931-11888994 51;303 K jcn_only_AA CUFF.538 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 31;85 N alternative_acceptor chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 71;39 K intron_retention CUFF.558 chr19 + chr19:54656737-54657451 chr19:54656736-54656737;chr19:54657451-54657452 164;480 K coord_cassette CUFF.515 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 40;1100 N intron_retention CUFF.555 chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 28;261 K intron_retention CUFF.546 chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 107;890 N jcn_only_AA CUFF.495 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 2958;225 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 44;316 K intron_retention CUFF.495 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 2767;513 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 313;859 N alternative_donor CUFF.529,CUFF.552 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 1384;90 K intron_retention CUFF.513 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 10515;60 N jcn_only_AA CUFF.542 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 224;140 K alternative_last_exon CUFF.526 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637185-21637274 chr19:21638091-21638406 830;663 N jcn_only_AD CUFF.521 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 173;48 K intron_retention CUFF.542 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 275;198 K jcn_only_AD CUFF.498 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 545;155 N jcn_only_AD CUFF.510 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 44;31 N cassette CUFF.546 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 228;2441 K intron_retention CUFF.498 chr19 + chr19:4318949-4322982 chr19:4318948-4318949;chr19:4322982-4322983 613;57 K jcn_only_AD CUFF.555 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 1117;251 K jcn_only_AA CUFF.563 chr19 + chr19:55255537-55275342 chr19:55255537-55258786 476;471 N cassette CUFF.529 chr19 - chr19:33984244-34003498 chr19:33984244-34001933;chr19:34002062-34003498 chr19:34001934-34002061 199;1349 N jcn_only_AA CUFF.488 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 107;202 K alternative_acceptor CUFF.477 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 42;820 K cassette CUFF.481 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 39;2485 K cassette CUFF.468 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 295;879 K alternative_first_exon CUFF.468 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158298-158714 chr18:158820-159021 333;476 N cassette CUFF.481 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895121-55912658 chr18:55895062-55895120 848;1008 K alternative_donor CUFF.480 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 91;153 K alternative_first_exon CUFF.477,CUFF.478 chr18 - chr18:44486279-44497964;chr18:44486279-44500021 chr18:44486279-44497284 chr18:44500022-44500217 chr18:44497285-44497500 chr18:44485642-44486278 416;713 K jcn_only_AA CUFF.488 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 128;312 N cassette CUFF.478 chr18 - chr18:44471018-44483489 chr18:44471018-44473393;chr18:44473495-44483489 chr18:44473394-44473494 639;186 K intron_retention CUFF.468 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 554;490 N jcn_only_AA CUFF.473 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 459;92 N jcn_only_AA CUFF.471 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1826;72 N alternative_acceptor CUFF.478 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 chr18:44497285-44497500 81;2822 N jcn_only_AD CUFF.493 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 63;387 N cassette CUFF.468 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-180235 chr18:166787-166819 155;697 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 15;349 N jcn_only_AA CUFF.486 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 516;61 N coord_cassette CUFF.481 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 21;3038 K jcn_only_AD CUFF.473 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 84;111 K intron_retention CUFF.477 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 206;466 N alternative_donor CUFF.493 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 63;1175 N jcn_only_AA CUFF.471 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 1245;63 K alternative_donor CUFF.473 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 84;422 N alternative_acceptor chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 627;264 K intron_retention CUFF.485 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 496;159 K intron_retention CUFF.471 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 990;1367 K alternative_first_exon CUFF.480 chr18 - chr18:47329224-47340051,chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47339838;chr18:47329224-47337765 chr18:47329224-47339094 chr18:47340102-47340330;chr18:47337766-47337886 chr18:47339095-47339492 496;1565 K jcn_only_AA CUFF.488 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 50;483 K mutually_exclusive CUFF.468 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 323;697 N cassette CUFF.471 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 423;2379 K cassette CUFF.482 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 175;73 N mutually_exclusive CUFF.478 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 chr18:44497285-44497500 905;48 N jcn_only_AD CUFF.489 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 747;69 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 828;1681 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 36;166 K alternative_acceptor CUFF.488 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 50;1749 N jcn_only_AD CUFF.481 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 1211;62 K jcn_only_AA CUFF.473 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 111;154 K alternative_first_exon CUFF.477 chr18 - chr18:44301433-44336340 chr18:44301433-44310168 chr18:44336341-44337132 chr18:44310169-44310324 1293;336 N alternative_donor CUFF.481 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 609;687 K jcn_only_AD CUFF.480 chr18 - chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340101 chr18:47340101-47340102 91;32 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 217;1681 K intron_retention CUFF.477 chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 42;790 K jcn_only_AA CUFF.474 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 84;251 K alternative_last_exon CUFF.469 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807854-4807994 209;171 N alternative_donor CUFF.481 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1354;681 K mutually_exclusive CUFF.468 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 569;697 K alternative_first_exon CUFF.480 chr18 - chr18:47329224-47340051,chr18:47329224-47340186;chr18:47329224-47339094;chr18:47329224-47337765 chr18:47329224-47340101,chr18:47329224-47339838 chr18:47339095-47339492;chr18:47337766-47337886 chr18:47340102-47340330 1713;348 N cassette CUFF.468 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 155;569 N jcn_only_AD CUFF.471 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 1245;62 N alternative_first_exon CUFF.481 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 1317;1839 N jcn_only_AD CUFF.481 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1354;57 K intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 609;373 N jcn_only_AA CUFF.488 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 220;89 K alternative_last_exon CUFF.483 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060590-61060782 chr18:61060783-61060799 1569;111 N alternative_donor CUFF.486 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417617-63418386 chr18:63417616-63417617 9;2268 K jcn_only_AD CUFF.474 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 84;301 N jcn_only_AD CUFF.489 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 702;114 N cassette CUFF.481 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 21;1296 N coord_cassette CUFF.481 chr18 + chr18:56001125-56010137 chr18:56001125-56008269;chr18:56008402-56008909;chr18:56009030-56010137 chr18:56008270-56008401;chr18:56008910-56009029 21;2796 K cassette CUFF.493 chr18 + chr18:77891076-77893494 chr18:77891076-77891574;chr18:77891690-77893494 chr18:77891575-77891689 410;127 K jcn_only_AD CUFF.484 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 47;563 N jcn_only_AD CUFF.486 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417617-63418386 chr18:63417616-63417617 9;386 N jcn_only_AA CUFF.478 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 chr18:44497285-44497500 81;426 N jcn_only_AD CUFF.489 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 183;633 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 15;3180 N alternative_first_exon CUFF.481 chr18 + chr18:55862966-55895061;chr18:55833094-55895061 chr18:55888990-55895061 chr18:55833020-55833093 chr18:55888825-55888989 496;107 K intron_retention chr18 + chr18:163454-178932 chr18:163453-163454;chr18:178932-178933 62;407 N alternative_donor CUFF.489 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 939;114 K cassette CUFF.477 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 26;557 N cassette CUFF.484 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 36;1296 K intron_retention CUFF.476 chr18 - chr18:14969572-14969674 chr18:14969571-14969572;chr18:14969674-14969675 112;178 K alternative_first_exon CUFF.474 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728271-14728513 chr18:14796342-14796414 186;272 N cassette CUFF.478 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 chr18:44497285-44497500 12;5108 K alternative_last_exon CUFF.478 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398133-44398410 154;423 N alternative_first_exon chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44500022-44500217 chr18:44486190-44486278 610;51 K alternative_first_exon CUFF.481 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024426-56024484 chr18:56027109-56027290 1167;405 N alternative_acceptor CUFF.486 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 516;464 N jcn_only_AD CUFF.481 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 1224;134 N alternative_donor CUFF.481 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 1224;152 K alternative_first_exon CUFF.492 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439711-77440261 chr18:77441398-77441517 177;115 N cassette CUFF.481 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 21;2021 N jcn_only_AD CUFF.481 chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 609;36 N alternative_donor CUFF.481 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 1211;292 N alternative_acceptor CUFF.471 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1860;649 N coord_cassette CUFF.478 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44500021 chr18:44473394-44473494;chr18:44483490-44483596 137;257 K jcn_only_AA CUFF.487 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 115;55 K intron_retention CUFF.481 chr18 + chr18:55989719-55990463 chr18:55989718-55989719;chr18:55990463-55990464 831;253 K alternative_first_exon CUFF.491 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76738463-76738843 chr18:76737555-76737959 543;601 N alternative_donor CUFF.471 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 1245;178 K intron_retention CUFF.471 chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 48;577 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 58;375 K alternative_donor CUFF.493 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 65;481 K jcn_only_AD CUFF.493 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 65;372 K intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 chr18:44486190-44486278 51;350 N jcn_only_AA chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 627;264 N alternative_donor CUFF.471 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 1681;780 N alternative_acceptor CUFF.471 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 2330;179 K cassette CUFF.483 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 689;303 K intron_retention CUFF.473 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 84;183 N alternative_donor CUFF.489 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 836;217 N cassette CUFF.478 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 137;884 K alternative_first_exon CUFF.480 chr18 - chr18:47329224-47340051,chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47339838;chr18:47329224-47339094 chr18:47329224-47337765 chr18:47340102-47340330;chr18:47339095-47339492 chr18:47337766-47337886 1969;92 K jcn_only_AA CUFF.492 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 110;141 K cassette CUFF.492 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 11;165 N cassette CUFF.477 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 71;417 K cassette CUFF.483 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 598;185 K alternative_last_exon CUFF.484 chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391222 chr18:61378569-61378628 568;753 N alternative_acceptor CUFF.471 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 1245;445 N coord_cassette CUFF.477 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 71;809 K alternative_acceptor CUFF.473 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 111;175 K alternative_first_exon CUFF.488 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67628828-67629132 chr18:67623991-67624489 328;916 N cassette CUFF.468 chr18 + chr18:163454-180235 chr18:163454-178932;chr18:179038-180235 chr18:178933-179037 155;323 N jcn_only_AD CUFF.471 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 1681;169 K alternative_acceptor CUFF.487 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 115;60 N jcn_only_AA CUFF.471 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1753;145 K cassette CUFF.478 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 87;1669 K cassette CUFF.468 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 364;1076 N jcn_only_AA CUFF.488 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 291;18 K intron_retention CUFF.478 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 676;664 K intron_retention CUFF.481 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 1666;177 K cassette CUFF.481 chr18 + chr18:56001125-56008909 chr18:56001125-56008269;chr18:56008402-56008909 chr18:56008270-56008401 50;1642 K alternative_first_exon CUFF.481 chr18 + chr18:55758860-55833019,chr18:55816802-55833019,chr18:55816792-55833019,chr18:55713251-55833019,chr18:55712848-55833019,chr18:55722109-55833019,chr18:55713021-55833019;chr18:55711941-55833019 chr18:55714743-55833019 chr18:55711599-55711940 chr18:55713593-55714742 1315;2166 K intron_retention CUFF.483 chr18 - chr18:61060783-61064266 chr18:61060782-61060783;chr18:61064266-61064267 771;91 K cassette CUFF.474 chr18 + chr18:14791491-14796341 chr18:14791491-14796219;chr18:14796249-14796341 chr18:14796220-14796248 1752;44 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 58;372 N alternative_donor CUFF.489 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 331;722 K alternative_first_exon CUFF.471 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981024-11981204 chr18:11981385-11981764 235;1984 K cassette CUFF.488 chr18 - chr18:67563282-67613969 chr18:67563282-67611719;chr18:67611805-67613969 chr18:67611720-67611804 262;82 N mutually_exclusive CUFF.492 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 67;66 K jcn_only_AD CUFF.484 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 59;802 K jcn_only_AA CUFF.477 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 42;206 K alternative_first_exon CUFF.1102 chrX + chrX:15699171-15706783;chrX:15693696-15706783;chrX:15693092-15706783;chrX:15699311-15706783 chrX:15693902-15706783 chrX:15693598-15693695;chrX:15693055-15693091;chrX:15699124-15699310 chrX:15693813-15693901 666;249 N jcn_only_AA chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 73;337 K cassette CUFF.1111 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 132;501 K cassette CUFF.1124 chrX + chrX:114536689-114540769 chrX:114536689-114537864;chrX:114537984-114540769 chrX:114537865-114537983 221;293 K alternative_last_exon CUFF.1102 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715978 chrX:15720905-15721946 1333;2164 K alternative_acceptor CUFF.1099 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 24;255 K jcn_only_AD CUFF.1110 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 148;39 K intron_retention CUFF.1103 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 955;45 N cassette CUFF.1095 chrX + chrX:1414350-1422815 chrX:1414350-1419383;chrX:1419520-1422815 chrX:1419384-1419519 233;2848 K intron_retention CUFF.1098 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 158;95 K alternative_first_exon CUFF.1103,CUFF.1108 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955623-19955650 chrX:19955536-19955618 192;45 K intron_retention CUFF.1101 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 302;123 K intron_retention CUFF.1105 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 223;84 K intron_retention CUFF.1111 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 152;117 K intron_retention CUFF.1100 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 487;668 N jcn_only_AD CUFF.1101 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 149;12 K cassette CUFF.1113 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 141;301 K alternative_first_exon CUFF.1100 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13801484-13801640 chrX:13799034-13799132 2608;337 N alternative_donor CUFF.1103,CUFF.1134 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 266;159 K cassette CUFF.1101 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 302;450 K cassette CUFF.1104 chrX - chrX:20252933-20285156 chrX:20252933-20258686;chrX:20258788-20285156 chrX:20258687-20258787 156;168 K alternative_first_exon CUFF.1102 chrX + chrX:15699171-15706783;chrX:15693092-15706783;chrX:15693902-15706783;chrX:15699311-15706783 chrX:15693696-15706783 chrX:15693055-15693091;chrX:15693813-15693901;chrX:15699124-15699310 chrX:15693598-15693695 799;116 K jcn_only_AA CUFF.1114 chrX - chrX:85219058-85302487 chrX:85282562-85302487 175;68 K jcn_only_AD CUFF.1128 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 28;222 N alternative_donor CUFF.1098 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 125;104 K intron_retention CUFF.1097 chrX - chrX:2405744-2406828 chrX:2405743-2405744;chrX:2406828-2406829 32;319 K jcn_only_AA CUFF.1099 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 24;134 K intron_retention CUFF.1128 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 28;334 N alternative_acceptor CUFF.1098 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 71;513 K cassette CUFF.1110 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 98;194 N alternative_donor CUFF.1114 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 68;34 N alternative_donor CUFF.1098 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 193;36 N cassette CUFF.1095 chrX + chrX:1387773-1401570 chrX:1387773-1393647;chrX:1393712-1401570 chrX:1393648-1393711 257;1885 K jcn_only_AD CUFF.1106 chrX + chrX:45129987-45184737 chrX:45184464-45184737 68;363 N alternative_first_exon chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20284682-20284958 chrX:20259711-20259808 84;33 K intron_retention CUFF.1136 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 1994;849 K alternative_first_exon CUFF.1121 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106235518-106235603 chrX:106228326-106228473 8;60 N jcn_only_AD CUFF.1104,CUFF.1111 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 163;93 N jcn_only_AA CUFF.1095,CUFF.1102 chrX + chrX:1424421-1428294 chrX:1424421-1424520 chrX:1424521-1428294 chrX:1428294-1428295 1150;29 K alternative_last_exon CUFF.1102 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721946;chrX:15715363-15715978 chrX:15713794-15713856 3240;257 K intron_retention CUFF.1121 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 86;191 K intron_retention CUFF.1125 chrX - chrX:119377887-119378618 chrX:119377886-119377887;chrX:119378618-119378619 239;1434 K alternative_last_exon CUFF.1128,CUFF.1131 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654642 chrX:133634060-133634698 904;277 K alternative_last_exon CUFF.1125 chrX - chrX:119355498-119378618,chrX:119374209-119378618;chrX:119271100-119378618;chrX:119312412-119378618 chrX:119377887-119378618 chrX:119270952-119271099;chrX:119312247-119312411 chrX:119374080-119377886 726;15771 N jcn_only_AA CUFF.1104 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 55;151 N jcn_only_AD CUFF.1100 chrX - chrX:53652220-53654360 chrX:53652220-53652746 25;41 K alternative_donor CUFF.1121 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 86;126 N jcn_only_AD CUFF.1136 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 145;352 K jcn_only_AD CUFF.1135 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 128;175 K intron_retention CUFF.1098 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 207;78 N alternative_donor CUFF.1136 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 145;899 N alternative_donor CUFF.1101 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 342;1025 N cassette CUFF.1100 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 197;305 K alternative_last_exon CUFF.1125 chrX - chrX:119355498-119378618,chrX:119374209-119378618;chrX:119312412-119378618;chrX:119377887-119378618 chrX:119271100-119378618 chrX:119312247-119312411;chrX:119374080-119377886 chrX:119270952-119271099 16396;101 K cassette CUFF.1122 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 109;693 K jcn_only_AA CUFF.1097 chrX - chrX:2408811-2418857 chrX:2408814-2418857 chrX:2408811-2408813 chrX:2408810-2408811 7;327 K intron_retention CUFF.1136 chrX + chrX:153608728-153609112 chrX:153608727-153608728;chrX:153609112-153609113 2315;232 N alternative_donor CUFF.1099,CUFF.1101 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10588330-10645504 chrX:10645504-10645505 67;488 N intron_retention chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 14;251 N alternative_donor CUFF.1104 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 337;114 N alternative_acceptor chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 1079;1504 K intron_retention CUFF.1121 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 22;166 K alternative_first_exon CUFF.1097,CUFF.1134 chrX - chrX:152988744-152988962,chrX:152988744-152989470,chrX:152988744-152989788;chrX:152988744-152989409;chrX:152988744-152989655 chrX:152988744-152989941 chrX:152989410-152989598;chrX:152989656-152989838 chrX:152989942-152990240 3936;172 K alternative_first_exon CUFF.1129 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250614-134250852 64;465 N alternative_acceptor CUFF.1095 chrX + chrX:1404814-1407411 chrX:1404814-1406066 chrX:1406067-1407411 chrX:1407411-1407412 1984;142 N alternative_acceptor chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 1535;1048 K alternative_first_exon CUFF.1102 chrX + chrX:15699171-15706783;chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699311-15706783 chrX:15693598-15693695;chrX:15693055-15693091;chrX:15693813-15693901 chrX:15699124-15699310 481;434 N jcn_only_AD CUFF.1098 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 76;28 N alternative_acceptor CUFF.1104 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 62;100 N alternative_donor CUFF.1101 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 1278;89 N intron_retention chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 337;289 K alternative_donor CUFF.1122 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 236;207 K alternative_acceptor CUFF.1106 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 96;213 K cassette CUFF.1103 chrX - chrX:19935453-19947902 chrX:19935453-19941275;chrX:19941526-19947902 chrX:19941276-19941525 123;778 K alternative_first_exon CUFF.1104 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237133 211;836 K intron_retention CUFF.1119 chrX + chrX:103357693-103357885 chrX:103357692-103357693;chrX:103357885-103357886 4278;20 N cassette CUFF.1132 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148863691-148867418,chrX:148863659-148867418;chrX:148867506-148867663 chrX:148867419-148867505 266;508 N intron_retention chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 51;286 K intron_retention CUFF.1134 chrX - chrX:152988744-152989409 chrX:152988743-152988744;chrX:152989409-152989410 2105;619 K coord_cassette CUFF.1095 chrX + chrX:1419520-1428294 chrX:1419520-1422815;chrX:1422913-1424338;chrX:1424421-1428294 chrX:1422816-1422912;chrX:1424339-1424420 791;1852 N alternative_first_exon CUFF.1132 chrX + chrX:148863659-148867418,chrX:148863691-148867418 chrX:148864250-148867418 chrX:148863584-148863658 chrX:148864099-148864249 156;529 N alternative_acceptor CUFF.1102 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 651;444 N jcn_only_AA CUFF.1095 chrX + chrX:1404814-1407411 chrX:1404814-1406066 chrX:1406067-1407411 chrX:1407411-1407412 1984;139 N cassette CUFF.1095 chrX + chrX:1419520-1428294 chrX:1419520-1424338;chrX:1424421-1428294 chrX:1424339-1424420 791;1383 K intron_retention CUFF.1106 chrX + chrX:45184847-45192754 chrX:45184846-45184847;chrX:45192754-45192755 96;290 N alternative_donor CUFF.1098 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 73;130 K jcn_only_AD CUFF.1122 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 236;118 K alternative_first_exon CUFF.1102 chrX + chrX:15699171-15706783;chrX:15693696-15706783;chrX:15693902-15706783;chrX:15699311-15706783 chrX:15693092-15706783 chrX:15693598-15693695;chrX:15693813-15693901;chrX:15699124-15699310 chrX:15693055-15693091 825;90 N jcn_only_AD chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 64;40 N jcn_only_AA CUFF.1095 chrX + chrX:1393712-1401570;chrX:1393712-1400763 chrX:1393712-1401301 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 167;154 K alternative_acceptor CUFF.1131 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 269;850 K intron_retention CUFF.1114 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 19;39 K jcn_only_AD CUFF.1121 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 86;22 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 71;524 K intron_retention chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 53;272 K alternative_donor CUFF.1122 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 384;251 N jcn_only_AD chrX + chrX:148863659-148867418 chrX:148863691-148867418 chrX:148863659-148863690 chrX:148863658-148863659 99;57 N alternative_donor CUFF.1104,CUFF.1111 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 163;168 K cassette CUFF.1118 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 133;269 K cassette CUFF.1122 chrX + chrX:107369418-107372010 chrX:107369418-107370022;chrX:107370325-107372010 chrX:107370023-107370324 298;176 K intron_retention CUFF.1103 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 543;502 K alternative_last_exon CUFF.1103 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19947016-19948772 chrX:19953927-19954016 2434;192 K alternative_last_exon CUFF.1121 chrX - chrX:106235661-106236459;chrX:106059017-106236459 chrX:106229431-106236459 chrX:106057002-106059016 chrX:106229213-106229430 1460;78 N jcn_only_AD CUFF.1101 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 72;89 N alternative_donor CUFF.1096 chrX + chrX:1515542-1517717 chrX:1516118-1517717 chrX:1515542-1516117 chrX:1515541-1515542 505;133 K alternative_first_exon CUFF.1108 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46387770-46387880 chrX:46382372-46383096 19;2199 K alternative_donor CUFF.1110 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 148;39 K cassette CUFF.1123 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 76;28 K intron_retention CUFF.1134 chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 46;585 K jcn_only_AA CUFF.1131 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 269;850 N intron_retention CUFF.1111 chrX - chrX:53569501-53570801 chrX:53569500-53569501;chrX:53570801-53570802 93;101 N jcn_only_AD CUFF.1100 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 75;164 N alternative_acceptor CUFF.1095 chrX + chrX:1393712-1401570;chrX:1393712-1400763 chrX:1393712-1401301 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 829;246 K mutually_exclusive CUFF.1098 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 416;144 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 145;627 N jcn_only_AA chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 368;42 N jcn_only_AA CUFF.1114 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 20;19 N jcn_only_AA CUFF.1104 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 62;78 N alternative_donor CUFF.1100 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 75;164 K cassette CUFF.1101 chrX - chrX:15344169-15353622 chrX:15344169-15349995;chrX:15350115-15353622 chrX:15349996-15350114 44;455 N jcn_only_AA CUFF.1102 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 651;243 K intron_retention CUFF.1136 chrX + chrX:153607927-153608049 chrX:153607926-153607927;chrX:153608049-153608050 352;87 K jcn_only_AD CUFF.1110 chrX + chrX:47035986-47040613 chrX:47039906-47040613 36;239 N jcn_only_AD CUFF.1104 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 337;53 K alternative_first_exon CUFF.1134 chrX - chrX:152988744-152988962,chrX:152988744-152989470,chrX:152988744-152989788;chrX:152988744-152989409;chrX:152988744-152989941 chrX:152988744-152989655 chrX:152989410-152989598;chrX:152989942-152990240 chrX:152989656-152989838 3598;510 K intron_retention CUFF.1103 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 307;863 K mutually_exclusive CUFF.1101 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 1612;128 N alternative_acceptor CUFF.1095 chrX + chrX:1393712-1401570;chrX:1393712-1401301 chrX:1393712-1400763 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 274;801 N alternative_donor CUFF.1100,CUFF.1121 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 1906;144 K cassette CUFF.1122 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 63;794 N intron_retention CUFF.1134 chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 72;871 K alternative_first_exon CUFF.1134 chrX - chrX:152988744-152988962,chrX:152988744-152989470,chrX:152988744-152989788;chrX:152988744-152989941;chrX:152988744-152989655 chrX:152988744-152989409 chrX:152989942-152990240;chrX:152989656-152989838 chrX:152989410-152989598 899;3209 N jcn_only_AD CUFF.1098 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 68;36 K intron_retention CUFF.1122 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 236;131 N alternative_acceptor CUFF.1104 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 55;242 K jcn_only_AA CUFF.1110 chrX + chrX:47035986-47040613 chrX:47035986-47038501 36;94 N alternative_acceptor CUFF.1114 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 20;4151 N intron_retention chrX + chrX:103358265-103359942 chrX:103358264-103358265;chrX:103359942-103359943 24;4336 K intron_retention CUFF.1103 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 261;287 N alternative_acceptor chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 2552;31 K alternative_donor CUFF.1135 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 128;185 N cassette CUFF.1095 chrX + chrX:1419520-1424338 chrX:1419520-1422815;chrX:1422913-1424338 chrX:1422816-1422912 233;1082 K coord_cassette CUFF.1122 chrX + chrX:107369418-107374489 chrX:107369418-107370022;chrX:107370325-107372010;chrX:107372083-107374489 chrX:107370023-107370324;chrX:107372011-107372082 109;220 N jcn_only_AD CUFF.1100,CUFF.1121 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 1906;54 K alternative_last_exon CUFF.1108 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46357063-46360770 chrX:46382351-46382560 167;154 K intron_retention CUFF.1130 chrX - chrX:134290954-134291240 chrX:134290953-134290954;chrX:134291240-134291241 130;226 K cassette CUFF.1113 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 31;353 N alternative_donor chrX + chrX:148863659-148867418 chrX:148863691-148867418 chrX:148863659-148863690 chrX:148863658-148863659 99;91 K alternative_acceptor CUFF.1100 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 487;13684 K intron_retention CUFF.1111 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 163;127 K coord_cassette CUFF.1122 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 54;1274 N jcn_only_AA chrX + chrX:1393712-1400763;chrX:1393712-1401301 chrX:1393712-1401570 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 293;28 N jcn_only_AD CUFF.1096 chrX + chrX:1515542-1517717 chrX:1516118-1517717 chrX:1515542-1516117 chrX:1515541-1515542 505;46 K jcn_only_AA CUFF.1106 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 96;66 N jcn_only_AA CUFF.1095 chrX + chrX:1393712-1401570;chrX:1393712-1401301 chrX:1393712-1400763 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 182;139 N intron_retention chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 20;83 N jcn_only_AA chrX - chrX:53652220-53654360 chrX:53652990-53654360 25;47 N jcn_only_AD CUFF.1114 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 68;29 K alternative_first_exon CUFF.1113 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003120-78003531 chrX:78006707-78006808 179;112 K alternative_donor CUFF.1128 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 28;642 N intron_retention chrX - chrX:119374209-119378618 chrX:119374208-119374209;chrX:119378618-119378619 41;2071 N alternative_acceptor chrX + chrX:1393712-1400763;chrX:1393712-1401301 chrX:1393712-1401570 chrX:1400764-1401301;chrX:1401302-1401570 chrX:1401301-1401302;chrX:1401570-1401571 1047;28 K alternative_first_exon CUFF.1135 chrX + chrX:153238312-153247300,chrX:153238338-153247300 chrX:153246075-153247300 chrX:153237778-153238311 chrX:153245976-153246074 chrX:153247301-153248646 828;246 K alternative_first_exon CUFF.1106 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042409-45042589 chrX:45182792-45182892 177;271 N intron_retention CUFF.1134 chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 41;1479 K alternative_last_exon CUFF.1125 chrX - chrX:119355498-119378618,chrX:119374209-119378618;chrX:119271100-119378618;chrX:119377887-119378618 chrX:119312412-119378618 chrX:119270952-119271099;chrX:119374080-119377886 chrX:119312247-119312411 15970;527 N jcn_only_AD CUFF.1103,CUFF.1134 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 266;57 K alternative_last_exon CUFF.1102 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721946;chrX:15713794-15713856 chrX:15715363-15715978 2421;1076 N alternative_donor chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 140;89 K intron_retention CUFF.1136 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 2528;698 N jcn_only_AA CUFF.1098 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 71;34 N alternative_acceptor CUFF.1095,CUFF.1102 chrX + chrX:1424421-1428294 chrX:1424421-1424520 chrX:1424521-1428294 chrX:1428294-1428295 1150;195 N jcn_only_AA chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 379;31 K alternative_first_exon CUFF.1097,CUFF.1103 chrX - chrX:2408814-2418857 chrX:2408814-2418351 chrX:2418858-2419071 chrX:2418352-2418450 465;60 K intron_retention chrX + chrX:1409403-1413220 chrX:1409402-1409403;chrX:1413220-1413221 1874;327 N alternative_donor CUFF.1101 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 1114;253 K cassette CUFF.1136 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 2174;1112 N cassette CUFF.1095 chrX + chrX:1401673-1407411 chrX:1401673-1404670;chrX:1404814-1407411 chrX:1404671-1404813 142;4982 N jcn_only_AD CUFF.1098 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 73;48 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 73;6482 N jcn_only_AD CUFF.1101 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 101;60 K jcn_only_AA CUFF.1100 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 487;1332 K jcn_only_AD CUFF.1122 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 384;95 K alternative_acceptor CUFF.1097 chrX - chrX:2408811-2418857 chrX:2408814-2418857 chrX:2408811-2408813 chrX:2408810-2408811 7;327 N jcn_only_AD CUFF.1099,CUFF.1101 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10588330-10645504 chrX:10645504-10645505 67;181 K cassette CUFF.1110 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 59;38 K cassette CUFF.1101 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 134;2162 K cassette CUFF.1138 chrY + chrY:20893684-20894740 chrY:20893684-20894044;chrY:20894159-20894740 chrY:20894045-20894158 chrY:20893583-20893683;chrY:20894741-20894877 140;420 K cassette CUFF.1140 chrY - chrY:24027300-24028418 chrY:24027300-24027386;chrY:24027498-24028418 chrY:24027387-24027497 29;985 K alternative_last_exon CUFF.1138 chrY + chrY:20894878-20899940 chrY:20894878-20898228 chrY:20899941-20901182 chrY:20898229-20898379 chrY:20894741-20894877 2643;222 K cassette CUFF.1139 chrY + chrY:23675924-23681035 chrY:23675924-23678942;chrY:23679121-23681035 chrY:23678943-23679120 101;154 K alternative_first_exon CUFF.1138 chrY + chrY:20883069-20893582 chrY:20891910-20893582 chrY:20882957-20883068 chrY:20891726-20891909 chrY:20893583-20893683 160;205 K cassette CUFF.1140 chrY - chrY:24032860-24037971 chrY:24032860-24034774;chrY:24034953-24037971 chrY:24034775-24034952 69;1119 K intron_retention CUFF.713 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 72;197 K intron_retention CUFF.701 chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 95;25 N alternative_acceptor CUFF.704 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 546;68 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 546;819 N alternative_donor CUFF.717 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 392;48 N jcn_only_AA CUFF.708 chr22 + chr22:25855483-25856833;chr22:25855483-25905149 chr22:25855483-25915889 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 166;43 N mutually_exclusive CUFF.717 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 47;34 K jcn_only_AA CUFF.701,CUFF.717 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 440;26 K intron_retention CUFF.697 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 257;441 K jcn_only_AD CUFF.706 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 chr22:24720188-24720395;chr22:24717256-24717291 236;214 K cassette CUFF.697 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 47;1224 N alternative_acceptor chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 772;1959 N jcn_only_AA CUFF.697 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 836;44 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 86;90 K alternative_acceptor CUFF.710 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 157;1610 K intron_retention chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 chr22:25855383-25855482;chr22:25856834-25857645 136;107 K jcn_only_AD CUFF.710 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 14;395 N alternative_donor chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 546;318 K jcn_only_AA CUFF.715 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 223;157 K alternative_first_exon CUFF.722 chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51039579-51039979 chr22:51020987-51021428 671;2703 K cassette CUFF.719 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 chr22:47188417-47188473;chr22:47189398-47189738 1370;463 N mutually_exclusive CUFF.719 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 chr22:47189398-47189738;chr22:47287162-47287290 1505;129 K intron_retention CUFF.703 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 31;414 N alternative_acceptor CUFF.715,CUFF.717 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 361;66 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 446;105 K intron_retention CUFF.722 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 918;545 K intron_retention CUFF.704 chr22 - chr22:21832391-21832873 chr22:21832390-21832391;chr22:21832873-21832874 311;215 N jcn_only_AA CUFF.708 chr22 + chr22:25855483-25856833;chr22:25855483-25915889 chr22:25855483-25905149 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 179;30 K intron_retention CUFF.713 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 183;381 K intron_retention CUFF.704 chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 433;200 K alternative_first_exon CUFF.710 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29663905-29664338 chr22:29665553-29665651 2844;63 N jcn_only_AD CUFF.715 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 224;116 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 62;461 K cassette CUFF.706 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 chr22:24765186-24765288;chr22:24808616-24808675 230;82 K cassette CUFF.703 chr22 + chr22:21056998-21057293 chr22:21056998-21057117;chr22:21057182-21057293 chr22:21057118-21057181 326;145 K alternative_first_exon CUFF.719 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158430-47158745 chr22:47159130-47159228 128;362 N cassette CUFF.719 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 chr22:47193341-47193517;chr22:47287162-47287290 46;1450 N jcn_only_AD CUFF.717 chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 392;43 K intron_retention CUFF.710 chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 449;129 K intron_retention CUFF.703 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 2251;367 N cassette CUFF.710 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 134;3162 K cassette CUFF.717 chr22 + chr22:45204319-45210551 chr22:45204319-45204551;chr22:45204613-45210551 chr22:45204552-45204612 869;113 N alternative_last_exon chr22 + chr22:20755049-20759666 chr22:20755049-20755566 chr22:20759667-20762844 chr22:20755567-20755662 903;152 N alternative_acceptor CUFF.710 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 2121;610 N jcn_only_AA CUFF.715,CUFF.717 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 361;46 N coord_cassette CUFF.719 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 chr22:47158518-47158745;chr22:47189398-47189738 177;973 K cassette CUFF.697 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 91;819 K alternative_first_exon CUFF.703 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21055137-21056594 chr22:21056595-21056748 1445;256 N jcn_only_AA CUFF.713 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 56;895 K intron_retention CUFF.703 chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 92;595 N jcn_only_AA CUFF.704 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 735;44 N alternative_acceptor CUFF.715 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 613;588 N jcn_only_AD CUFF.704 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 79;872 N jcn_only_AD CUFF.722 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 86;446 N cassette CUFF.722 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 84;1236 K jcn_only_AA CUFF.707 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 86;340 N jcn_only_AA CUFF.715 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 424;194 N jcn_only_AA CUFF.710 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 1059;279 K intron_retention CUFF.704 chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 174;220 K alternative_acceptor CUFF.704 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 311;587 K cassette CUFF.715 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 211;563 N alternative_acceptor CUFF.710 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 2569;162 K cassette CUFF.715 chr22 + chr22:37697061-37699294 chr22:37697061-37697921;chr22:37698073-37699294 chr22:37697922-37698072 211;572 K alternative_first_exon CUFF.714 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731284-31731402 109;106 K intron_retention chr22 - chr22:21830450-21830932 chr22:21830449-21830450;chr22:21830932-21830933 399;368 K jcn_only_AA CUFF.710 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 157;1610 K jcn_only_AA CUFF.710 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 517;332 K intron_retention CUFF.710 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 571;168 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 20;71 K cassette CUFF.710 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 1200;802 K alternative_donor CUFF.709 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 47;75 N intron_retention chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 chr22:25855383-25855482 43;79 N jcn_only_AA chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 73;136 K intron_retention CUFF.710 chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 166;60 N cassette CUFF.701 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 26;231 K cassette CUFF.719 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 chr22:47189398-47189738;chr22:47274549-47274619 727;966 K intron_retention CUFF.704 chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 455;609 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 845;356 K cassette CUFF.707 chr22 - chr22:25155957-25158364 chr22:25155957-25157845;chr22:25157929-25158364 chr22:25157846-25157928 182;59 K intron_retention chr22 + chr22:21057981-21058106 chr22:21057980-21057981;chr22:21058106-21058107 814;859 N coord_cassette CUFF.722 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 330;5605 N jcn_only_AA CUFF.710 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 1176;162 N cassette CUFF.703 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 173;2057 K intron_retention CUFF.717 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 54;132 N intron_retention chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 47;166 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 32;339 K cassette CUFF.719 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 chr22:47158518-47158745;chr22:47188417-47188473 584;623 K intron_retention CUFF.713 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 122;69 N jcn_only_AA CUFF.704 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 546;47 K intron_retention CUFF.704 chr22 - chr22:21832451-21832873 chr22:21832450-21832451;chr22:21832873-21832874 377;17 N alternative_acceptor CUFF.708 chr22 + chr22:25855483-25856833;chr22:25855483-25905149 chr22:25855483-25915889 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 3525;43 N cassette CUFF.704 chr22 - chr22:21830450-21832078 chr22:21830450-21830932;chr22:21831031-21832078 chr22:21830933-21831030 33;427 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 36;898 N intron_retention CUFF.722 chr22 - chr22:51016364-51016512 chr22:51016363-51016364;chr22:51016512-51016513 44;149 K intron_retention CUFF.722 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 1898;791 K intron_retention CUFF.722 chr22 - chr22:51017937-51018155 chr22:51017936-51017937;chr22:51018155-51018156 2805;99 K coord_cassette CUFF.717 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45204551;chr22:45204613-45210551 chr22:45204187-45204318;chr22:45204552-45204612 18;201 N jcn_only_AA CUFF.715,CUFF.719 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 550;68 K intron_retention chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 7;261 N coord_cassette CUFF.719 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 chr22:47158518-47158745;chr22:47189398-47189738 177;732 N alternative_acceptor CUFF.708 chr22 + chr22:25855483-25856833;chr22:25855483-25915889 chr22:25855483-25905149 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 3318;250 K alternative_acceptor CUFF.709,CUFF.710 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 409;412 K intron_retention CUFF.722 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 1412;2141 K alternative_last_exon CUFF.709 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29563032-29564420 chr22:29550326-29550834 1802;376 N jcn_only_AD CUFF.722 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 680;171 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 3;822 K jcn_only_AD CUFF.704 chr22 - chr22:21829590-21830290 chr22:21829590-21830280 chr22:21830281-21830290 chr22:21830290-21830291 174;433 N jcn_only_AD CUFF.701 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 32;95 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 223;1121 N intron_retention chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 32;116 N intron_retention chr22 + chr22:21057981-21058255 chr22:21057980-21057981;chr22:21058255-21058256 173;839 N alternative_acceptor CUFF.722 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 680;179 K alternative_acceptor CUFF.710 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 517;448 K intron_retention CUFF.704 chr22 - chr22:21831031-21832078 chr22:21831030-21831031;chr22:21832078-21832079 28;366 N alternative_donor CUFF.719 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 chr22:47393530-47393605 32;1330 K intron_retention CUFF.722 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 980;406 K intron_retention CUFF.722 chr22 - chr22:51013030-51014463 chr22:51013029-51013030;chr22:51014463-51014464 869;654 N jcn_only_AD CUFF.719 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 chr22:47393530-47393605 32;1014 K alternative_acceptor CUFF.715 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 223;230 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 33;428 K cassette CUFF.707 chr22 - chr22:25158489-25170288 chr22:25158489-25165637;chr22:25165757-25170288 chr22:25165638-25165756 206;39 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 330;609 K intron_retention CUFF.722 chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 427;2202 K jcn_only_AD CUFF.703 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 2251;31 N alternative_donor CUFF.704 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 79;1094 K intron_retention CUFF.703 chr22 + chr22:21058040-21058255 chr22:21058039-21058040;chr22:21058255-21058256 628;1086 K intron_retention chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 152;100 K intron_retention CUFF.710 chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 453;162 K intron_retention CUFF.722 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 492;581 K intron_retention CUFF.699 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 chr22:19420788-19420871 642;100 K intron_retention CUFF.717 chr22 + chr22:45148508-45182336 chr22:45148507-45148508;chr22:45182336-45182337 762;24 K intron_retention CUFF.722 chr22 - chr22:51010738-51011303 chr22:51010737-51010738;chr22:51011303-51011304 1189;248 K intron_retention CUFF.722 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 179;656 K alternative_acceptor CUFF.707 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 86;421 K intron_retention CUFF.703 chr22 + chr22:21058517-21058598 chr22:21058516-21058517;chr22:21058598-21058599 1959;84 N intron_retention CUFF.701 chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 26;63 K cassette CUFF.717 chr22 + chr22:45148508-45182336 chr22:45148508-45173041;chr22:45173110-45182336 chr22:45173042-45173109 762;753 K intron_retention CUFF.704 chr22 - chr22:21831054-21832078 chr22:21831053-21831054;chr22:21832078-21832079 510;280 N alternative_acceptor CUFF.722 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 36;2435 K intron_retention CUFF.703 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 1243;908 K cassette CUFF.715 chr22 + chr22:37699444-37705252 chr22:37699444-37700212;chr22:37700328-37705252 chr22:37700213-37700327 121;219 K jcn_only_AA CUFF.710 chr22 + chr22:29683124-29688125 chr22:29683124-29684594 14;994 K intron_retention CUFF.722 chr22 - chr22:51019983-51020177 chr22:51019982-51019983;chr22:51020177-51020178 1883;518 K intron_retention CUFF.710 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 395;25 N alternative_donor CUFF.722 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 86;595 K alternative_first_exon CUFF.706 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700322-24700420 chr22:24709281-24709434 750;126 K alternative_last_exon CUFF.709,CUFF.719 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47370186-47370295 chr22:47309230-47309352 chr22:47307970-47308084 1090;252 N jcn_only_AD chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 546;36 N jcn_only_AA chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 441;897 N alternative_donor CUFF.701 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 32;681 N alternative_donor CUFF.715 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 224;141 K jcn_only_AD CUFF.713 chr22 - chr22:30738869-30748939 chr22:30738869-30740921 1272;619 K alternative_donor CUFF.703 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 2251;295 N alternative_acceptor chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25856834-25905149;chr22:25905150-25915889 chr22:25905149-25905150;chr22:25915889-25915890 chr22:25855383-25855482 293;3275 K intron_retention CUFF.722 chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 183;578 K intron_retention CUFF.710 chr22 + chr22:29683124-29688125 chr22:29683123-29683124;chr22:29688125-29688126 14;166 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 952;247 N coord_cassette CUFF.722 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020457;chr22:51020525-51020677 chr22:51019849-51019982;chr22:51020178-51020291;chr22:51020458-51020524 330;2894 K alternative_donor CUFF.706 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 chr22:24720188-24720395;chr22:24717256-24717291 236;3263 K jcn_only_AA CUFF.704 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 311;377 K alternative_donor CUFF.704 chr22 - chr22:21829590-21830290 chr22:21829590-21830280 chr22:21830281-21830290 chr22:21830290-21830291 174;548 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 262;356 N cassette CUFF.717 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 70;2115 N intron_retention CUFF.710 chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 181;63 K cassette CUFF.703 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 191;2954 N jcn_only_AA CUFF.722 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 680;143 K cassette CUFF.722 chr22 - chr22:51020292-51020677 chr22:51020292-51020457;chr22:51020525-51020677 chr22:51020458-51020524 1355;362 N alternative_acceptor CUFF.715,CUFF.719 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 944;257 K intron_retention CUFF.715 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 228;167 K alternative_first_exon CUFF.722 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016978-51017088 chr22:51016815-51016935 426;294 K intron_retention CUFF.710 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 517;260 K jcn_only_AA CUFF.709,CUFF.710 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 409;157 K alternative_donor CUFF.710 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 453;650 K alternative_last_exon CUFF.710,CUFF.715 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29687554-29687588 chr22:29686402-29687545 347;2774 K cassette CUFF.717 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 18;3285 N alternative_acceptor CUFF.722 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 107;950 K alternative_first_exon CUFF.704,CUFF.713 chr22 - chr22:21846384-21868422;chr22:21846384-21871613 chr22:21846384-21868418 chr22:21871614-21871920 chr22:21868419-21868421 1710;32 N cassette CUFF.719 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 chr22:47158518-47158745;chr22:47189398-47189738 177;1954 N alternative_acceptor CUFF.704 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 735;99 N alternative_acceptor CUFF.697 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 836;44 K intron_retention CUFF.710 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 332;297 N jcn_only_AA CUFF.722 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 36;1898 N alternative_acceptor CUFF.713 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 56;6385 N cassette CUFF.701 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 109;141 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 84;26 K jcn_only_AD CUFF.710 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 453;571 N cassette CUFF.717 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 21;3382 K alternative_first_exon CUFF.699 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19419425-19420130 chr22:19420288-19420382 chr22:19420788-19420871 4387;75 K intron_retention CUFF.722 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 1355;616 K jcn_only_AD CUFF.709 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 47;75 N jcn_only_AA CUFF.722 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 107;950 N alternative_donor CUFF.722 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 680;561 K alternative_last_exon CUFF.713 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 chr22:30738460-30738868 chr22:30742301-30742508 2502;336 K intron_retention CUFF.722 chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 108;1656 K alternative_donor CUFF.669 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 120;487 K intron_retention CUFF.681 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 1749;532 N jcn_only_AA CUFF.679 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 234;27 N alternative_donor CUFF.676 chr20 + chr20:30156028-30156922;chr20:30155610-30156922;chr20:30156084-30156922 chr20:30149544-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 2123;70 K alternative_donor CUFF.676 chr20 + chr20:30126065-30132749 chr20:30126163-30132749 chr20:30126065-30126162 chr20:30126064-30126065 544;806 N cassette CUFF.676 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 184;1844 K cassette CUFF.674 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 71;121 K jcn_only_AA CUFF.682 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 182;69 N alternative_donor CUFF.679 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 1413;223 N cassette CUFF.674 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 39;269 N jcn_only_AD CUFF.669 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 64;4 N alternative_acceptor CUFF.676 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 141;2767 K jcn_only_AD CUFF.676 chr20 + chr20:30126065-30132749 chr20:30126163-30132749 chr20:30126065-30126162 chr20:30126064-30126065 544;75 K cassette CUFF.685 chr20 - chr20:61982380-61987326 chr20:61982380-61986847;chr20:61986948-61987326 chr20:61986848-61986947 5;500 K cassette CUFF.676 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 1098;4190 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 141;89 K jcn_only_AD CUFF.675 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 111;391 N jcn_only_AA CUFF.679 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 260;490 N jcn_only_AD CUFF.676 chr20 + chr20:30156028-30156922;chr20:30155610-30156922;chr20:30156084-30156922 chr20:30149544-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 460;70 N jcn_only_AD CUFF.679 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 274;223 K alternative_last_exon CUFF.669 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170897-3171465 chr20:3171836-3171884 671;36 K alternative_donor CUFF.681 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 3031;326 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 230;3295 K intron_retention CUFF.668 chr20 + chr20:2842711-2843248 chr20:2842710-2842711;chr20:2843248-2843249 179;37 K intron_retention CUFF.668 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 211;131 N jcn_only_AA chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 223;82 K jcn_only_AD CUFF.668 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 51;261 K alternative_last_exon CUFF.680,CUFF.683 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570273 chr20:61569388-61569605 62;727 K intron_retention chr20 + chr20:30149540-30154012 chr20:30149539-30149540;chr20:30154012-30154013 2553;278 K intron_retention CUFF.668 chr20 + chr20:2842777-2843224 chr20:2842776-2842777;chr20:2843224-2843225 25;75 N cassette CUFF.676 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 1061;4015 K jcn_only_AD CUFF.681 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 3031;256 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 141;1400 K alternative_last_exon CUFF.680 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33123482 chr20:33117656-33119079 5573;2131 K alternative_acceptor CUFF.676,CUFF.681 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 1749;713 N coord_cassette CUFF.676 chr20 + chr20:30115386-30132749 chr20:30115386-30115724;chr20:30115854-30125981;chr20:30126065-30132749 chr20:30115725-30115853;chr20:30125982-30126064 127;3338 K alternative_donor CUFF.682 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 69;100 N alternative_donor CUFF.679 chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 1421;215 K jcn_only_AA CUFF.676,CUFF.683 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 746;32 N alternative_donor CUFF.676 chr20 + chr20:30149544-30156922;chr20:30156028-30156922;chr20:30156084-30156922 chr20:30155610-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 1316;877 K alternative_first_exon CUFF.673 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21283850-21284111 chr20:21284364-21284485 63;68 K cassette CUFF.676 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156028-30156922 chr20:30155881-30156027 2150;463 K intron_retention CUFF.681 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 686;2955 N jcn_only_AA CUFF.679 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 695;55 N coord_cassette CUFF.676 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136768-30136917;chr20:30137010-30137135 184;4963 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 141;60 K alternative_acceptor CUFF.682 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 182;69 N alternative_acceptor CUFF.667 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 78;635 K coord_cassette CUFF.668 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 55;148 K jcn_only_AA CUFF.668 chr20 + chr20:2842351-2843710 chr20:2842351-2842450 51;348 K alternative_first_exon CUFF.679 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099269 chr20:31071165-31071370 538;663 K cassette CUFF.670 chr20 - chr20:14308205-14318049 chr20:14308205-14309779;chr20:14309974-14318049 chr20:14309780-14309973 26;401 K jcn_only_AD CUFF.669 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 120;97 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 2027;105 N alternative_acceptor CUFF.679 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 234;34 N cassette CUFF.676 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137866 chr20:30136768-30136917 184;2314 K cassette CUFF.673 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 21;141 N alternative_acceptor chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 44;2848 N jcn_only_AD CUFF.676 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 746;230 N cassette CUFF.676 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126163-30132749 chr20:30125982-30126162 127;1362 N cassette CUFF.676 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 188;4703 N coord_cassette CUFF.674 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 39;217 N alternative_donor CUFF.667,CUFF.675 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 648;1468 K intron_retention CUFF.679 chr20 - chr20:31108726-31115560 chr20:31108725-31108726;chr20:31115560-31115561 222;380 K cassette CUFF.676 chr20 + chr20:30115386-30125981 chr20:30115386-30115724;chr20:30115854-30125981 chr20:30115725-30115853 549;2935 N jcn_only_AD CUFF.676 chr20 + chr20:30149544-30156922;chr20:30155610-30156922;chr20:30156084-30156922 chr20:30156028-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 490;40 K alternative_first_exon CUFF.681 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567464-33567607 chr20:33568100-33568282 382;69 K intron_retention CUFF.681 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 472;494 N alternative_donor CUFF.676 chr20 + chr20:30149544-30156922;chr20:30156028-30156922;chr20:30155610-30156922 chr20:30156084-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 1175;1018 K alternative_donor CUFF.680 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 712;1188 K jcn_only_AD CUFF.682 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 69;73 N alternative_donor CUFF.669 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 64;4 K jcn_only_AD CUFF.680 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 712;236 K alternative_first_exon CUFF.675,CUFF.682 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011736 242;529 N jcn_only_AA CUFF.679 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 545;205 N jcn_only_AD chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 263;234 N coord_cassette CUFF.676 chr20 + chr20:30115386-30132749 chr20:30115386-30115724;chr20:30115854-30125981;chr20:30126163-30132749 chr20:30115725-30115853;chr20:30125982-30126162 127;3538 N jcn_only_AD CUFF.667,CUFF.675 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 648;78 K alternative_acceptor CUFF.676,CUFF.683 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 746;1915 K intron_retention CUFF.676 chr20 + chr20:30154099-30155880 chr20:30154098-30154099;chr20:30155880-30155881 283;128 K intron_retention CUFF.681 chr20 + chr20:33588962-33589047 chr20:33588961-33588962;chr20:33589047-33589048 21;1426 N alternative_acceptor chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 223;89 K alternative_donor CUFF.675 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 111;403 N jcn_only_AA chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 44;127 N jcn_only_AA CUFF.676 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 141;360 K jcn_only_AA CUFF.676,CUFF.681 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 1749;472 N jcn_only_AD CUFF.676 chr20 + chr20:30149544-30156922;chr20:30156028-30156922;chr20:30155610-30156922 chr20:30156084-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 378;152 N coord_cassette CUFF.676 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 184;4810 N cassette CUFF.676 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 127;1093 K cassette CUFF.676 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 2150;725 N alternative_donor CUFF.676 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 746;1202 N alternative_donor chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 438;1198 N alternative_donor CUFF.676 chr20 + chr20:30149544-30156922;chr20:30155610-30156922;chr20:30156084-30156922 chr20:30156028-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 1965;228 K jcn_only_AD CUFF.680 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 666;32 K alternative_last_exon CUFF.679 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052496-31052920 1009;2089 N jcn_only_AD CUFF.676 chr20 + chr20:30149544-30156922;chr20:30156028-30156922;chr20:30156084-30156922 chr20:30155610-30156922 chr20:30149544-30155609;chr20:30155610-30156027;chr20:30156028-30156083 chr20:30149543-30149544;chr20:30155609-30155610;chr20:30156027-30156028 262;268 K intron_retention CUFF.668 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 322;643 N jcn_only_AA CUFF.667 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 78;635 N jcn_only_AD CUFF.679 chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 457;40 K intron_retention CUFF.669 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 36;55 K intron_retention CUFF.695 chr21 - chr21:47557249-47558421 chr21:47557248-47557249;chr21:47558421-47558422 chr21:47557153-47557248;chr21:47558422-47558560 1725;115 N cassette CUFF.686 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 29;738 K alternative_last_exon CUFF.689 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39471371-39471432;chr21:39325124-39325308 chr21:39426222-39427075 437;1648 K jcn_only_AD CUFF.686 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 32;155 K alternative_first_exon CUFF.695 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47565331-47565492 chr21:47562023-47562119 chr21:47558794-47558837 1020;39 N cassette CUFF.695 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 chr21:47558422-47558560;chr21:47565331-47565492 227;1416 K jcn_only_AD CUFF.688,CUFF.691 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 580;652 N alternative_acceptor CUFF.687 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 chr21:15985197-15985234;chr21:15981803-15981889 598;392 N jcn_only_AA CUFF.686 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 162;25 K intron_retention CUFF.695 chr21 - chr21:47565493-47565731 chr21:47565492-47565493;chr21:47565731-47565732 chr21:47565331-47565492;chr21:47565732-47565861 704;172 N jcn_only_AA CUFF.695 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 chr21:47572821-47572944;chr21:47571806-47571894 499;50 K jcn_only_AA CUFF.695 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556893-47556967 998;519 K alternative_acceptor CUFF.691 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 chr21:40981510-40981592;chr21:40977428-40977929 211;662 K alternative_last_exon CUFF.686 chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 152;982 K alternative_donor CUFF.686 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 32;163 K alternative_first_exon CUFF.692 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43362256-43362367 chr21:43346681-43346776 chr21:43342081-43342194 485;22 K alternative_last_exon CUFF.689 chr21 - chr21:39427076-39492400;chr21:39325309-39492400 chr21:39471433-39492400 chr21:39426222-39427075;chr21:39325124-39325308 chr21:39471371-39471432 1957;128 K jcn_only_AD CUFF.695 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 718;72 K intron_retention CUFF.695 chr21 - chr21:47556968-47557152 chr21:47556967-47556968;chr21:47557152-47557153 chr21:47556893-47556967;chr21:47557153-47557248 998;76 K jcn_only_AD CUFF.695 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 525;265 K alternative_acceptor CUFF.695 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 chr21:47565331-47565492;chr21:47558794-47558837 602;164 N alternative_donor CUFF.686 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 162;26 K intron_retention CUFF.686 chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 375;60 N jcn_only_AD CUFF.692,CUFF.695 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 chr21:47566180-47566241;chr21:47570033-47570164 678;42 K intron_retention CUFF.686 chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 721;65 N alternative_acceptor CUFF.686 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 162;27 K jcn_only_AA CUFF.695 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 chr21:47565331-47565492;chr21:47558794-47558837 602;70 K alternative_donor CUFF.695 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 2429;195 K alternative_donor CUFF.695 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 2359;265 N cassette CUFF.695 chr21 - chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558967-47565330 chr21:47558794-47558966 chr21:47558422-47558560;chr21:47565331-47565492 174;942 K jcn_only_AA CUFF.691 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 chr21:40981510-40981592;chr21:40977428-40977929 211;129 K cassette CUFF.690 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 31;371 K alternative_acceptor CUFF.695 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556893-47556967 998;565 N alternative_donor CUFF.686 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 135;4779 K intron_retention CUFF.686 chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 30;326 N jcn_only_AD CUFF.686 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 162;24 K alternative_last_exon CUFF.686 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15678017-15678163 chr21:15671759-15673792 217;4986 K cassette CUFF.688 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 426;1742 N jcn_only_AA CUFF.687 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 chr21:15985197-15985234;chr21:15981803-15981889 598;47 K alternative_last_exon CUFF.691 chr21 - chr21:40969917-40981509 chr21:40977930-40981509,chr21:40978275-40981509 chr21:40968976-40969916 chr21:40977428-40977929 chr21:40981510-40981592 461;1933 N alternative_acceptor CUFF.695 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 chr21:47572821-47572944;chr21:47571806-47571894 499;57 K alternative_last_exon CUFF.686 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663891-15664068 chr21:15663607-15663877 700;1669 K intron_retention CUFF.686 chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 93;322 K alternative_first_exon CUFF.691,CUFF.695 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 chr21:40969074-40969916 49;283 K alternative_first_exon CUFF.686 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646077-15646478 chr21:15651917-15651978 287;1062 N jcn_only_AD CUFF.686 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 135;18 K jcn_only_AD CUFF.688,CUFF.695 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 337;453 K alternative_donor CUFF.688,CUFF.695 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556077-47556408;chr21:47556899-47556967 460;2164 N cassette CUFF.688 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 139;207 N intron_retention chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 chr21:15984758-15984966;chr21:15985197-15985234 47;310 K alternative_first_exon CUFF.686 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646077-15646478 52;2569 K alternative_last_exon CUFF.689 chr21 - chr21:39471433-39492400;chr21:39427076-39492400 chr21:39325309-39492400 chr21:39471371-39471432;chr21:39426222-39427075 chr21:39325124-39325308 1776;309 N alternative_donor CUFF.692,CUFF.695 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 chr21:47566180-47566241;chr21:47570033-47570164 678;101 K intron_retention CUFF.998 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 375;77 K alternative_acceptor CUFF.1000,CUFF.951 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 66;38 N cassette CUFF.970 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 7;1833 N alternative_donor CUFF.953 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 391;541 N coord_cassette CUFF.961 chr7 + chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925 chr7:73101329-73101425;chr7:73105246-73105342 437;3831 N jcn_only_AD CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 61;36 N alternative_acceptor chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 61;106 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 297;334 K jcn_only_AA CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 48;211 N cassette CUFF.1000 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 17;1795 K intron_retention CUFF.982 chr7 - chr7:102234690-102234938 chr7:102234689-102234690;chr7:102234938-102234939 200;425 N cassette CUFF.952 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 179;503 K alternative_first_exon CUFF.1004 chr7 - chr7:156619439-156626446;chr7:156619439-156685621 chr7:156619439-156626432 chr7:156685622-156685996 chr7:156626433-156626486 2709;244 N alternative_donor CUFF.986 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 2909;244 K alternative_last_exon CUFF.986 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107255690 chr7:107253878-107262074,chr7:107253878-107258772 chr7:107269267-107269714;chr7:107255691-107256405 chr7:107262075-107262315 3588;1103 K cassette CUFF.970 chr7 - chr7:86539318-86541387 chr7:86539318-86540937;chr7:86541012-86541387 chr7:86540938-86541011 157;607 N intron_retention chr7 - chr7:75053912-75054356 chr7:75053911-75053912;chr7:75054356-75054357 204;375 N cassette CUFF.950 chr7 - chr7:22357657-22396448 chr7:22357657-22395596;chr7:22396231-22396448 chr7:22395597-22396230 116;1641 K coord_cassette CUFF.998 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148988646;chr7:148988837-148989301 chr7:148987029-148987129;chr7:148988647-148988836 375;204 K intron_retention CUFF.993 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 437;321 N intron_retention chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 191;2055 N alternative_donor CUFF.997 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 44;4350 N jcn_only_AD CUFF.986 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 130;244 N alternative_acceptor CUFF.1004,CUFF.1005 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 286;1414 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 54;533 K jcn_only_AD CUFF.961 chr7 + chr7:73098232-73100965 chr7:73098254-73100965 chr7:73098232-73098253 chr7:73098231-73098232 366;3348 K coord_cassette CUFF.960 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 550;619 K alternative_last_exon CUFF.971 chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91740086 chr7:91734992-91735077 400;467 N alternative_donor chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 408;127 K intron_retention CUFF.961 chr7 + chr7:73101062-73101147 chr7:73101061-73101062;chr7:73101147-73101148 4678;69 N jcn_only_AD chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 646;79 K intron_retention CUFF.985 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 4868;293 N jcn_only_AD CUFF.986 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 319;55 K intron_retention CUFF.1004 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 31;188 K alternative_first_exon CUFF.957 chr7 + chr7:54614433-54614639;chr7:54613910-54614639 chr7:54612482-54614639 chr7:54614318-54614432;chr7:54613811-54613909 chr7:54612315-54612481 642;892 N jcn_only_AA CUFF.945,CUFF.966 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 127;32 N alternative_donor CUFF.982 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 400;208 K alternative_last_exon CUFF.965 chr7 - chr7:74881027-74977921 chr7:74973331-74977921 chr7:74880905-74881026 chr7:74973248-74973330 737;483 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 58;416 K cassette CUFF.994 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 36;752 K intron_retention CUFF.986 chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 1631;475 K alternative_acceptor CUFF.970 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 48;1191 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 146;420 N alternative_donor CUFF.989 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 4600;627 K cassette CUFF.986 chr7 + chr7:107236448-107240841 chr7:107236448-107240676;chr7:107240748-107240841 chr7:107240677-107240747 1504;879 N jcn_only_AA chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 7;7 N alternative_donor CUFF.953 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 1200;933 N alternative_donor CUFF.985 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 357;5002 K alternative_first_exon CUFF.948 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815289-16815509 82;1154 K jcn_only_AA CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 53;663 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 690;35 K cassette CUFF.986 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 200;4142 K alternative_first_exon CUFF.955 chr7 - chr7:38937730-38969071;chr7:38937730-38971877 chr7:38937730-38948753 chr7:38971878-38972082 chr7:38948754-38948829 chr7:38937691-38937729 224;375 N alternative_donor CUFF.986 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 2895;258 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 39;305 K jcn_only_AD CUFF.998 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 375;67 N alternative_acceptor CUFF.1004 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 1185;46 K alternative_donor CUFF.976 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 72;280 K cassette CUFF.982 chr7 - chr7:102228218-102232731 chr7:102228218-102230605;chr7:102230744-102232731 chr7:102230606-102230743 124;1234 K jcn_only_AA CUFF.971 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 241;156 N cassette CUFF.953 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 88;351 K intron_retention CUFF.966 chr7 + chr7:75040118-75040690 chr7:75040117-75040118;chr7:75040690-75040691 290;18 N jcn_only_AD CUFF.985 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 309;5002 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 109;620 N alternative_first_exon CUFF.960 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579500-65579957 chr7:65599267-65599361 774;999 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 275;591 K intron_retention CUFF.941 chr7 + chr7:208977-286380 chr7:208976-208977;chr7:286380-286381 13;73 N jcn_only_AA CUFF.984 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 224;489 K jcn_only_AD CUFF.997 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 344;368 K jcn_only_AD CUFF.971 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 62;150 N alternative_donor CUFF.984,CUFF.989 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 4567;660 N jcn_only_AD CUFF.982 chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 183;263 K alternative_acceptor CUFF.971 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 241;374 K cassette CUFF.992 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 164;255 K intron_retention CUFF.976 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 115;27 K intron_retention CUFF.982 chr7 - chr7:102234690-102234893 chr7:102234689-102234690;chr7:102234893-102234894 189;575 K alternative_donor CUFF.997 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 344;507 N intron_retention chr7 + chr7:150817233-150820880 chr7:150817232-150817233;chr7:150820880-150820881 219;824 K mutually_exclusive CUFF.982 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 175;170 N jcn_only_AD CUFF.953 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 300;328 K intron_retention CUFF.993 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 687;152 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 12;257 N cassette CUFF.966 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 96;1489 K alternative_first_exon CUFF.957 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54614318-54614432;chr7:54612315-54612481 chr7:54613811-54613909 1361;173 N jcn_only_AD CUFF.982 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 328;118 K cassette CUFF.982 chr7 - chr7:102223340-102224664 chr7:102223340-102223450;chr7:102223516-102224664 chr7:102223451-102223515 43;702 K alternative_last_exon CUFF.952 chr7 + chr7:34888276-34888934;chr7:34888276-34917687 chr7:34888276-34889176 chr7:34917688-34918043 chr7:34889177-34889674 1397;1449 N cassette CUFF.961 chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925 chr7:73105246-73105342 668;2437 N jcn_only_AD CUFF.941 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 14;70 K intron_retention chr7 + chr7:73101426-73105245 chr7:73101425-73101426;chr7:73105245-73105246 653;2442 K alternative_first_exon CUFF.954,CUFF.992 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956530 163;387 N jcn_only_AA CUFF.987 chr7 - chr7:107572823-107575859 chr7:107572939-107575859 chr7:107572823-107572938 chr7:107572822-107572823 137;370 N mutually_exclusive CUFF.961 chr7 + chr7:73101231-73105245,chr7:73105343-73106925 chr7:73101231-73101328,chr7:73101426-73106925 chr7:73105246-73105342 chr7:73101329-73101425 1116;1137 K intron_retention CUFF.982 chr7 - chr7:102242853-102249207 chr7:102242852-102242853;chr7:102249207-102249208 50;266 K alternative_last_exon CUFF.949 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152573-19152763 164;1391 K intron_retention CUFF.989 chr7 - chr7:110603622-111127293 chr7:110603621-110603622;chr7:111127293-111127294 3940;320 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 109;205 N cassette CUFF.989 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 168;7989 N intron_retention chr7 + chr7:75040010-75040690 chr7:75040009-75040010;chr7:75040690-75040691 76;348 K alternative_last_exon CUFF.978 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640522 chr7:93629609-93629684 148;112 K alternative_first_exon CUFF.1000 chr7 + chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879;chr7:150809332-150813879;chr7:150783148-150813879;chr7:150812729-150813879;chr7:150784292-150813879 chr7:150787635-150813879 chr7:150809218-150809331;chr7:150782832-150783147;chr7:150811718-150812728;chr7:150784160-150784291 chr7:150787580-150787634 3789;29 N alternative_donor CUFF.966 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 26;780 K intron_retention chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 1117;140 N alternative_first_exon CUFF.995 chr7 + chr7:129017465-129019481,chr7:129015768-129019481;chr7:128865281-129019481 chr7:129008393-129019481 chr7:128864864-128865280 chr7:129007894-129008392 213;3633 K alternative_first_exon CUFF.985 chr7 + chr7:107204693-107205032,chr7:107204505-107205032;chr7:107204192-107205032 chr7:107204655-107205032 chr7:107203929-107204191 chr7:107204304-107204654 768;15671 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 316;3940 N alternative_acceptor CUFF.985 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 4868;446 N intron_retention chr7 + chr7:150831656-150838984 chr7:150831655-150831656;chr7:150838984-150838985 56;112 K jcn_only_AD CUFF.996 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 46;209 N jcn_only_AA CUFF.953 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 309;120 N cassette CUFF.970 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 11;680 N jcn_only_AD CUFF.985 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 5208;103 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 26;495 N cassette CUFF.945 chr7 + chr7:6641772-6647590 chr7:6641772-6647167;chr7:6647229-6647590 chr7:6647168-6647228 201;1461 N alternative_acceptor CUFF.950 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 369;753 N alternative_donor CUFF.985 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 5111;248 N jcn_only_AA chr7 - chr7:75054992-75066792 chr7:75055736-75066792 197;464 K intron_retention CUFF.1004 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 53;176 K cassette CUFF.984 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 34;1862 N jcn_only_AD CUFF.982 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 381;65 K alternative_acceptor CUFF.943 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 85;1124 K cassette CUFF.1004 chr7 - chr7:156626487-156629506 chr7:156626487-156627171;chr7:156627270-156629506 chr7:156627172-156627269 8306;460 N intron_retention CUFF.961 chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 47;435 N alternative_donor CUFF.953 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 1603;530 K intron_retention CUFF.993 chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 86;121 K alternative_first_exon CUFF.957 chr7 + chr7:54612482-54614639;chr7:54613910-54614639 chr7:54614433-54614639 chr7:54612315-54612481;chr7:54613811-54613909 chr7:54614318-54614432 1065;469 N alternative_donor CUFF.956 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 542;2612 N cassette CUFF.956 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 186;618 K intron_retention CUFF.987 chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 71;223 N jcn_only_AD CUFF.956 chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 542;98 N alternative_donor CUFF.941 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 14;92 N jcn_only_AD CUFF.953 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 878;212 N alternative_donor CUFF.960 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 1485;427 K jcn_only_AD CUFF.976 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 72;86 N intron_retention chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 258;82 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 92;493 K cassette CUFF.960 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 550;724 K alternative_first_exon CUFF.1000 chr7 + chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879;chr7:150809332-150813879;chr7:150787635-150813879;chr7:150783148-150813879;chr7:150812729-150813879 chr7:150784292-150813879 chr7:150809218-150809331;chr7:150787580-150787634;chr7:150782832-150783147;chr7:150811718-150812728 chr7:150784160-150784291 3723;95 K intron_retention CUFF.961 chr7 + chr7:73107745-73107953 chr7:73107744-73107745;chr7:73107953-73107954 1509;92 K intron_retention CUFF.966 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 505;186 K alternative_last_exon CUFF.987 chr7 - chr7:107580804-107591670 chr7:107583065-107591670 chr7:107580434-107580803 chr7:107582746-107583064 536;2359 N jcn_only_AA CUFF.950 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 102;370 K coord_cassette CUFF.982 chr7 - chr7:102228218-102232731 chr7:102228218-102228680;chr7:102228893-102230605;chr7:102230744-102232731 chr7:102228681-102228892;chr7:102230606-102230743 124;1330 N coord_cassette CUFF.961 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 706;1539 N alternative_donor CUFF.992 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 236;299 N jcn_only_AD chr7 - chr7:75068503-75070231 chr7:75068503-75069883 4;275 N alternative_acceptor chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 159;53 N cassette CUFF.953 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 58;1330 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 103;88 N alternative_donor CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 889;332 K alternative_last_exon CUFF.952 chr7 + chr7:34724297-34818106,chr7:34724297-34818073 chr7:34724297-34725362 chr7:34818107-34818177 chr7:34725363-34725829 493;716 N cassette CUFF.994 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 65;63 N jcn_only_AA CUFF.949 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 798;54 N alternative_donor CUFF.982 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 471;137 N jcn_only_AD CUFF.995 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 1216;54 N jcn_only_AA CUFF.1004,CUFF.1005 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 228;57 N alternative_acceptor CUFF.1000,CUFF.995 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 670;91 K intron_retention CUFF.987 chr7 - chr7:107599926-107600135 chr7:107599925-107599926;chr7:107600135-107600136 44;185 N alternative_donor CUFF.950 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 102;2238 K intron_retention CUFF.987 chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 370;902 N intron_retention chr7 + chr7:75042211-75044162 chr7:75042210-75042211;chr7:75044162-75044163 96;89 K alternative_first_exon CUFF.1000 chr7 + chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879;chr7:150809332-150813879;chr7:150787635-150813879;chr7:150812729-150813879;chr7:150784292-150813879 chr7:150783148-150813879 chr7:150809218-150809331;chr7:150787580-150787634;chr7:150811718-150812728;chr7:150784160-150784291 chr7:150782832-150783147 3595;223 N intron_retention chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 161;1253 K coord_cassette CUFF.998 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 51;1561 K intron_retention CUFF.985 chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 5771;255 N jcn_only_AD CUFF.947 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 1368;193 N intron_retention CUFF.956 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 146;311 N cassette CUFF.965 chr7 - chr7:74981241-74984789 chr7:74981241-74982815;chr7:74982903-74984789 chr7:74982816-74982902 158;1284 K intron_retention CUFF.1004 chr7 - chr7:156589187-156619298 chr7:156589186-156589187;chr7:156619298-156619299 1321;176 K intron_retention CUFF.1004 chr7 - chr7:156555871-156556362 chr7:156555870-156555871;chr7:156556362-156556363 1457;158 N alternative_donor CUFF.947 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 1368;229 K alternative_acceptor CUFF.946,CUFF.986 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 67;1910 N intron_retention chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 74;65 N jcn_only_AA CUFF.985 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 5002;123 K intron_retention CUFF.985 chr7 + chr7:107207632-107211589 chr7:107207631-107207632;chr7:107211589-107211590 4528;264 K intron_retention CUFF.1000 chr7 + chr7:150820974-150825666 chr7:150820973-150820974;chr7:150825666-150825667 1263;441 K intron_retention CUFF.998 chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 44;1090 N cassette CUFF.992 chr7 - chr7:117424509-117431344 chr7:117424509-117426439;chr7:117426480-117431344 chr7:117426440-117426479 18;6 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 146;738 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 43;616 K cassette CUFF.963 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 112;343 N coord_cassette CUFF.971 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 8;231 N cassette CUFF.952 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 179;718 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 1463;670 N alternative_donor CUFF.985 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 5250;109 K alternative_last_exon CUFF.986 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107262074,chr7:107253878-107258772 chr7:107253878-107255690 chr7:107269267-107269714;chr7:107262075-107262315 chr7:107255691-107256405 2088;2603 K cassette CUFF.957 chr7 + chr7:54617864-54636823 chr7:54617864-54621559;chr7:54621767-54636823 chr7:54621560-54621766 426;330 K intron_retention CUFF.1000 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 2573;1824 N jcn_only_AA CUFF.961 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 837;47 N jcn_only_AD CUFF.960 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 1100;39 K intron_retention CUFF.971 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 62;62 K jcn_only_AA CUFF.1000,CUFF.978 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 1948;295 N alternative_acceptor CUFF.953 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 300;306 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 1287;3940 K cassette CUFF.955 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 chr7:38766509-38766588;chr7:38768142-38768186 189;369 N alternative_last_exon chr7 + chr7:73108000-73111934 chr7:73108000-73108321 chr7:73111935-73112024 chr7:73108322-73108881 40;4127 K intron_retention CUFF.957 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 426;497 N alternative_acceptor CUFF.985 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 4528;260 K intron_retention CUFF.965 chr7 - chr7:74984930-74988197 chr7:74984929-74984930;chr7:74988197-74988198 215;421 K alternative_donor CUFF.998 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 375;224 N alternative_donor CUFF.950 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 479;168 N cassette CUFF.1000 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 121;6177 K cassette CUFF.984 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 156;505 K intron_retention CUFF.987 chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 139;54 K intron_retention CUFF.982 chr7 - chr7:102236555-102240306 chr7:102236554-102236555;chr7:102240306-102240307 855;160 N jcn_only_AD CUFF.953 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 391;87 N alternative_acceptor CUFF.964 chr7 - chr7:74607950-74608617 chr7:74607952-74608617 chr7:74607950-74607951 chr7:74607949-74607950 1023;40 K intron_retention CUFF.986 chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 67;480 N jcn_only_AA chr7 - chr7:156526952-156549086 chr7:156529310-156549086 611;26 K intron_retention CUFF.987 chr7 - chr7:107570065-107571800 chr7:107570064-107570065;chr7:107571800-107571801 514;712 N jcn_only_AD CUFF.989 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 4062;194 K alternative_acceptor CUFF.982 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 855;464 K intron_retention CUFF.982 chr7 - chr7:102251590-102257071 chr7:102251589-102251590;chr7:102257071-102257072 263;142 N jcn_only_AD CUFF.953,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 616;101 N alternative_donor CUFF.960 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 510;1402 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 92;493 N cassette CUFF.966 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 244;755 N jcn_only_AA CUFF.985 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 4528;43 K alternative_last_exon CUFF.941 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197673 82;6804 N jcn_only_AA CUFF.1000 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 1338;122 K cassette CUFF.981 chr7 - chr7:100818093-100823322 chr7:100818093-100822377;chr7:100822418-100823322 chr7:100822378-100822417 78;1928 N alternative_acceptor CUFF.949 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 798;469 N jcn_only_AD CUFF.952 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 288;45 N alternative_acceptor CUFF.985 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 5002;233 K intron_retention chr7 + chr7:128848693-128849129 chr7:128848692-128848693;chr7:128849129-128849130 28;89 N alternative_donor CUFF.966 chr7 + chr7:75040010-75040690 chr7:75040118-75040690 chr7:75040010-75040117 chr7:75040009-75040010 76;663 K intron_retention chr7 + chr7:75042211-75043917 chr7:75042210-75042211;chr7:75043917-75043918 516;71 N alternative_donor CUFF.953,CUFF.984 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 616;532 K intron_retention CUFF.986 chr7 + chr7:107224428-107236311 chr7:107224427-107224428;chr7:107236311-107236312 200;328 N coord_cassette CUFF.966 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 58;2220 K alternative_first_exon CUFF.1000 chr7 + chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879;chr7:150809332-150813879;chr7:150787635-150813879;chr7:150783148-150813879;chr7:150784292-150813879 chr7:150812729-150813879 chr7:150809218-150809331;chr7:150787580-150787634;chr7:150782832-150783147;chr7:150784160-150784291 chr7:150811718-150812728 1099;2719 N alternative_donor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 61;147 N jcn_only_AD CUFF.989 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 259;274 K intron_retention CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541487-86541488;chr7:86542256-86542257 53;898 K jcn_only_AA CUFF.982 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 855;400 K cassette CUFF.951 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 53;278 N cassette CUFF.952 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 79;905 N alternative_acceptor CUFF.945,CUFF.966 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 127;32 K cassette CUFF.984 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 58;679 K intron_retention CUFF.1000 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 120;76 N jcn_only_AA CUFF.999 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 268;673 K alternative_acceptor CUFF.986 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 355;2723 K alternative_last_exon CUFF.989 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603556-110603621 chr7:111123391-111123784 3940;229 N alternative_donor CUFF.995 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 1216;473 N jcn_only_AA CUFF.989 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 259;285 N cassette CUFF.961 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 1007;4343 K alternative_first_exon CUFF.958,CUFF.970 chr7 - chr7:86548627-86549023;chr7:86548627-86554843 chr7:86548627-86550078 chr7:86554844-86554972 chr7:86550079-86550212 225;78 N jcn_only_AD chr7 - chr7:75054992-75066792 chr7:75054992-75055643 197;555 N alternative_acceptor CUFF.950 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 102;1024 K alternative_last_exon CUFF.986 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107262074,chr7:107253878-107258772;chr7:107253878-107255690 chr7:107253878-107269266 chr7:107262075-107262315;chr7:107255691-107256405 chr7:107269267-107269714 3818;873 K cassette CUFF.984 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 303;735 N alternative_acceptor CUFF.1004,CUFF.1005 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 1445;255 N alternative_donor CUFF.953 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 300;360 N jcn_only_AA CUFF.1004,CUFF.1005 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 88;197 K intron_retention CUFF.986 chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 18;173 K cassette CUFF.960 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 195;375 N intron_retention chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 74;148 K cassette CUFF.955 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 chr7:38835065-38835211;chr7:38836345-38836464 125;857 N jcn_only_AD CUFF.985 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 5105;206 N alternative_donor CUFF.982 chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 345;263 N coord_cassette CUFF.1004 chr7 - chr7:156626487-156685621 chr7:156626487-156627171;chr7:156627270-156629506;chr7:156629580-156685621 chr7:156627172-156627269;chr7:156629507-156629579 468;711 K mutually_exclusive CUFF.984 chr7 - chr7:102669866-102695534,chr7:102695626-102696090 chr7:102669866-102687255,chr7:102687468-102696090 chr7:102695535-102695625 chr7:102687256-102687467 735;186 N jcn_only_AD CUFF.960 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 466;673 K alternative_first_exon CUFF.986 chr7 + chr7:107220812-107221203,chr7:107221091-107221203;chr7:107220747-107221203 chr7:107221023-107221203 chr7:107220372-107220746 chr7:107220927-107221022 1386;18 K alternative_acceptor CUFF.970 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 53;1541 N alternative_acceptor chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 7;7 N jcn_only_AD CUFF.966 chr7 + chr7:75040010-75040690 chr7:75040118-75040690 chr7:75040010-75040117 chr7:75040009-75040010 76;290 N jcn_only_AA CUFF.1004 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 1185;46 N alternative_acceptor CUFF.965 chr7 - chr7:74953399-74982536 chr7:74981241-74982536 chr7:74953399-74981240 chr7:74953398-74953399 293;875 N cassette CUFF.1004 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 468;17665 K intron_retention chr7 + chr7:150831656-150835229 chr7:150831655-150831656;chr7:150835229-150835230 1034;245 K cassette CUFF.965 chr7 - chr7:74984930-74988197 chr7:74984930-74987565;chr7:74987790-74988197 chr7:74987566-74987789 215;1597 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 137;1447 N jcn_only_AA CUFF.964 chr7 - chr7:74607950-74608617 chr7:74607952-74608617 chr7:74607950-74607951 chr7:74607949-74607950 1023;40 K cassette CUFF.993 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 29;1499 N alternative_donor CUFF.953 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 309;79 K jcn_only_AD CUFF.982 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 200;189 N alternative_donor CUFF.955 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 chr7:38813715-38813844;chr7:38816279-38816376 113;619 N alternative_acceptor CUFF.950 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 7;213 N jcn_only_AA CUFF.1000,CUFF.995 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 670;91 K cassette CUFF.982 chr7 - chr7:102242853-102249207 chr7:102242853-102246304;chr7:102246435-102249207 chr7:102246305-102246434 50;996 K alternative_first_exon CUFF.947,CUFF.970 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604049 556;2672 N alternative_acceptor CUFF.953 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 309;174 K cassette CUFF.1010 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 282;149 K alternative_first_exon CUFF.960 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610430-65610487 chr7:65615640-65615935 1385;1331 K intron_retention CUFF.1000 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 295;528 N cassette CUFF.945 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 122;2616 K alternative_first_exon CUFF.1000 chr7 + chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879;chr7:150787635-150813879;chr7:150783148-150813879;chr7:150812729-150813879;chr7:150784292-150813879 chr7:150809332-150813879 chr7:150787580-150787634;chr7:150782832-150783147;chr7:150811718-150812728;chr7:150784160-150784291 chr7:150809218-150809331 3494;324 K alternative_acceptor CUFF.993 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 608;754 K alternative_donor CUFF.982 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 200;293 K alternative_last_exon CUFF.1000 chr7 + chr7:150817233-150820880;chr7:150817233-150819811 chr7:150817233-150817606 chr7:150819812-150820973 chr7:150817607-150817911 1923;6896 K alternative_first_exon CUFF.961 chr7 + chr7:73098135-73100965,chr7:73098331-73100965;chr7:73097714-73100965 chr7:73098232-73100965,chr7:73098254-73100965 chr7:73097263-73097713 chr7:73098097-73098231 1306;4378 K cassette CUFF.965 chr7 - chr7:74981241-74982815 chr7:74981241-74982536;chr7:74982650-74982815 chr7:74982537-74982649 285;1794 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 114;611 N alternative_first_exon CUFF.946 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222140-7222451 184;567 N alternative_acceptor chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 161;13083 N intron_retention chr7 + chr7:75039744-75044162 chr7:75039743-75039744;chr7:75044162-75044163 233;83 N jcn_only_AD CUFF.955 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 chr7:38869854-38869928;chr7:38902145-38902222 649;59 K alternative_last_exon CUFF.961 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73117709-73119590 chr7:73112162-73112636 4527;6025 K alternative_acceptor CUFF.1000,CUFF.978 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 1948;442 N alternative_acceptor CUFF.1000 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 1338;377 K cassette CUFF.992 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 72;107 K jcn_only_AA CUFF.1000,CUFF.951 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 66;38 K cassette CUFF.987 chr7 - chr7:107576102-107577537 chr7:107576102-107576723;chr7:107576819-107577537 chr7:107576724-107576818 769;217 N jcn_only_AA chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 159;53 N intron_retention chr7 + chr7:73111847-73111934 chr7:73111846-73111847;chr7:73111934-73111935 37;216 K intron_retention chr7 + chr7:75039744-75039888 chr7:75039743-75039744;chr7:75039888-75039889 351;12 N alternative_donor CUFF.986 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 502;2651 K alternative_donor CUFF.961 chr7 + chr7:73098232-73100965 chr7:73098254-73100965 chr7:73098232-73098253 chr7:73098231-73098232 366;3836 N intron_retention chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 101;2323 N alternative_acceptor CUFF.961 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 2285;96 N jcn_only_AA CUFF.985 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 4868;310 K cassette CUFF.984 chr7 - chr7:102669866-102696090 chr7:102669866-102687255;chr7:102687468-102696090 chr7:102687256-102687467 303;186 K intron_retention CUFF.956 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 542;329 K intron_retention CUFF.966 chr7 + chr7:75040858-75040937 chr7:75040857-75040858;chr7:75040937-75040938 84;325 N alternative_donor CUFF.1000 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815720-150816341 chr7:150815719-150815720 3577;563 N cassette CUFF.1000 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 56;187 N alternative_acceptor CUFF.1004,CUFF.1005 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 1669;31 K alternative_first_exon CUFF.984 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715383 chr7:102714693-102715025 914;572 N jcn_only_AD CUFF.955 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 chr7:38813715-38813844;chr7:38816279-38816376 113;106 N jcn_only_AA chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 161;2041 N jcn_only_AA CUFF.961 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 785;99 K alternative_first_exon CUFF.997 chr7 + chr7:136553740-136554007 chr7:136553865-136554007,chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553742-136553864 160;764 N cassette CUFF.955 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 chr7:38860803-38860865;chr7:38902145-38902222 32;1286 N jcn_only_AD CUFF.1000 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815720-150816341 chr7:150815719-150815720 3577;483 N jcn_only_AD CUFF.985 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 4528;56 N jcn_only_AA CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 61;37 K intron_retention CUFF.992 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 168;375 K intron_retention CUFF.982 chr7 - chr7:102246435-102249207 chr7:102246434-102246435;chr7:102249207-102249208 431;152 N alternative_donor CUFF.952 chr7 + chr7:34888276-34889176 chr7:34889035-34889176 chr7:34888276-34889034 chr7:34888275-34888276 288;46 K intron_retention CUFF.957 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 104;188 N alternative_first_exon CUFF.995 chr7 + chr7:129015768-129019478,chr7:128991503-129019478;chr7:128865281-129019478 chr7:129008393-129019478 chr7:128864864-128865280 chr7:129007894-129008392 193;497 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 62;112 K cassette CUFF.998 chr7 + chr7:148987130-148989301 chr7:148987130-148988646;chr7:148988837-148989301 chr7:148988647-148988836 145;152 N intron_retention chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 80;4563 K jcn_only_AA CUFF.946,CUFF.986 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 67;1631 K intron_retention CUFF.966 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 179;1384 N intron_retention CUFF.956 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 195;583 N jcn_only_AD CUFF.966 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 26;84 N jcn_only_AD CUFF.950 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 479;58 K intron_retention chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 1459;198 N jcn_only_AA CUFF.950 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 369;95 K alternative_first_exon CUFF.992 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117450819-117451043 chr7:117433467-117433662 1067;104 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 233;351 K intron_retention CUFF.1000 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 1948;600 K cassette CUFF.979 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 187;205 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 109;810 N jcn_only_AD CUFF.984,CUFF.989 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 4134;122 K alternative_first_exon CUFF.953 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 1228;55 K cassette CUFF.997 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 358;120 N jcn_only_AA CUFF.953 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 300;306 N alternative_donor chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 420;42 K alternative_acceptor CUFF.952 chr7 + chr7:34724297-34818106 chr7:34724297-34818073 chr7:34818074-34818106 chr7:34818106-34818107 145;360 K intron_retention CUFF.986 chr7 + chr7:107224428-107234399 chr7:107224427-107224428;chr7:107234399-107234400 1590;77 N cassette CUFF.971 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 123;55 K intron_retention CUFF.982 chr7 - chr7:102234292-102234496 chr7:102234291-102234292;chr7:102234496-102234497 669;46 K alternative_first_exon CUFF.1010 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647125-157647567 chr7:157649982-157650240 347;487 K jcn_only_AA CUFF.993 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 687;86 K alternative_donor CUFF.996 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 46;752 K jcn_only_AA CUFF.986 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 355;244 N cassette CUFF.955 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 chr7:38908746-38908853 43;889 K alternative_first_exon CUFF.947,CUFF.958 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 61;263 K intron_retention chr7 - chr7:36901342-36909997 chr7:36901341-36901342;chr7:36909997-36909998 620;209 N jcn_only_AA CUFF.1004,CUFF.1005 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 254;31 K intron_retention CUFF.1004 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 31;165 N alternative_acceptor CUFF.987 chr7 - chr7:107572823-107575859 chr7:107572939-107575859 chr7:107572823-107572938 chr7:107572822-107572823 137;1490 K jcn_only_AA CUFF.993 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 608;239 K cassette CUFF.982 chr7 - chr7:102228218-102230605 chr7:102228218-102228680;chr7:102228893-102230605 chr7:102228681-102228892 370;997 N jcn_only_AA CUFF.941 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 197;384 N mutually_exclusive CUFF.970 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 18;39 N jcn_only_AD CUFF.992 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 156;299 N jcn_only_AD CUFF.997 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 44;18 N jcn_only_AD CUFF.953,CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 630;59 N cassette CUFF.956 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 50;1242 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 69;1394 N jcn_only_AD CUFF.953 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 309;79 K mutually_exclusive CUFF.979 chr7 - chr7:99032892-99057708,chr7:99057817-99063751 chr7:99032892-99045574,chr7:99045812-99063751 chr7:99057709-99057816 chr7:99045575-99045811 490;519 N alternative_acceptor chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 1643;738 N intron_retention chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 98;100 N jcn_only_AA CUFF.965 chr7 - chr7:74953399-74982536 chr7:74981241-74982536 chr7:74953399-74981240 chr7:74953398-74953399 293;875 N alternative_acceptor CUFF.961 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 834;1547 K alternative_acceptor CUFF.993 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 687;327 N alternative_donor CUFF.985 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 4528;313 K intron_retention CUFF.998 chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 49;103 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 275;45 K coord_cassette CUFF.945 chr7 + chr7:6641772-6647590 chr7:6641772-6642294;chr7:6642384-6647167;chr7:6647229-6647590 chr7:6642295-6642383;chr7:6647168-6647228 201;3859 K intron_retention CUFF.986 chr7 + chr7:107253878-107262074 chr7:107253877-107253878;chr7:107262074-107262075 355;532 K coord_cassette CUFF.956 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 186;1805 N alternative_donor CUFF.960 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 1829;83 N jcn_only_AD CUFF.992 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 379;76 K intron_retention CUFF.995 chr7 + chr7:129037166-129040130 chr7:129037165-129037166;chr7:129040130-129040131 1426;145 N cassette CUFF.987 chr7 - chr7:107642179-107643293 chr7:107642179-107642571;chr7:107642830-107643293 chr7:107642572-107642829 97;249 N intron_retention chr7 + chr7:150831656-150837065 chr7:150831655-150831656;chr7:150837065-150837066 17;87 N jcn_only_AA chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 61;62 N cassette CUFF.982 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 108;789 N jcn_only_AD CUFF.984 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 889;212 N alternative_acceptor CUFF.989 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 259;1879 K jcn_only_AA CUFF.952 chr7 + chr7:34724297-34818106 chr7:34724297-34818073 chr7:34818074-34818106 chr7:34818106-34818107 145;348 N intron_retention chr7 + chr7:73101426-73106925 chr7:73101425-73101426;chr7:73106925-73106926 231;2514 N jcn_only_AD CUFF.950 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 102;97 K alternative_last_exon CUFF.1004 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589083-156589186 chr7:156616528-156616617 1388;28 N cassette CUFF.986 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 258;2119 N alternative_donor CUFF.953,CUFF.984 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 630;79 K jcn_only_AA CUFF.943 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 85;283 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 420;670 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 50;157 K intron_retention CUFF.970 chr7 - chr7:86541562-86542256 chr7:86541561-86541562;chr7:86542256-86542257 663;72 N jcn_only_AD chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 375;80 N coord_cassette CUFF.966 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 58;262 N intron_retention CUFF.961 chr7 + chr7:73108381-73110735 chr7:73108380-73108381;chr7:73110735-73110736 99;392 K cassette CUFF.998 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 375;201 K intron_retention CUFF.961 chr7 + chr7:73108381-73111934 chr7:73108380-73108381;chr7:73111934-73111935 738;426 N alternative_donor CUFF.989 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 259;274 N jcn_only_AD chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 420;42 N alternative_donor CUFF.955 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 chr7:38869854-38869928;chr7:38902145-38902222 649;140 K alternative_last_exon CUFF.999 chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150389403-150390825 chr7:150386577-150386888 1413;1845 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 297;520 N intron_retention chr7 + chr7:73106977-73111934 chr7:73106976-73106977;chr7:73111934-73111935 706;275 K intron_retention CUFF.1000 chr7 + chr7:150835401-150837065 chr7:150835400-150835401;chr7:150837065-150837066 71;673 N jcn_only_AD CUFF.960 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 712;427 N alternative_donor CUFF.992 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 426;109 K alternative_first_exon CUFF.1004,CUFF.982 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685622-156685996 chr7:156685164-156685256 24146;245 N cassette CUFF.984 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 67;1339 N cassette CUFF.953 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 167;886 N jcn_only_AD CUFF.953 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 882;208 N intron_retention CUFF.1005 chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 57;267 N alternative_acceptor CUFF.970 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 61;37 N jcn_only_AA CUFF.950 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 7;46 N intron_retention chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 51;399 N jcn_only_AD CUFF.986 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 299;75 N alternative_acceptor CUFF.928 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 2549;205 N alternative_acceptor CUFF.913 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 61;5725 K intron_retention CUFF.900 chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 36;647 K intron_retention CUFF.918 chr6 + chr6:90323610-90326277 chr6:90323609-90323610;chr6:90326277-90326278 278;35 K intron_retention CUFF.898 chr6 + chr6:31936867-31937056 chr6:31936866-31936867;chr6:31937056-31937057 3180;339 N jcn_only_AD CUFF.893 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 34;607 N jcn_only_AA CUFF.924 chr6 - chr6:114281204-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281183-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 829;911 K alternative_first_exon CUFF.917 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066019-88066221 chr6:88068800-88068919 3698;672 N intron_retention chr6 - chr6:31939459-31939705 chr6:31939458-31939459;chr6:31939705-31939706 81;1196 N coord_cassette CUFF.928 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 40;5476 K intron_retention CUFF.899 chr6 - chr6:31937802-31937885 chr6:31937801-31937802;chr6:31937885-31937886 1098;89 N alternative_donor CUFF.927 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 82;126 K cassette CUFF.926 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 32;224 K intron_retention CUFF.898 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 1560;1153 N alternative_donor CUFF.928 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 2091;256 N jcn_only_AA CUFF.900 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 95;716 N alternative_acceptor CUFF.913 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 12896;428 N alternative_acceptor CUFF.913 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 1534;11790 K intron_retention CUFF.918 chr6 + chr6:90322090-90323510 chr6:90322089-90322090;chr6:90323510-90323511 676;486 K alternative_donor CUFF.898 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 309;788 N alternative_donor CUFF.894 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 149;55 N jcn_only_AA CUFF.913 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 791;2529 K jcn_only_AD CUFF.934 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 43;99 K jcn_only_AD CUFF.927 chr6 + chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836 chr6:126307768-126307769 716;301 K intron_retention CUFF.913 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 2739;3833 N jcn_only_AA CUFF.928 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 1273;197 N alternative_donor CUFF.914 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 163;112 N jcn_only_AA CUFF.928 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 321;1149 N jcn_only_AA CUFF.924 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114283559-114292020 chr6:114289861-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1223;517 K cassette CUFF.910 chr6 - chr6:39859156-39864972 chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859399-39859539 208;156 N jcn_only_AA CUFF.913 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 2892;428 K alternative_first_exon CUFF.892 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472327;chr6:13486870-13487991 chr6:13486243-13486470 768;177 K intron_retention CUFF.898 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 309;1706 N alternative_donor CUFF.922 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 358;219 K intron_retention CUFF.898 chr6 + chr6:31928872-31928972 chr6:31928871-31928872;chr6:31928972-31928973 96;11 K alternative_donor CUFF.900 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 1549;241 N alternative_acceptor CUFF.928 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 1459;687 N jcn_only_AA CUFF.929 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 2812;52 N intron_retention chr6 - chr6:31939359-31939705 chr6:31939358-31939359;chr6:31939705-31939706 22;1359 K alternative_acceptor CUFF.914 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 717;1258 K alternative_donor CUFF.900 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 277;1513 N mutually_exclusive CUFF.929 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 373;632 N cassette CUFF.923 chr6 + chr6:112558118-112627530 chr6:112558118-112604255;chr6:112604370-112627530 chr6:112604256-112604369 87;368 N alternative_last_exon CUFF.927 chr6 + chr6:46636531-46644383 chr6:46636531-46637871 chr6:46644384-46644480 chr6:46637872-46638013 104;1740 K jcn_only_AA CUFF.908 chr6 - chr6:35478788-35479956 chr6:35478803-35479956 chr6:35478788-35478802 chr6:35478787-35478788 28;162 K alternative_acceptor CUFF.900 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 125;906 N jcn_only_AA chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 480;259 N jcn_only_AA CUFF.890 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 390;279 N jcn_only_AA CUFF.890 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 350;319 K alternative_first_exon CUFF.899,CUFF.916 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994740 chr6:75977357-75977464 155;86 N cassette CUFF.928 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 136;2951 K cassette CUFF.928 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 140;7106 K alternative_first_exon CUFF.922 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382194-112382491 chr6:112382500-112382598 1871;61 N jcn_only_AA chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 33;662 K intron_retention CUFF.929 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 2812;193 N jcn_only_AA CUFF.913 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 3280;40 K jcn_only_AA CUFF.900 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 125;19 K intron_retention CUFF.927 chr6 + chr6:126320760-126327987 chr6:126320759-126320760;chr6:126327987-126327988 374;58 K intron_retention CUFF.899 chr6 - chr6:31939503-31939705 chr6:31939502-31939503;chr6:31939705-31939706 156;1067 K alternative_first_exon CUFF.888 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988104-2988265 chr6:2988839-2988943 545;319 K cassette CUFF.918 chr6 + chr6:90337416-90338830 chr6:90337416-90337965;chr6:90338061-90338830 chr6:90337966-90338060 470;484 K intron_retention CUFF.924 chr6 - chr6:114270252-114270331 chr6:114270251-114270252;chr6:114270331-114270332 339;25 N intron_retention chr6 - chr6:31938917-31939096 chr6:31938916-31938917;chr6:31939096-31939097 38;434 K intron_retention CUFF.897 chr6 + chr6:31796040-31796081 chr6:31796039-31796040;chr6:31796081-31796082 16;42 N alternative_acceptor CUFF.899 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 2858;1039 K alternative_first_exon CUFF.924 chr6 - chr6:114281183-114283530,chr6:114281183-114289797,chr6:114281183-114291418;chr6:114281183-114292020;chr6:114281183-114289493 chr6:114281183-114291643 chr6:114292021-114292449;chr6:114289494-114289592 chr6:114291644-114291903 3794;434 N alternative_donor CUFF.893 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 34;665 N cassette CUFF.900 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 36;382 K intron_retention chr6 - chr6:31938925-31939096 chr6:31938924-31938925;chr6:31939096-31939097 687;426 N alternative_acceptor CUFF.924 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114289861-114292020 chr6:114283559-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1925;31 K cassette CUFF.927 chr6 + chr6:126329892-126332398 chr6:126329892-126330480;chr6:126330581-126332398 chr6:126330481-126330580 398;64 K cassette CUFF.937 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 487;281 N jcn_only_AA CUFF.913 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 3106;214 N alternative_first_exon CUFF.892 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114292021-114292449 chr6:114291644-114291903 1445;477 K jcn_only_AA CUFF.939 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 126;116 K alternative_first_exon CUFF.892 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486470;chr6:13486870-13487991 chr6:13472213-13472327 854;91 K cassette CUFF.933 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 181;630 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 52;192 N jcn_only_AA CUFF.899 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 269;22 N jcn_only_AA CUFF.922,CUFF.937 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 439;123 N mutually_exclusive CUFF.918 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 659;133 N jcn_only_AD CUFF.928 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 2091;203 N alternative_acceptor CUFF.899 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 260;827 K intron_retention CUFF.898 chr6 + chr6:31936316-31936462 chr6:31936315-31936316;chr6:31936462-31936463 575;46 K intron_retention CUFF.937 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 106;234 K alternative_first_exon CUFF.918 chr6 + chr6:90193278-90276552,chr6:90272643-90276552;chr6:90272618-90276552;chr6:90218678-90276552 chr6:90218969-90276552 chr6:90272285-90272617;chr6:90218565-90218677 chr6:90218871-90218968 1799;59 K alternative_acceptor CUFF.905 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 434;1108 K cassette CUFF.937 chr6 + chr6:161455482-161469647 chr6:161455482-161469277;chr6:161469324-161469647 chr6:161469278-161469323 23;1233 N alternative_acceptor CUFF.924 chr6 - chr6:114281204-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281183-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1045;911 K coord_cassette CUFF.923 chr6 + chr6:112558118-112627530 chr6:112558118-112600322;chr6:112600441-112604255;chr6:112604370-112627530 chr6:112600323-112600440;chr6:112604256-112604369 87;546 K cassette CUFF.922 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 489;820 N alternative_acceptor CUFF.928 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 2183;574 K alternative_acceptor CUFF.889 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 66;231 N cassette CUFF.929 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 477;1774 N alternative_acceptor CUFF.899 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 3683;214 K jcn_only_AA CUFF.914 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 717;226 K cassette CUFF.914 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 422;1703 N jcn_only_AD CUFF.924 chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 40;256 N alternative_acceptor CUFF.899 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 1285;2612 N cassette CUFF.918 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 100;1161 K cassette CUFF.937 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 218;714 K intron_retention CUFF.913 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 2909;4157 K alternative_first_exon CUFF.918 chr6 + chr6:90193278-90276552,chr6:90272643-90276552;chr6:90218969-90276552;chr6:90218678-90276552 chr6:90272618-90276552 chr6:90218871-90218968;chr6:90218565-90218677 chr6:90272285-90272617 455;1403 K intron_retention CUFF.897 chr6 + chr6:31795803-31796033 chr6:31795802-31795803;chr6:31796033-31796034 17;41 K intron_retention CUFF.902 chr6 + chr6:32823983-32825781 chr6:32823982-32823983;chr6:32825781-32825782 33;146 N cassette CUFF.913 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 1718;4668 N cassette CUFF.921 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 7;2321 N intron_retention chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 368;3217 N jcn_only_AA CUFF.913 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 61;2739 N alternative_donor CUFF.911,CUFF.928 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 2185;295 N alternative_acceptor CUFF.928 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 458;2296 K intron_retention CUFF.918 chr6 + chr6:90337416-90338830 chr6:90337415-90337416;chr6:90338830-90338831 470;197 K alternative_first_exon CUFF.918 chr6 + chr6:90193278-90276552,chr6:90272643-90276552;chr6:90218969-90276552;chr6:90272618-90276552 chr6:90218678-90276552 chr6:90218871-90218968;chr6:90272285-90272617 chr6:90218565-90218677 1546;312 N mutually_exclusive CUFF.929 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 527;173 K alternative_acceptor CUFF.929 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 518;1122 K alternative_first_exon CUFF.932 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665165-144665440 201;865 N jcn_only_AD CUFF.914 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 163;105 K intron_retention CUFF.905 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 2103;296 K intron_retention chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 2231;485 K alternative_last_exon CUFF.911 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491534-41491963 50;24767 K intron_retention CUFF.913 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 2473;2696 N alternative_acceptor CUFF.899 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 38;920 K intron_retention CUFF.914 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 416;880 K intron_retention CUFF.888 chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 120;1252 K jcn_only_AA CUFF.905 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 434;785 N alternative_acceptor CUFF.928 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 2036;110 N jcn_only_AA CUFF.888 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 451;20 K alternative_first_exon CUFF.936 chr6 - chr6:151757690-151765600;chr6:151757690-151766442 chr6:151757690-151773150 chr6:151765601-151765760;chr6:151766443-151767020 chr6:151773151-151773351 chr6:151757555-151757689 6882;502 K alternative_last_exon CUFF.936 chr6 - chr6:151757690-151773150 chr6:151766961-151773150 chr6:151757276-151757689 chr6:151766443-151766960 829;5043 K intron_retention CUFF.898 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 106;530 N alternative_acceptor CUFF.898,CUFF.905 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 575;105 K intron_retention CUFF.938 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 489;213 K jcn_only_AD CUFF.918 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 209;317 N mutually_exclusive CUFF.929 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 527;632 K intron_retention CUFF.918 chr6 + chr6:90337416-90337965 chr6:90337415-90337416;chr6:90337965-90337966 26;147 K alternative_donor CUFF.908,CUFF.936 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 chr6:151754290-151754365;chr6:151757581-151757689 496;1313 N intron_retention CUFF.898 chr6 + chr6:31928872-31929117 chr6:31928871-31928872;chr6:31929117-31929118 492;59 K alternative_first_exon CUFF.890 chr6 - chr6:5109726-5132951,chr6:5109726-5144371;chr6:5109726-5260880 chr6:5109726-5113304 chr6:5260881-5261270 chr6:5113305-5113651 185;1351 K intron_retention CUFF.929 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 157;393 K intron_retention CUFF.898 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 564;130 K cassette CUFF.902 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 33;1434 K alternative_first_exon CUFF.924 chr6 - chr6:114281183-114283530,chr6:114281183-114289797,chr6:114281183-114291418;chr6:114281183-114291643;chr6:114281183-114292020 chr6:114281183-114289493 chr6:114291644-114291903;chr6:114292021-114292449 chr6:114289494-114289592 4135;93 N jcn_only_AA CUFF.928 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 2400;27 N jcn_only_AD chr6 - chr6:114283559-114289797;chr6:114283559-114332294 chr6:114283559-114292020 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 323;29 K cassette CUFF.910 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 79;614 K alternative_donor CUFF.927 chr6 + chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836 chr6:126307768-126307769 716;689 K jcn_only_AD CUFF.900 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 738;115 K jcn_only_AD CUFF.937 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 177;119 N alternative_donor CUFF.924 chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 40;575 N alternative_acceptor CUFF.924 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114283559-114292020 chr6:114289861-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1240;716 N jcn_only_AA CUFF.899 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 38;687 N jcn_only_AD CUFF.914 chr6 + chr6:46636531-46644383 chr6:46638966-46644383 104;717 K intron_retention CUFF.924 chr6 - chr6:114267313-114270142 chr6:114267312-114267313;chr6:114270142-114270143 508;99 K cassette CUFF.939 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 26;394 K jcn_only_AA CUFF.926 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 43;67 K jcn_only_AD CUFF.900 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 817;36 N alternative_acceptor CUFF.888 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 451;474 N alternative_acceptor CUFF.928 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 2727;27 K intron_retention CUFF.905 chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 178;114 K cassette CUFF.898 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 45;319 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 56;1014 N jcn_only_AA CUFF.913 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 2231;59 K cassette CUFF.900 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122024-32122363 chr6:32121973-32122023 653;161 K intron_retention CUFF.924 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 1115;1129 N intron_retention chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 260;1192 N jcn_only_AD CUFF.894 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 149;52 N intron_retention chr6 + chr6:46636531-46644383 chr6:46636530-46636531;chr6:46644383-46644384 104;397 K cassette CUFF.927 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 339;966 K alternative_first_exon CUFF.907 chr6 + chr6:34452922-34494019;chr6:34482846-34494019 chr6:34434048-34494019 chr6:34452767-34452921;chr6:34482601-34482845 chr6:34433916-34434047 487;26 N cassette CUFF.929 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 503;2248 N alternative_acceptor CUFF.913 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 2231;872 K alternative_first_exon CUFF.936 chr6 - chr6:151757690-151766442;chr6:151757690-151773150 chr6:151757690-151765600 chr6:151766443-151767020;chr6:151773151-151773351 chr6:151765601-151765760 chr6:151757555-151757689 7005;379 N alternative_first_exon CUFF.937 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412705-161413115 chr6:161469648-161471011 169;2390 K alternative_first_exon CUFF.890,CUFF.928 chr6 - chr6:128718834-128730438;chr6:128718834-128841403 chr6:128718834-128812876 chr6:128841404-128841843 chr6:128812877-128813025 4310;915 K cassette CUFF.900 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 653;1563 N jcn_only_AD CUFF.916 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 101;6 N alternative_donor CUFF.898 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 56;3577 K cassette CUFF.927 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 842;852 N alternative_acceptor CUFF.928 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 997;1149 K alternative_last_exon CUFF.890 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5102732-5109725 chr6:5216851-5216971 1312;846 K alternative_first_exon CUFF.933 chr6 + chr6:144898425-144999541;chr6:144904737-144999541 chr6:144981412-144999541 chr6:144904254-144904736 chr6:144980921-144981411 447;496 N jcn_only_AA CUFF.928 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 2378;49 K jcn_only_AD CUFF.908,CUFF.936 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 chr6:151754290-151754365;chr6:151757581-151757689 496;338 K intron_retention CUFF.913 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 790;5854 N jcn_only_AD CUFF.887 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291701-292560 chr6:291700-291701 146;1850 N intron_retention chr6 - chr6:31938925-31939705 chr6:31938924-31938925;chr6:31939705-31939706 32;798 K alternative_last_exon CUFF.908 chr6 - chr6:35478788-35479956,chr6:35478803-35479956 chr6:35479584-35479956 chr6:35478638-35478787 chr6:35479425-35479583 297;247 K intron_retention CUFF.898 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 479;79 K cassette CUFF.917 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 33;3330 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 52;1063 K alternative_first_exon CUFF.908 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479957-35480071 chr6:35479425-35479773 29;301 N cassette CUFF.887 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 975;3184 N jcn_only_AA CUFF.899 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 135;156 K intron_retention CUFF.898 chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 519;1536 K mutually_exclusive CUFF.923 chr6 + chr6:112558118-112666314,chr6:112666362-112668493 chr6:112558118-112664599,chr6:112664981-112668493 chr6:112666315-112666361 chr6:112664600-112664980 436;1029 K alternative_first_exon CUFF.902 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821878-32822066;chr6:32811913-32812051 chr6:32812552-32812647 602;177 N alternative_donor chr6 - chr6:114283559-114292020;chr6:114283559-114332294 chr6:114283559-114289797 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 416;4214 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 52;130 N alternative_donor CUFF.916 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 101;42 K cassette CUFF.928 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 197;4664 N jcn_only_AA CUFF.928 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 2372;55 N jcn_only_AD CUFF.898 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 56;2499 N alternative_donor CUFF.923 chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 159;57 N alternative_acceptor chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 480;304 N alternative_acceptor CUFF.928 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 1946;200 N alternative_acceptor CUFF.924 chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 188;423 K intron_retention CUFF.910 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 43;226 N alternative_acceptor CUFF.913 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 12940;384 K alternative_acceptor CUFF.896 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 105;122 K jcn_only_AD CUFF.898 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 309;519 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 70;330 N jcn_only_AD CUFF.933 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 487;48 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 61;4614 K intron_retention CUFF.900 chr6 + chr6:32122182-32122363 chr6:32122181-32122182;chr6:32122363-32122364 702;95 K alternative_first_exon CUFF.924 chr6 - chr6:114281183-114283530,chr6:114281183-114289797,chr6:114281183-114291418;chr6:114281183-114291643;chr6:114281183-114289493 chr6:114281183-114292020 chr6:114291644-114291903;chr6:114289494-114289592 chr6:114292021-114292449 1684;2544 N cassette CUFF.929 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 503;3258 N cassette CUFF.918 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 291;2960 K intron_retention CUFF.898 chr6 + chr6:31928872-31929323 chr6:31928871-31928872;chr6:31929323-31929324 45;305 N alternative_donor CUFF.933 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 487;77 K intron_retention CUFF.899 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 861;301 N jcn_only_AA CUFF.899 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 259;32 K intron_retention CUFF.887 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 1710;1160 K alternative_donor CUFF.918 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 209;742 N jcn_only_AD chr6 - chr6:114283559-114292020;chr6:114283559-114289797 chr6:114283559-114332294 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 288;64 K intron_retention CUFF.914 chr6 + chr6:46638966-46644383 chr6:46638965-46638966;chr6:46644383-46644384 717;570 K intron_retention CUFF.905 chr6 + chr6:33239900-33240404 chr6:33239899-33239900;chr6:33240404-33240405 434;378 N jcn_only_AA CUFF.890 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 622;47 N cassette CUFF.918 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 119;2059 N alternative_acceptor CUFF.913 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 13062;262 N jcn_only_AA CUFF.898,CUFF.905 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 575;64 N jcn_only_AA CUFF.928 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 1392;78 N alternative_acceptor CUFF.913 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 12864;460 K alternative_first_exon CUFF.902 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812552-32812647;chr6:32811913-32812051 chr6:32821878-32822066 479;300 N jcn_only_AD chr6 - chr6:114283559-114292020;chr6:114283559-114332294 chr6:114283559-114289797 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 93;259 K jcn_only_AA CUFF.889 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 66;109 K intron_retention CUFF.900 chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 115;126 K cassette CUFF.927 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 334;2685 K intron_retention chr6 + chr6:31927178-31927786 chr6:31927177-31927178;chr6:31927786-31927787 504;290 K alternative_first_exon CUFF.911 chr6 - chr6:41491964-41513737,chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41515199-41515385 chr6:41513827-41513981 8849;8038 N alternative_acceptor chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 33;837 K cassette CUFF.918 chr6 + chr6:90326377-90327672 chr6:90326377-90326592;chr6:90326676-90327672 chr6:90326593-90326675 213;113 N alternative_acceptor CUFF.928 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 2528;226 K intron_retention CUFF.924 chr6 - chr6:114277316-114277782 chr6:114277315-114277316;chr6:114277782-114277783 935;138 N alternative_first_exon chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31940166 chr6:31939097-31939462 230;3055 K coord_cassette CUFF.927 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126330480;chr6:126330581-126332398 chr6:126329803-126329891;chr6:126330481-126330580 339;113 K intron_retention CUFF.933 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 235;107 K intron_retention CUFF.924 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 188;242 N cassette CUFF.923 chr6 + chr6:112558118-112604255 chr6:112558118-112600322;chr6:112600441-112604255 chr6:112600323-112600440 126;402 N cassette CUFF.887 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 388;3152 N alternative_acceptor CUFF.922,CUFF.937 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 439;515 N jcn_only_AA CUFF.928 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 131;2296 N alternative_acceptor CUFF.924 chr6 - chr6:114281183-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281204-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1658;298 K alternative_last_exon CUFF.937 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161491640-161491882 chr6:161488231-161488315 311;13 N jcn_only_AD CUFF.923 chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 159;48 N cassette CUFF.900 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 1164;1635 N cassette CUFF.929 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 477;2508 K intron_retention CUFF.905 chr6 + chr6:33239900-33240363 chr6:33239899-33239900;chr6:33240363-33240364 785;181 N jcn_only_AA CUFF.928 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 2183;170 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 28;504 N jcn_only_AD CUFF.921 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 757;116 K intron_retention CUFF.899 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 189;1059 N jcn_only_AA CUFF.924 chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 188;207 N jcn_only_AA CUFF.913 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 3211;109 K jcn_only_AA CUFF.929 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 518;408 K intron_retention CUFF.890 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 33;576 N alternative_acceptor CUFF.900 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 95;716 N alternative_first_exon CUFF.893 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109688-28109807 chr6:28109901-28110041 56;737 K intron_retention CUFF.902 chr6 + chr6:32825172-32825781 chr6:32825171-32825172;chr6:32825781-32825782 672;189 K cassette CUFF.900 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122172-32122363 chr6:32121776-32122171 653;1070 N jcn_only_AA CUFF.924 chr6 - chr6:114281183-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281204-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1457;283 K cassette CUFF.918 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 95;416 K alternative_first_exon CUFF.908 chr6 - chr6:35477090-35479424 chr6:35477090-35477410 chr6:35479425-35479773 chr6:35477411-35477527 215;84 K intron_retention CUFF.888 chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 313;90 N coord_cassette CUFF.887 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 883;2561 N alternative_donor CUFF.887 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291701-292560 chr6:291700-291701 146;3793 K cassette CUFF.928 chr6 - chr6:128313855-128316606 chr6:128313855-128316393;chr6:128316412-128316606 chr6:128316394-128316411 181;731 K alternative_acceptor CUFF.939 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 126;116 K intron_retention CUFF.937 chr6 + chr6:161494645-161501912 chr6:161494644-161494645;chr6:161501912-161501913 331;274 K alternative_first_exon CUFF.937 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412705-161413115 chr6:161443167-161443259 25;63 K alternative_acceptor CUFF.926 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 43;270 N mutually_exclusive CUFF.929 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 373;173 K intron_retention CUFF.929 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 1544;260 K alternative_acceptor CUFF.908 chr6 - chr6:35478788-35479956 chr6:35478803-35479956 chr6:35478788-35478802 chr6:35478787-35478788 28;181 K alternative_donor CUFF.900 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 1754;36 K intron_retention CUFF.895 chr6 - chr6:30711974-30712085 chr6:30711973-30711974;chr6:30712085-30712086 491;187 N jcn_only_AD CUFF.927 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 82;119 K coord_cassette CUFF.918 chr6 + chr6:90326377-90331640 chr6:90326377-90326592;chr6:90326676-90327672;chr6:90327751-90331640 chr6:90326593-90326675;chr6:90327673-90327750 95;166 K alternative_donor CUFF.937 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 177;119 N jcn_only_AD CUFF.900 chr6 + chr6:32125498-32130344 chr6:32125702-32130344 28;426 K intron_retention CUFF.922 chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 358;339 N jcn_only_AD CUFF.911,CUFF.928 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 2185;289 K jcn_only_AD CUFF.900 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 151;702 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 55;397 K intron_retention CUFF.922 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 281;77 N jcn_only_AA CUFF.899 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 210;81 K alternative_first_exon CUFF.907 chr6 + chr6:34434048-34494019;chr6:34482846-34494019 chr6:34452922-34494019 chr6:34433916-34434047;chr6:34482601-34482845 chr6:34452767-34452921 387;126 N cassette CUFF.918 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 396;1996 N cassette CUFF.893 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 18;421 K intron_retention CUFF.902 chr6 + chr6:32823983-32825039 chr6:32823982-32823983;chr6:32825039-32825040 522;147 N jcn_only_AA CUFF.928 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 1424;46 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 85;506 N coord_cassette CUFF.929 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 311;2720 K intron_retention CUFF.900 chr6 + chr6:32123756-32125413 chr6:32123755-32123756;chr6:32125413-32125414 1466;206 N alternative_acceptor CUFF.929 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 2812;174 K alternative_first_exon CUFF.936 chr6 - chr6:151757690-151765600;chr6:151757690-151773150 chr6:151757690-151766442 chr6:151765601-151765760;chr6:151773151-151773351 chr6:151766443-151767020 chr6:151757555-151757689 881;6503 N alternative_acceptor CUFF.899 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 3865;32 N intron_retention chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 107;610 N alternative_donor CUFF.921 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 757;325 K coord_cassette CUFF.910 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859082-39859155;chr6:39859399-39859539 79;272 K intron_retention CUFF.927 chr6 + chr6:126319831-126320602 chr6:126319830-126319831;chr6:126320602-126320603 1361;21 N alternative_last_exon CUFF.928 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128319865-128320049 chr6:128321034-128321475 695;10757 K alternative_first_exon CUFF.927 chr6 + chr6:126307769-126314902,chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307486-126307768 chr6:126307841-126307919 1968;48 N jcn_only_AD CUFF.898 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 28;589 K jcn_only_AA CUFF.896 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 105;57 N jcn_only_AD CUFF.922 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 358;70 K cassette CUFF.928 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 40;2796 N jcn_only_AA chr6 + chr6:161413116-161491639 chr6:161413116-161455290 56;8 N cassette CUFF.923 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 410;1440 N jcn_only_AA CUFF.924 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114289861-114292020 chr6:114283559-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 1711;29 K alternative_first_exon CUFF.892 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486470;chr6:13472213-13472327 chr6:13486870-13487991 268;677 N cassette CUFF.887 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 99;3312 K alternative_first_exon CUFF.907 chr6 + chr6:34434048-34494019;chr6:34452922-34494019 chr6:34482846-34494019 chr6:34433916-34434047;chr6:34452767-34452921 chr6:34482601-34482845 152;361 K intron_retention CUFF.905 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 1850;321 K intron_retention CUFF.927 chr6 + chr6:126319281-126319368 chr6:126319280-126319281;chr6:126319368-126319369 1207;147 K intron_retention CUFF.918 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 203;77 K cassette CUFF.905 chr6 + chr6:33240504-33243573 chr6:33240504-33243276;chr6:33243435-33243573 chr6:33243277-33243434 1012;391 N alternative_donor chr6 - chr6:114283559-114292020;chr6:114283559-114289797 chr6:114283559-114332294 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 4566;64 N alternative_donor chr6 - chr6:114283559-114289797;chr6:114283559-114332294 chr6:114283559-114292020 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 4278;352 N alternative_last_exon chr6 + chr6:32125498-32130344 chr6:32125498-32125616 chr6:32130345-32130399 chr6:32125617-32126161 28;2493 N jcn_only_AA CUFF.890 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 645;24 K intron_retention CUFF.898 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 2499;328 K intron_retention CUFF.905 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 1542;1094 N jcn_only_AA CUFF.899 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 260;189 K cassette CUFF.918 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 12;555 K jcn_only_AA CUFF.896 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 163;403 K cassette CUFF.926 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 72;85 N coord_cassette CUFF.929 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 311;2162 N jcn_only_AA CUFF.928 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 36;1905 K intron_retention CUFF.899 chr6 - chr6:31937981-31938119 chr6:31937980-31937981;chr6:31938119-31938120 1034;120 K alternative_first_exon CUFF.902 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812552-32812647;chr6:32821878-32822066 chr6:32811913-32812051 477;302 K jcn_only_AA CUFF.908 chr6 - chr6:35477090-35479424 chr6:35478788-35479424 107;150 N cassette CUFF.923 chr6 + chr6:112558118-112668493 chr6:112558118-112666314;chr6:112666362-112668493 chr6:112666315-112666361 410;436 K jcn_only_AD CUFF.857 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 59;229 N jcn_only_AD CUFF.871 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630703-131631314 chr5:131630702-131630703 128;46 N alternative_acceptor CUFF.850 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 40;31 N alternative_donor CUFF.885 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 22;2834 K alternative_last_exon CUFF.865 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 35;1206 N alternative_donor CUFF.871 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 150;131 N alternative_acceptor CUFF.886 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 175;27 K cassette CUFF.874 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 368;475 K intron_retention CUFF.876 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 1017;1061 N jcn_only_AA CUFF.852 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 58;80 K jcn_only_AA CUFF.851 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 30;84 K alternative_donor CUFF.862 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 915;103 K cassette CUFF.886 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 127;400 N cassette CUFF.886 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 214;600 K intron_retention CUFF.859 chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 692;164 K alternative_last_exon CUFF.869 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127301533-127302620;chr5:127292496-127292613 chr5:127359628-127359990 1863;1430 K alternative_donor CUFF.876 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 1017;3326 K intron_retention CUFF.878 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 426;59 N jcn_only_AA CUFF.861 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 67;66 K intron_retention CUFF.875 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 180;1333 K intron_retention CUFF.886 chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 110;180 K cassette CUFF.857 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 283;669 N mutually_exclusive CUFF.859 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 302;534 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 41;1227 N jcn_only_AA CUFF.875 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 552;180 K cassette CUFF.857 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 205;261 K cassette CUFF.860 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 119;56 K intron_retention CUFF.886 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 236;286 N jcn_only_AA ENSG00000188242.4 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 4658;49 K cassette CUFF.859 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 186;848 N cassette CUFF.875 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 139;341 N cassette CUFF.886 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178047675-178050256 chr5:178046839-178047674 214;3493 N alternative_donor CUFF.875 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 85;1749 K intron_retention CUFF.882 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 329;316 N alternative_acceptor CUFF.875 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 30;257 N alternative_last_exon chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915575 610;6921 K intron_retention CUFF.847 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 49;39 K cassette CUFF.878 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 571;713 K intron_retention CUFF.864 chr5 - chr5:69493218-69497694 chr5:69493217-69493218;chr5:69497694-69497695 chr5:69493082-69493217;chr5:69497695-69497869 275;123 K alternative_last_exon CUFF.848 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184520 chr5:36181920-36182695 4520;4383 K intron_retention CUFF.859 chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 111;305 K coord_cassette CUFF.882 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 782;6485 K jcn_only_AD CUFF.862 chr5 - chr5:60198336-60214091 chr5:60198336-60199474 515;530 N cassette CUFF.869 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417887-127418426 chr5:127417665-127417886 180;1175 K jcn_only_AD CUFF.846,CUFF.882 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 39;145 K jcn_only_AA CUFF.854,CUFF.861 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 116;296 N alternative_acceptor CUFF.875 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 495;402 K jcn_only_AA CUFF.854,CUFF.875 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 180;943 K alternative_acceptor CUFF.851 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 30;91 N jcn_only_AA CUFF.856 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 144;139 K intron_retention CUFF.876 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 1853;39 K jcn_only_AA CUFF.866 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 117;818 N alternative_acceptor CUFF.852 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 58;434 K jcn_only_AD CUFF.869 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 137;69 K alternative_acceptor CUFF.875 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 15;120 K alternative_donor CUFF.863 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 219;848 K alternative_last_exon CUFF.857 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54433315-54433464 342;356 N jcn_only_AD CUFF.875 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 99;180 N alternative_donor CUFF.860,CUFF.886 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 59;17 K intron_retention CUFF.872 chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 23;418 K jcn_only_AD CUFF.876 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 1017;2499 N alternative_acceptor CUFF.871,CUFF.875 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 150;109 K jcn_only_AA CUFF.861 chr5 + chr5:56531860-56542126 chr5:56531860-56532939 186;123 N jcn_only_AA ENSG00000188242.4 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 4356;351 K jcn_only_AD CUFF.869,CUFF.878 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 56;295 N jcn_only_AD CUFF.881 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 22;333 K jcn_only_AA CUFF.848,CUFF.880 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 23;29 N alternative_donor CUFF.880 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 10;10 N cassette CUFF.882 chr5 - chr5:149782189-149785821;chr5:149782189-149784242 chr5:149782189-149782683;chr5:149782876-149785821,chr5:149782876-149784242 chr5:149782684-149782875 214;817 K intron_retention CUFF.877 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 186;34 K alternative_donor CUFF.869,CUFF.878 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 56;412 N jcn_only_AA CUFF.859,CUFF.871 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131656558-131657876 chr5:131657876-131657877 156;55 K intron_retention CUFF.886 chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 121;303 N jcn_only_AD chr5 - chr5:64887330-64887698 chr5:64887330-64887669 45;43 K jcn_only_AD CUFF.872 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 144;23 K cassette CUFF.862 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 21;1667 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 242;97 K alternative_last_exon CUFF.873 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194745-137194952 chr5:137218388-137219310 178;1836 K cassette CUFF.869 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 67;640 K intron_retention CUFF.886 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 118;161 K alternative_donor CUFF.869 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 137;1288 K intron_retention CUFF.861 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 72;135 K alternative_last_exon CUFF.867 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411363 chr5:121362637-121364314 259;409 N alternative_donor CUFF.881 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 22;421 K intron_retention CUFF.878 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 89;239 N alternative_acceptor CUFF.855,CUFF.856 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 70;75 K jcn_only_AA CUFF.859 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 118;64 N alternative_acceptor CUFF.852,CUFF.880 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40980089-40981493 chr5:40981493-40981494 121;269 N jcn_only_AA CUFF.886 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 175;27 K intron_retention CUFF.876 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 1823;52 K cassette CUFF.848 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 4178;3061 N jcn_only_AA CUFF.875 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 392;340 K alternative_acceptor CUFF.866 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 117;818 K cassette CUFF.875 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 37;592 N jcn_only_AD CUFF.871 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 150;60 N jcn_only_AA CUFF.860 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 81;40 N jcn_only_AD CUFF.875 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 85;1409 N jcn_only_AD CUFF.884 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 63;49 N alternative_acceptor CUFF.861 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 67;66 K alternative_last_exon CUFF.884 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162682987-162683276 204;1397 N jcn_only_AA CUFF.875 chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 520;212 K cassette CUFF.878 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 84;1403 K alternative_donor CUFF.846,CUFF.882 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 39;476 N jcn_only_AD CUFF.860,CUFF.886 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 59;10 K alternative_last_exon CUFF.884 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 chr5:162516251-162516352 chr5:162683774-162683993 88;1013 K intron_retention CUFF.875 chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 15;199 K cassette CUFF.886 chr5 - chr5:178047675-178050256 chr5:178047675-178049393;chr5:178049461-178050256 chr5:178049394-178049460 326;179 N cassette CUFF.869 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 202;816 N alternative_acceptor CUFF.875 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 717;180 K intron_retention CUFF.886 chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 94;310 N alternative_acceptor CUFF.859,CUFF.871 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131656558-131657876 chr5:131657876-131657877 156;151 K jcn_only_AD CUFF.862,CUFF.886 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 110;94 K alternative_first_exon CUFF.862 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214468 942;771 N intron_retention chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 43;95 K intron_retention CUFF.886 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 58;371 N intron_retention chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 381;519 N jcn_only_AA ENSG00000188242.4 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 4651;56 N jcn_only_AA CUFF.875 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 87;1512 K intron_retention CUFF.859 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 147;497 K alternative_acceptor CUFF.886 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 110;1118 K intron_retention CUFF.859 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 118;181 N alternative_donor CUFF.871 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630703-131631314 chr5:131630702-131630703 128;133 K alternative_last_exon CUFF.855 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 273;724 K intron_retention CUFF.872 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 144;442 N alternative_acceptor CUFF.876 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 4673;89 K cassette CUFF.859 chr5 + chr5:54456225-54459882 chr5:54456225-54456879;chr5:54457084-54459882 chr5:54456880-54457083 186;874 K jcn_only_AD CUFF.870 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 6;92 K alternative_donor CUFF.857 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 59;364 K intron_retention CUFF.876 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 1584;135 K alternative_acceptor CUFF.859 chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 118;91 N cassette CUFF.869 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398065;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398066-127398192 487;305 K intron_retention CUFF.886 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 257;396 K alternative_first_exon CUFF.862,CUFF.881 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783860 chr5:148758768-148758917 273;783 N alternative_acceptor ENSG00000188242.4 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 4658;2996 N cassette CUFF.885 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 278;6419 K cassette CUFF.862 chr5 - chr5:60186914-60194102 chr5:60186914-60187863;chr5:60189471-60194102 chr5:60187864-60189470 286;2516 N alternative_first_exon CUFF.872 chr5 + chr5:134182554-134190587;chr5:134181428-134190587 chr5:134181903-134190587 chr5:134181910-134182553;chr5:134181328-134181427 chr5:134181696-134181902 1058;54 K cassette CUFF.882 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 306;3808 K alternative_first_exon CUFF.846,CUFF.862 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60214092-60214215 chr5:60203107-60203202 904;121 K alternative_first_exon CUFF.876 chr5 + chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055,chr5:140027593-140028055 chr5:140026643-140026894 chr5:140027280-140027509 979;5149 N cassette CUFF.869 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398061;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398062-127398192 487;469 N intron_retention chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 73;142 K intron_retention CUFF.875 chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 46;270 N alternative_acceptor ENSG00000188242.4 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 7432;222 K intron_retention CUFF.874 chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 618;205 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195526 chr5:134182353-134182553 1316;471 K intron_retention CUFF.875 chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 38;496 K alternative_donor CUFF.862,CUFF.886 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 110;1563 K intron_retention chr5 + chr5:139918669-139918943 chr5:139918668-139918669;chr5:139918943-139918944 1512;86 K cassette CUFF.850 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 164;142 K alternative_first_exon CUFF.853 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44808942-44809665 chr5:44809929-44810094 875;72 K alternative_last_exon CUFF.884 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162464975-162465479 88;1253 N intron_retention chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 45;86 K jcn_only_AA CUFF.861,CUFF.867 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 50;392 N jcn_only_AA ENSG00000188242.4 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 456;4251 K jcn_only_AD CUFF.862 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 915;103 K jcn_only_AD CUFF.863 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 219;98 N jcn_only_AA CUFF.875 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 30;51 K cassette CUFF.882 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 782;3362 K intron_retention CUFF.882 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 2174;178 K alternative_first_exon CUFF.870 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019813-129019966 chr5:129023738-129023907 46;75 N alternative_first_exon CUFF.872 chr5 + chr5:134182554-134190587;chr5:134181903-134190587 chr5:134181428-134190587 chr5:134181910-134182553;chr5:134181696-134181902 chr5:134181328-134181427 1077;35 N jcn_only_AD CUFF.885 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 22;2528 N alternative_acceptor CUFF.860 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 81;49 K alternative_last_exon CUFF.869 chr5 - chr5:127396337-127396835;chr5:127292614-127396835;chr5:127359991-127396835 chr5:127302621-127396835 chr5:127292496-127292613;chr5:127359628-127359990 chr5:127301533-127302620 1840;1453 N jcn_only_AA CUFF.852,CUFF.880 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40980089-40981493 chr5:40981493-40981494 121;57 N alternative_acceptor ENSG00000188242.4 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 3403;4251 N alternative_first_exon CUFF.872 chr5 + chr5:134181428-134190587;chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181328-134181427;chr5:134181696-134181902 chr5:134181910-134182553 89;1023 N jcn_only_AA CUFF.855,CUFF.856 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 70;45 N alternative_acceptor ENSG00000188242.4 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 7469;185 N jcn_only_AD CUFF.850 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 69;278 K alternative_acceptor CUFF.854,CUFF.875 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 180;1491 K alternative_first_exon CUFF.874 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514408-137514539 chr5:137514641-137515022 459;1513 K cassette CUFF.862 chr5 - chr5:60224787-60240758 chr5:60224787-60227933;chr5:60227976-60240758 chr5:60227934-60227975 541;129 K alternative_first_exon CUFF.870 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795882-128796175 chr5:128796795-128797450 130;109 K cassette CUFF.857 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 137;500 K alternative_acceptor CUFF.854,CUFF.861 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 116;450 K alternative_last_exon CUFF.863 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902648-64902994 158;1557 N alternative_donor CUFF.850 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 69;794 K cassette CUFF.848 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 557;10219 K alternative_first_exon CUFF.847 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2753061 chr5:2751279-2751776 140;229 K jcn_only_AA CUFF.886 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 110;118 K alternative_donor CUFF.870 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 6;156 K jcn_only_AA CUFF.875 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 15;46 K jcn_only_AA CUFF.849 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 50;330 K intron_retention CUFF.875 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 943;840 K alternative_last_exon CUFF.869 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127301533-127302620;chr5:127359628-127359990 chr5:127292496-127292613 2929;364 K alternative_first_exon CUFF.861 chr5 + chr5:56531860-56542126 chr5:56533000-56542126 chr5:56531793-56531859 chr5:56532890-56532999 186;81 K alternative_donor CUFF.872 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 144;515 K intron_retention CUFF.885 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 337;3855 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 41;37 K mutually_exclusive CUFF.859 chr5 + chr5:54456072-54456947,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456948-54457083 chr5:54456158-54456224 666;534 N cassette CUFF.861 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 34;197 N jcn_only_AD CUFF.878 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 56;208 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 41;589 K cassette CUFF.863 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 357;879 K cassette CUFF.866 chr5 - chr5:82969369-83016607 chr5:82969369-82971106;chr5:82971157-83016607 chr5:82971107-82971156 21;96 K alternative_acceptor CUFF.861,CUFF.867 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 50;708 N jcn_only_AA CUFF.850 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 40;19 K intron_retention CUFF.860 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 106;89 K intron_retention CUFF.852 chr5 + chr5:40972697-40976851 chr5:40972696-40972697;chr5:40976851-40976852 199;616 N jcn_only_AA CUFF.871,CUFF.875 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 150;38 K cassette CUFF.862 chr5 - chr5:60199544-60214091 chr5:60199544-60200614;chr5:60200701-60214091 chr5:60200615-60200700 21;855 N alternative_acceptor CUFF.875 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 87;10079 K cassette CUFF.862 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 624;641 K intron_retention CUFF.882 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 634;611 K cassette CUFF.863 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 149;1378 N alternative_acceptor CUFF.856 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 144;399 N alternative_acceptor CUFF.875 chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 582;315 K jcn_only_AA CUFF.848 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 1050;472 K alternative_first_exon CUFF.884 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684053 105;473 K coord_cassette CUFF.869 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417887-127418426 chr5:127412639-127412785;chr5:127417665-127417886 149;1457 N jcn_only_AA CUFF.876 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 4673;89 K cassette CUFF.876 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 2336;4339 N jcn_only_AD CUFF.880 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 10;8 K alternative_first_exon CUFF.854 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681999-50682460 380;797 N jcn_only_AD CUFF.828 chr4 - chr4:83816928-83820865;chr4:83816928-83819141 chr4:83816928-83821229 206;68 K jcn_only_AA CUFF.827 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 50;93 N cassette CUFF.793 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 88;221 N jcn_only_AA CUFF.839 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 317;89 N alternative_donor CUFF.835 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 300;1711 K jcn_only_AA CUFF.842 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 57;6 K alternative_donor CUFF.834 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 1867;329 N jcn_only_AD chr4 - chr4:77097064-77116859 chr4:77097064-77097589 62;7 N jcn_only_AD CUFF.828 chr4 - chr4:83816928-83819141;chr4:83816928-83821229 chr4:83816928-83820865 195;79 K cassette CUFF.802 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 42;1791 N alternative_acceptor CUFF.835 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 323;803 K cassette CUFF.842 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 15;156 N alternative_acceptor CUFF.842 chr4 - chr4:162463846-162508606 chr4:162473730-162508606 chr4:162463846-162473729 chr4:162463845-162463846 85;87 K intron_retention CUFF.801 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 61;143 K alternative_donor CUFF.803 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 80;937 K alternative_acceptor CUFF.830 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 25;987 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 6;281 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 79;217 K alternative_last_exon CUFF.822,CUFF.837 chr4 + chr4:77184997-77230296 chr4:77184997-77189812 chr4:77230297-77232376 chr4:77189813-77189966 1520;471 K alternative_donor CUFF.844 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 104;45 K cassette CUFF.813 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 18;1015 K intron_retention CUFF.815 chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 93;468 N alternative_donor CUFF.806 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 51;17 N alternative_last_exon CUFF.828 chr4 - chr4:83819216-83821229;chr4:83820891-83821229 chr4:83816001-83821229,chr4:83816928-83821229 chr4:83818859-83819215;chr4:83820608-83820890 chr4:83814162-83816000 chr4:83821230-83821376 1793;1332 N alternative_acceptor chr4 - chr4:152147239-152148911 chr4:152147393-152148911 chr4:152147239-152147392 chr4:152147238-152147239 2;43 N alternative_donor CUFF.821 chr4 - chr4:77102255-77116859 chr4:77102255-77105809 chr4:77105810-77116859 chr4:77116859-77116860 36;73 K intron_retention CUFF.810 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 429;200 N jcn_only_AD CUFF.821 chr4 - chr4:77102255-77116859 chr4:77102255-77105809 chr4:77105810-77116859 chr4:77116859-77116860 36;57 N jcn_only_AD CUFF.806 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 51;9 K cassette CUFF.814 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 910;1005 K jcn_only_AD CUFF.820 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 122;285 N jcn_only_AA CUFF.844 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 79;77 N jcn_only_AA CUFF.842 chr4 - chr4:162463846-162508606 chr4:162473730-162508606 chr4:162463846-162473729 chr4:162463845-162463846 85;87 N alternative_acceptor chr4 - chr4:83816001-83821229 chr4:83816928-83821229 chr4:83816001-83816927 chr4:83816000-83816001 chr4:83821230-83821376 87;858 K cassette CUFF.810 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 248;784 K alternative_last_exon CUFF.842 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416195-162416632 159;872 N cassette CUFF.832 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 14;1987 K alternative_acceptor CUFF.795 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 39;145 K intron_retention CUFF.828 chr4 - chr4:83820891-83821229 chr4:83820890-83820891;chr4:83821229-83821230 chr4:83820866-83820890;chr4:83821230-83821376 732;94 N jcn_only_AD CUFF.811,CUFF.828 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141 147;127 K jcn_only_AD CUFF.828 chr4 - chr4:83819216-83821229 chr4:83819216-83820865 chr4:83818859-83819215 180;257 K alternative_first_exon CUFF.829 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419692 chr4:85417646-85418103 125;101 N jcn_only_AA CUFF.839 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 51;32 K cassette CUFF.802 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 38;1182 N cassette CUFF.839 chr4 - chr4:152065203-152069073 chr4:152065203-152065371;chr4:152065441-152069073 chr4:152065372-152065440 157;216 K cassette CUFF.814 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 1016;1166 K jcn_only_AA CUFF.830 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 25;654 K jcn_only_AA CUFF.813 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 435;519 N jcn_only_AA CUFF.820 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 6;167 K intron_retention CUFF.797 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 617;790 K alternative_first_exon CUFF.844 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186216916-186217184 41;330 N alternative_donor chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 35;1350 K alternative_first_exon CUFF.803 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6383503 chr4:6382822-6473886 chr4:6536998-6537104;chr4:6383504-6384852 chr4:6473887-6474220 1664;765 K intron_retention CUFF.797 chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 745;742 K alternative_first_exon CUFF.826 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81105033-81105209 chr4:81106459-81106672 107;685 K alternative_donor CUFF.822 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 24;388 K intron_retention CUFF.797 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 510;571 N alternative_acceptor chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 82;5761 N alternative_donor CUFF.803 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 362;129 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 63;562 N cassette CUFF.803 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 42;2496 N alternative_acceptor CUFF.823 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 221;3276 K jcn_only_AD CUFF.822 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 24;256 K alternative_first_exon CUFF.806 chr4 + chr4:6911679-6925099;chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910872-6911232 chr4:6912151-6912328 1672;259 K intron_retention CUFF.826 chr4 + chr4:81118371-81118778 chr4:81118370-81118371;chr4:81118778-81118779 119;67 K cassette CUFF.822 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 230;65 K cassette CUFF.834 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 628;545 N jcn_only_AA CUFF.820 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 221;199 K jcn_only_AD CUFF.835 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 119;144 K alternative_donor CUFF.839 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 51;125 K cassette CUFF.819 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 104;153 K cassette CUFF.796 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 252;706 K jcn_only_AD CUFF.803,CUFF.828 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 chr4:83821230-83821376;chr4:83821525-83822207 70;1053 N alternative_donor CUFF.834 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 78;593 K alternative_first_exon CUFF.814 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502958 chr4:56502248-56502524 391;2036 N alternative_donor CUFF.834 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 474;368 K intron_retention CUFF.801 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 275;212 N alternative_acceptor CUFF.839 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 51;37 N jcn_only_AA CUFF.823 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 221;1486 N alternative_donor CUFF.821,CUFF.839 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 317;73 K alternative_last_exon CUFF.809 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 324;1934 K intron_retention ENSG00000215127.5 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 437;91 K cassette CUFF.834 chr4 + chr4:120449945-120471533 chr4:120449945-120464907;chr4:120465001-120471533 chr4:120464908-120465000 2676;412 K alternative_donor CUFF.803,CUFF.828 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 chr4:83821230-83821376;chr4:83821525-83822207 70;1303 K alternative_first_exon CUFF.844 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125307-186125621 chr4:186131202-186131409 70;207 K jcn_only_AA CUFF.819 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 274;78 N jcn_only_AD CUFF.815 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 265;12 K jcn_only_AA CUFF.837 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 22;101 N coord_cassette CUFF.826 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 42;993 N jcn_only_AA CUFF.815 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 265;8 K cassette CUFF.801 chr4 - chr4:3954901-3957050 chr4:3954901-3956686;chr4:3956761-3957050 chr4:3956687-3956760 639;238 K cassette CUFF.797 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 311;1269 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 35;726 N alternative_acceptor CUFF.812 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 102;250 N alternative_last_exon CUFF.828 chr4 - chr4:83819216-83821229;chr4:83816001-83821229,chr4:83816928-83821229 chr4:83820891-83821229 chr4:83818859-83819215;chr4:83814162-83816000 chr4:83820608-83820890 chr4:83821230-83821376 1747;1378 N jcn_only_AA CUFF.834 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 913;79 N jcn_only_AA chr4 - chr4:83816001-83821229 chr4:83816928-83821229 chr4:83816001-83816927 chr4:83816000-83816001 chr4:83821230-83821376 87;68 N cassette CUFF.823 chr4 - chr4:77979789-77996624 chr4:77979789-77987401;chr4:77987559-77996624 chr4:77987402-77987558 288;3643 K intron_retention CUFF.818 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 100;525 N jcn_only_AD CUFF.803 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 362;44 N alternative_acceptor CUFF.797 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 69;696 K alternative_first_exon CUFF.803 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6473886 chr4:6382822-6383503 chr4:6536998-6537104;chr4:6473887-6474220 chr4:6383504-6384852 1265;1164 K jcn_only_AD CUFF.811 chr4 - chr4:36014454-36047600 chr4:36014454-36017007 39;156 N jcn_only_AD CUFF.834 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 78;593 K cassette CUFF.802 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 547;76 K intron_retention CUFF.813 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 862;589 N jcn_only_AD CUFF.818 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 341;36 N jcn_only_AD CUFF.808 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 45;60 N alternative_acceptor CUFF.811 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 140;175 N cassette CUFF.823 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 148;5043 K intron_retention CUFF.797 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 311;806 K cassette CUFF.810 chr4 + chr4:20570628-20591266 chr4:20570628-20574856;chr4:20574884-20591266 chr4:20574857-20574883 74;138 K alternative_donor CUFF.835 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 119;144 K alternative_first_exon CUFF.803 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6473886;chr4:6382822-6383503 chr4:6382822-6536997 chr4:6473887-6474220;chr4:6383504-6384852 chr4:6536998-6537104 2112;317 N jcn_only_AD CUFF.845 chr4 + chr4:191012637-191013578 chr4:191013443-191013578 chr4:191012637-191013442 chr4:191012636-191012637 142;196 N alternative_donor CUFF.803,CUFF.842 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 80;146 K intron_retention CUFF.796 chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 83;357 K intron_retention CUFF.803 chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 156;213 N alternative_donor CUFF.818 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 341;73 K intron_retention CUFF.797 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 623;664 K jcn_only_AD CUFF.803 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 80;881 N alternative_acceptor CUFF.839 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 317;89 N jcn_only_AA CUFF.810 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 671;127 K intron_retention CUFF.823 chr4 - chr4:77977477-77979659 chr4:77977476-77977477;chr4:77979659-77979660 1559;677 K cassette CUFF.801 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 58;654 N jcn_only_AA CUFF.834 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 474;56 K alternative_last_exon CUFF.795,CUFF.844 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186291436 chr4:186284539-186285206 421;973 K alternative_first_exon CUFF.810 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256453-20256698 41;912 K alternative_donor CUFF.844 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 46;261 N jcn_only_AA CUFF.793 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 36;196 K jcn_only_AD CUFF.839 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 51;22 K alternative_first_exon CUFF.809 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821667-13821895 115;605 N alternative_acceptor CUFF.834 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 913;155 N alternative_donor CUFF.806 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 55;60 N alternative_donor CUFF.839,CUFF.842 chr4 - chr4:162463846-162508606 chr4:162463846-162473639 chr4:162473640-162508606 chr4:162508606-162508607 85;81 K intron_retention CUFF.830 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 703;184 K intron_retention CUFF.797 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 465;158 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 148;197 K alternative_first_exon CUFF.802 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202282 chr4:6196218-6196405 454;367 N cassette CUFF.793 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 264;741 N jcn_only_AD CUFF.806 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 55;22 N alternative_donor CUFF.845 chr4 + chr4:191012637-191013578 chr4:191013443-191013578 chr4:191012637-191013442 chr4:191012636-191012637 142;6452 K alternative_first_exon CUFF.839 chr4 - chr4:152147239-152148911,chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152187238-152187467 chr4:152147320-152147667 267;435 K intron_retention CUFF.815 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 92;477 K intron_retention CUFF.797 chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 23;847 K alternative_acceptor CUFF.797 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 27;1259 N alternative_acceptor CUFF.793 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 36;196 K alternative_last_exon CUFF.840 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143533-153143911 228;612 K intron_retention chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 97;137 N jcn_only_AA CUFF.834 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 245;38 N alternative_donor CUFF.815 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 265;962 K alternative_first_exon CUFF.808 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430300 195;635 K alternative_last_exon CUFF.838 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240506-142241054 chr4:142242188-142242535 247;423 K intron_retention CUFF.828 chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 chr4:83821230-83821376;chr4:83821525-83822207 70;338 N cassette CUFF.793 chr4 + chr4:647109-647640 chr4:647109-647225;chr4:647497-647640 chr4:647226-647496 77;6304 N jcn_only_AA CUFF.835 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 323;33 K alternative_last_exon CUFF.797 chr4 - chr4:2932878-2933281 chr4:2933193-2933281 chr4:2932288-2932877 chr4:2933102-2933192 122;617 N alternative_acceptor CUFF.834 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 245;1100 K cassette CUFF.826 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 389;384 K coord_cassette CUFF.830 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 179;234 K intron_retention CUFF.839 chr4 - chr4:152096827-152097685 chr4:152096826-152096827;chr4:152097685-152097686 51;108 K cassette CUFF.810 chr4 + chr4:20525801-20530571 chr4:20525801-20526771;chr4:20526796-20530571 chr4:20526772-20526795 23;88 K jcn_only_AA CUFF.795 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 39;126 N jcn_only_AA CUFF.834 chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 206;36 K alternative_first_exon CUFF.833 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133861 chr4:120116866-120116996 47;565 K alternative_first_exon CUFF.823 chr4 - chr4:77987559-77995942;chr4:77987559-77996624 chr4:77987559-77996251 chr4:77996625-77997158 chr4:77996252-77996509 5322;1470 K intron_retention CUFF.830 chr4 - chr4:99403327-99405549 chr4:99403326-99403327;chr4:99405549-99405550 167;135 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 55;181 N alternative_acceptor CUFF.820 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464436-74470304 chr4:74464435-74464436 221;1284 K cassette CUFF.814 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 427;1531 K alternative_acceptor CUFF.827 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 50;156 N jcn_only_AA chr4 - chr4:152147239-152148911 chr4:152147393-152148911 chr4:152147239-152147392 chr4:152147238-152147239 2;43 N jcn_only_AA CUFF.797 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 69;654 N jcn_only_AD CUFF.821,CUFF.839 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 317;73 K cassette CUFF.839 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 31;338 K intron_retention CUFF.843 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 45;314 N coord_cassette CUFF.813 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 180;1924 K intron_retention CUFF.834 chr4 + chr4:120381398-120381885 chr4:120381397-120381398;chr4:120381885-120381886 552;122 K alternative_acceptor CUFF.819 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 274;166 N jcn_only_AA CUFF.812 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 102;183 N jcn_only_AA chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 99;36 K jcn_only_AA CUFF.797 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 27;803 K intron_retention CUFF.838 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 56;122 N alternative_acceptor CUFF.797 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 63;967 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 6;666 K coord_cassette CUFF.814 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 427;1173 K cassette CUFF.820 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 268;318 K mutually_exclusive CUFF.814 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 618;391 N intron_retention CUFF.830 chr4 - chr4:99403327-99405535 chr4:99403326-99403327;chr4:99405535-99405536 54;137 K cassette CUFF.822 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 348;82 N jcn_only_AA CUFF.818 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 341;79 K intron_retention CUFF.828 chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 chr4:83821230-83821376;chr4:83821487-83822207 1053;161 K coord_cassette CUFF.814 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 709;568 K intron_retention CUFF.793 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 434;260 K alternative_first_exon CUFF.816 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774983-57775205 chr4:57775526-57775753 2457;533 N jcn_only_AA CUFF.797 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 63;465 K cassette CUFF.819 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 182;280 K cassette CUFF.844 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 148;322 K alternative_acceptor CUFF.842 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 57;6 K intron_retention CUFF.834 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 245;1219 K cassette CUFF.810 chr4 + chr4:20490606-20493383 chr4:20490606-20492425;chr4:20492438-20493383 chr4:20492426-20492437 4;67 K intron_retention CUFF.797 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 534;994 K cassette CUFF.830 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 703;652 N alternative_acceptor chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 99;562 N jcn_only_AD CUFF.834 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 474;299 K intron_retention CUFF.832 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 985;64 N jcn_only_AA chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 82;142 K jcn_only_AA CUFF.811 chr4 - chr4:36014454-36047600 chr4:36020909-36047600 39;102 K jcn_only_AD CUFF.844 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 46;183 K alternative_last_exon CUFF.828 chr4 - chr4:83816928-83820865 chr4:83819216-83820865 chr4:83814063-83816927 chr4:83818859-83819215 chr4:83820866-83820890 1237;592 N alternative_acceptor CUFF.818 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 341;116 K intron_retention CUFF.834 chr4 + chr4:120414593-120415587 chr4:120414592-120414593;chr4:120415587-120415588 654;121 N alternative_last_exon CUFF.821 chr4 - chr4:77105934-77116859;chr4:77097064-77116859 chr4:77102255-77116859 chr4:77096944-77097063 chr4:77101812-77102254 160;131 K cassette CUFF.801 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 207;833 N jcn_only_AD CUFF.835 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 300;29 N jcn_only_AA CUFF.811 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 140;78 N alternative_last_exon CUFF.828 chr4 - chr4:83816001-83821229,chr4:83816928-83821229;chr4:83820891-83821229 chr4:83819216-83821229 chr4:83814162-83816000;chr4:83820608-83820890 chr4:83818859-83819215 chr4:83821230-83821376 2710;415 K intron_retention CUFF.839 chr4 - chr4:152096827-152097676 chr4:152096826-152096827;chr4:152097676-152097677 22;77 N alternative_acceptor CUFF.844 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 79;368 K cassette CUFF.814 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 233;3662 K jcn_only_AD CUFF.834 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 1867;206 N alternative_acceptor CUFF.834 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 474;56 N alternative_acceptor CUFF.834 chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 206;69 K alternative_last_exon CUFF.811 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059592-36059765 chr4:36067544-36069900 171;730 K alternative_donor CUFF.815 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 92;125 N cassette CUFF.801 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 151;315 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 221;96 N alternative_acceptor CUFF.815 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 265;8 N jcn_only_AD CUFF.839,CUFF.842 chr4 - chr4:162463846-162508606 chr4:162463846-162473639 chr4:162473640-162508606 chr4:162508606-162508607 85;81 N jcn_only_AD CUFF.833 chr4 - chr4:83816001-83821229 chr4:83816001-83816844 87;148 K cassette CUFF.813 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 285;1495 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 chr4:83821230-83821376 87;169 K mutually_exclusive CUFF.796 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 371;225 N coord_cassette CUFF.801 chr4 - chr4:3945100-3949816 chr4:3945100-3948495;chr4:3948645-3949468;chr4:3949735-3949816 chr4:3948496-3948644;chr4:3949469-3949734 46;895 K intron_retention CUFF.830 chr4 - chr4:99405750-99407888 chr4:99405749-99405750;chr4:99407888-99407889 252;107 K cassette CUFF.806 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 117;322 N alternative_acceptor CUFF.810 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 671;498 K jcn_only_AD CUFF.844 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 104;28 K intron_retention CUFF.825 chr4 + chr4:78531849-78532141 chr4:78531848-78531849;chr4:78532141-78532142 46;52 K jcn_only_AD CUFF.815 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 92;93 K intron_retention CUFF.830 chr4 - chr4:99399898-99403155 chr4:99399897-99399898;chr4:99403155-99403156 25;354 K alternative_last_exon CUFF.837 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849966 chr4:130829789-130829858 244;20 N jcn_only_AD CUFF.803,CUFF.842 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 80;115 K alternative_last_exon CUFF.758 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049248 896;152 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 28;16855 K cassette CUFF.773 chr3 + chr3:132948196-133098595 chr3:132948196-133097185;chr3:133097401-133098595 chr3:133097186-133097400 849;905 K alternative_first_exon CUFF.758 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021325-112021561 chr3:112025947-112026045 341;92 K alternative_first_exon CUFF.740,CUFF.770 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730722 chr3:45729868-45730374 175;306 N jcn_only_AD chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 1275;114 K cassette CUFF.788 chr3 + chr3:186769135-186790636 chr3:186769135-186782307;chr3:186782405-186790636 chr3:186782308-186782404 533;135 N intron_retention chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 45;32 N jcn_only_AA CUFF.732 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 133;60 K alternative_first_exon CUFF.745 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51740993-51741183 chr3:51741372-51741670 175;394 N jcn_only_AD CUFF.725 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 1051;42 N alternative_acceptor CUFF.755 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 1141;82 N jcn_only_AA CUFF.728 chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 142;942 N jcn_only_AD CUFF.727 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 582;52 N mutually_exclusive CUFF.772 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 57;205 K intron_retention CUFF.755 chr3 - chr3:107574077-107575926 chr3:107574076-107574077;chr3:107575926-107575927 1301;390 N jcn_only_AD CUFF.782 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 849;71 K cassette CUFF.726 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 88;1953 N jcn_only_AA CUFF.743 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49348171-49362134 chr3:49350047-49362134 406;25 N alternative_acceptor CUFF.727 chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 150;31 K intron_retention CUFF.737 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 568;54 N alternative_donor CUFF.766,CUFF.772 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 151;314 N alternative_donor CUFF.733,CUFF.766 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 876;2437 K intron_retention CUFF.771 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 827;202 N cassette CUFF.755 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107572719 chr3:107568670-107568818 566;402 N cassette CUFF.772 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 299;1153 N mutually_exclusive CUFF.755 chr3 - chr3:107576050-107591814,chr3:107591874-107594976 chr3:107576050-107586157,chr3:107586273-107594976 chr3:107591815-107591873 chr3:107586158-107586272 1642;256 K intron_retention CUFF.732 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 158;223 N cassette CUFF.773 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 79;7602 N alternative_donor CUFF.728 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 1620;7896 K intron_retention CUFF.728 chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 942;876 N alternative_acceptor CUFF.771 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 chr3:126137301-126137368 1353;5534 N alternative_donor CUFF.727 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 672;107 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 41;495 N alternative_acceptor CUFF.727 chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 173;8 N alternative_acceptor CUFF.772 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 1665;2217 K alternative_last_exon CUFF.773 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133109024-133109178 chr3:133105268-133105355 408;3 N cassette CUFF.760 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 1110;873 K alternative_first_exon CUFF.741 chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023598 chr3:47020964-47021101 188;350 K intron_retention chr3 - chr3:127294349-127294591 chr3:127294348-127294349;chr3:127294591-127294592 305;200 N alternative_donor CUFF.766,CUFF.776 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 591;40 N jcn_only_AD CUFF.728 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 985;68 N mutually_exclusive CUFF.778 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 50;993 K cassette CUFF.773 chr3 + chr3:132948196-133098595 chr3:132948196-133022047;chr3:133022182-133098595 chr3:133022048-133022181 849;186 K coord_cassette CUFF.755 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814 chr3:107585499-107585600;chr3:107586158-107586272 1054;226 N intron_retention chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 229;634 K alternative_last_exon CUFF.773 chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838352 45;545 K intron_retention CUFF.761 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 231;468 K alternative_first_exon CUFF.773 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757144-132757279 chr3:132760591-132760699 594;410 K jcn_only_AA CUFF.765 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 1269;178 N cassette CUFF.778 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 325;1767 K intron_retention CUFF.744 chr3 - chr3:49462308-49462381 chr3:49462307-49462308;chr3:49462381-49462382 1976;73 K cassette CUFF.741 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 119;673 N coord_cassette CUFF.773 chr3 + chr3:132948196-133109023 chr3:132948196-133097185;chr3:133097401-133098595;chr3:133100006-133109023 chr3:133097186-133097400;chr3:133098596-133100005 79;2436 K jcn_only_AA CUFF.733 chr3 - chr3:33626413-33633886 chr3:33633732-33633886 52;2 K cassette CUFF.727 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 196;632 K cassette CUFF.783 chr3 - chr3:165504100-165547304 chr3:165504100-165545773;chr3:165545858-165547304 chr3:165545774-165545857 157;188 K intron_retention CUFF.744 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 446;3776 N cassette CUFF.759 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 29;563 N jcn_only_AD CUFF.728 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 1010;43 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 135;1432 N cassette CUFF.771 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 398;587 N coord_cassette CUFF.788 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 51;5557 K alternative_last_exon CUFF.745,CUFF.775 chr3 + chr3:51747327-51749077 chr3:51747327-51747979 chr3:51749078-51750153 chr3:51747980-51748169 685;445 N intron_retention chr3 - chr3:125787090-125802771 chr3:125787089-125787090;chr3:125802771-125802772 41;385 K cassette CUFF.753 chr3 - chr3:93646252-93692517 chr3:93646252-93647545;chr3:93647642-93692517 chr3:93647546-93647641 13;835 N mutually_exclusive CUFF.778 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 50;993 K alternative_first_exon CUFF.782 chr3 - chr3:156271571-156272745;chr3:156271571-156271781 chr3:156271571-156272525 chr3:156272746-156272973;chr3:156271782-156271981 chr3:156272526-156272676 856;167 N alternative_donor CUFF.732,CUFF.737 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 133;98 N jcn_only_AD CUFF.743 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33481228-33482168 chr3:33482168-33482169 195;128 K alternative_first_exon CUFF.772 chr3 - chr3:127299007-127306912,chr3:127299007-127309725,chr3:127299007-127310732;chr3:127299007-127313642 chr3:127299007-127309252 chr3:127313643-127313776 chr3:127309253-127309586 2661;1854 N jcn_only_AA CUFF.755 chr3 - chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586425-107591327 chr3:107586424-107586425 263;102 K coord_cassette CUFF.760 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 1110;578 N alternative_acceptor CUFF.727 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 716;256 K alternative_first_exon CUFF.745 chr3 + chr3:51743450-51746488 chr3:51745736-51746488 chr3:51742864-51743449 chr3:51745227-51745735 1342;981 K intron_retention CUFF.728 chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 102;439 N cassette CUFF.788 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 7;7015 N coord_cassette CUFF.788 chr3 + chr3:186756662-186769036 chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186759705-186759754;chr3:186760442-186761098 7;4309 N alternative_first_exon CUFF.733 chr3 - chr3:33686396-33686494;chr3:33686396-33700465;chr3:33686396-33700998 chr3:33686396-33686835,chr3:33686396-33686773 chr3:33700466-33700709;chr3:33700999-33701258 chr3:33686836-33687042 1754;2288 N alternative_acceptor CUFF.755 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 102;1877 K intron_retention CUFF.762 chr3 - chr3:120369713-120371438 chr3:120369712-120369713;chr3:120371438-120371439 262;119 K intron_retention CUFF.725 chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 933;353 K cassette CUFF.727 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 367;65 N alternative_donor CUFF.759 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1176;1241 N jcn_only_AA CUFF.778 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 570;367 K cassette CUFF.781 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 480;864 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 43;1165 K alternative_last_exon CUFF.775 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 chr3:133418749-133419168;chr3:133419726-133420037 chr3:133410567-133410675 1537;70 K alternative_last_exon CUFF.756 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474424-108474752 737;817 N jcn_only_AD CUFF.743 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 818;356 K cassette CUFF.741 chr3 - chr3:46982556-47017842 chr3:46982556-47007473;chr3:47007620-47017842 chr3:47007474-47007619 795;613 K alternative_last_exon CUFF.773,CUFF.775 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 149;243 K coord_cassette CUFF.762 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 243;536 K cassette CUFF.744 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 72;4489 K alternative_first_exon CUFF.785 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178865902-178866007 chr3:178867327-178867504 408;99 K cassette CUFF.791 chr3 - chr3:196214450-196229743 chr3:196214450-196215477;chr3:196215555-196229743 chr3:196215478-196215554 19;8 N mutually_exclusive CUFF.755 chr3 - chr3:107586273-107591814,chr3:107591874-107596748;chr3:107586273-107594976,chr3:107595034-107596748 chr3:107586273-107596159,chr3:107596345-107596748 chr3:107591815-107591873;chr3:107594977-107595033 chr3:107596160-107596344 368;759 K alternative_first_exon CUFF.770 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073205 112;1366 N jcn_only_AA CUFF.727 chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 38;142 N jcn_only_AD CUFF.751 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 962;108 K jcn_only_AA CUFF.762 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 459;95 N alternative_acceptor CUFF.755 chr3 - chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586425-107591327 chr3:107586424-107586425 263;128 K alternative_first_exon CUFF.765 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122785822-122786053 chr3:122786144-122786422 191;115 K alternative_first_exon CUFF.769,CUFF.782 chr3 - chr3:156271571-156272525;chr3:156271571-156271781 chr3:156271571-156272745 chr3:156272526-156272676;chr3:156271782-156271981 chr3:156272746-156272973 669;354 N alternative_acceptor CUFF.744 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 1762;295 N alternative_first_exon CUFF.733 chr3 - chr3:33686396-33686494;chr3:33686396-33686835,chr3:33686396-33686773;chr3:33686396-33700998 chr3:33686396-33700465 chr3:33686836-33687042;chr3:33700999-33701258 chr3:33700466-33700709 2599;1443 N jcn_only_AD CUFF.751 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 1060;10 N cassette CUFF.769 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 2970;17025 N alternative_donor CUFF.727,CUFF.772 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 655;124 K jcn_only_AD CUFF.758 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 140;110 N intron_retention CUFF.747 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 71;1736 N alternative_first_exon CUFF.733 chr3 - chr3:33686396-33686494;chr3:33686396-33700465;chr3:33686396-33686835,chr3:33686396-33686773 chr3:33686396-33700998 chr3:33700466-33700709;chr3:33686836-33687042 chr3:33700999-33701258 3853;189 K intron_retention CUFF.737 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 631;380 N alternative_donor CUFF.766 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 542;89 N jcn_only_AA CUFF.727 chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 150;30 K cassette CUFF.733 chr3 - chr3:33602464-33612218 chr3:33602464-33612181;chr3:33612185-33612218 chr3:33612182-33612184 72;6 N mutually_exclusive CUFF.755 chr3 - chr3:107586273-107591814,chr3:107591874-107596748;chr3:107586273-107596159,chr3:107596345-107596748 chr3:107586273-107594976,chr3:107595034-107596748 chr3:107591815-107591873;chr3:107596160-107596344 chr3:107594977-107595033 943;184 K intron_retention CUFF.743 chr3 - chr3:49349088-49362134 chr3:49349087-49349088;chr3:49362134-49362135 275;439 K jcn_only_AD CUFF.759 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 43;173 K intron_retention CUFF.723 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 1072;286 N coord_cassette CUFF.788 chr3 + chr3:186648624-186769036 chr3:186648624-186660135;chr3:186660216-186681572;chr3:186681715-186756529;chr3:186756662-186769036 chr3:186660136-186660215;chr3:186681573-186681714;chr3:186756530-186756661 389;664 N mutually_exclusive CUFF.769 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 1685;1149 K intron_retention CUFF.780 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 441;80 N alternative_donor CUFF.751 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 2884;10 K intron_retention CUFF.759 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 43;174 K coord_cassette CUFF.762 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 243;534 K cassette CUFF.733 chr3 - chr3:33592888-33600798 chr3:33592888-33600616;chr3:33600668-33600798 chr3:33600617-33600667 102;255 K cassette CUFF.732 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 103;411 K intron_retention CUFF.733 chr3 - chr3:33612185-33612218 chr3:33612184-33612185;chr3:33612218-33612219 3;261 K intron_retention CUFF.762 chr3 - chr3:120360541-120365819 chr3:120360540-120360541;chr3:120365819-120365820 243;299 N alternative_acceptor CUFF.728 chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 12208;942 N jcn_only_AD CUFF.766 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 400;89 K intron_retention CUFF.776 chr3 - chr3:133896918-133901845 chr3:133896917-133896918;chr3:133901845-133901846 200;377 N cassette CUFF.743 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 101;2810 K jcn_only_AD CUFF.775 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 272;71 N jcn_only_AD CUFF.766,CUFF.772 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 151;90 N coord_cassette CUFF.778 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 87;1044 K intron_retention CUFF.737 chr3 - chr3:38049859-38049948 chr3:38049858-38049859;chr3:38049948-38049949 927;107 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 1090;500 N cassette CUFF.755 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 351;1704 N alternative_donor CUFF.747 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 87;341 N jcn_only_AD chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 1416;26 K alternative_first_exon CUFF.768 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635463-125635562 chr3:125635563-125635660 1935;148 K cassette CUFF.755 chr3 - chr3:107576050-107586157 chr3:107576050-107585498;chr3:107585601-107586157 chr3:107585499-107585600 951;157 N alternative_acceptor CUFF.747 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 667;123 N intron_retention chr3 - chr3:125787090-125802896 chr3:125787089-125787090;chr3:125802896-125802897 74;283 N cassette CUFF.788 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 51;1932 N intron_retention chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 33;580 K cassette CUFF.783 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 840;3166 N jcn_only_AA CUFF.766 chr3 - chr3:124996654-125042231 chr3:125032501-125042231 1186;89 N jcn_only_AD CUFF.733 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 211;63 N alternative_donor CUFF.776,CUFF.778 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 1506;764 N alternative_donor CUFF.751 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 2744;150 N alternative_acceptor CUFF.776 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 69;104 N cassette CUFF.732 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 117;458 N jcn_only_AD chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 1397;45 N alternative_donor CUFF.740 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 322;2572 N alternative_acceptor CUFF.727 chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 39;142 K alternative_first_exon CUFF.745 chr3 + chr3:51741184-51749077;chr3:51748138-51749077 chr3:51747327-51749077 chr3:51740993-51741183;chr3:51747980-51748137 chr3:51746489-51747326 415;441 N jcn_only_AA CUFF.755 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 624;42 K cassette CUFF.784 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 59;108 K cassette CUFF.781 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 1207;2583 K intron_retention CUFF.727 chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 30;182 N cassette CUFF.768 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 16;3746 K coord_cassette CUFF.783 chr3 - chr3:165504100-165555101 chr3:165504100-165545773;chr3:165545858-165547304;chr3:165548830-165555101 chr3:165545774-165545857;chr3:165547305-165548829 840;1248 K cassette CUFF.773 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 485;140 K alternative_acceptor CUFF.765 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 1269;197 N alternative_acceptor CUFF.762 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 133;247 N alternative_donor CUFF.743 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 818;561 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 129;923 N alternative_last_exon chr3 + chr3:28283304-28357823 chr3:28283304-28304781 chr3:28357824-28361253 chr3:28304782-28304871 2392;233 N intron_retention CUFF.728 chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 40;703 N intron_retention chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 775;170 N mutually_exclusive CUFF.755 chr3 - chr3:107586273-107594976,chr3:107595034-107596748;chr3:107586273-107596159,chr3:107596345-107596748 chr3:107586273-107591814,chr3:107591874-107596748 chr3:107594977-107595033;chr3:107596160-107596344 chr3:107591815-107591873 943;184 K alternative_last_exon CUFF.765,CUFF.788 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791947-186792121 chr3:186791193-186791287 1002;33 K jcn_only_AA CUFF.790 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 110;37 K alternative_donor CUFF.759 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 43;343 N alternative_acceptor CUFF.766 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 374;26 K intron_retention chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 3240;274 N jcn_only_AA CUFF.755 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 600;66 K intron_retention CUFF.769 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 2414;4829 K intron_retention CUFF.741 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 973;617 K cassette CUFF.766 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 733;79 K alternative_first_exon CUFF.761 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119499331-119501147 chr3:119501549-119501699 2299;198 K intron_retention CUFF.788 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 533;277 N alternative_acceptor CUFF.743 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 242;4243 N alternative_donor CUFF.782 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 1127;58 N cassette CUFF.755 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 586;1041 K intron_retention CUFF.732 chr3 - chr3:33454320-33458249 chr3:33454319-33454320;chr3:33458249-33458250 133;71 N jcn_only_AA CUFF.743 chr3 - chr3:49354912-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49349088-49362134 156;275 K alternative_first_exon CUFF.727 chr3 - chr3:27394411-27405177,chr3:27394411-27409013;chr3:27394411-27410715 chr3:27394411-27410521 chr3:27410716-27411048 chr3:27410522-27410715 373;167 K intron_retention CUFF.737 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 563;207 N cassette CUFF.768 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 14;3377 N alternative_donor CUFF.751 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 2834;60 N alternative_donor chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 135;6446 K alternative_first_exon CUFF.728 chr3 + chr3:28283393-28304781;chr3:28283304-28304781 chr3:28295257-28304781 chr3:28283075-28283303 chr3:28295158-28295256 609;146 K jcn_only_AD CUFF.741,CUFF.743 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 21;930 K jcn_only_AD CUFF.748 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 171;287 K alternative_first_exon CUFF.746 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263798 chr3:52259543-52260179 95;60 N jcn_only_AD CUFF.782 chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 197;706 K jcn_only_AA CUFF.745 chr3 + chr3:51741184-51749077 chr3:51741184-51742863 96;129 K cassette CUFF.762 chr3 - chr3:120394711-120400943 chr3:120394711-120396750;chr3:120396839-120400943 chr3:120396751-120396838 500;353 K intron_retention CUFF.769 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 717;6037 N alternative_donor CUFF.759 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1973;444 K intron_retention CUFF.788 chr3 + chr3:186790736-186791946 chr3:186790735-186790736;chr3:186791946-186791947 578;81 K alternative_first_exon CUFF.752 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492659-75492797 chr3:75496223-75496447 53;1996 K jcn_only_AA CUFF.761 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 64;265 K intron_retention CUFF.732 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 191;43 N alternative_donor CUFF.751 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 2825;69 N alternative_first_exon chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49362135-49362196 chr3:49355742-49356253 120;194 N alternative_donor CUFF.751 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 927;184 K alternative_first_exon CUFF.745 chr3 + chr3:51741184-51749077;chr3:51747327-51749077 chr3:51748138-51749077 chr3:51740993-51741183;chr3:51746489-51747326 chr3:51747980-51748137 572;284 N alternative_donor CUFF.733 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 211;63 N jcn_only_AD CUFF.759 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 762;444 N alternative_donor CUFF.751 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 2861;33 N alternative_acceptor CUFF.778 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 934;1211 N cassette CUFF.760 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 145;249 K intron_retention CUFF.754 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 87;178 K intron_retention CUFF.765 chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 725;28 K intron_retention CUFF.751 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 45;2214 N cassette CUFF.772 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 336;659 N alternative_acceptor CUFF.728 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 2379;10771 N intron_retention chr3 - chr3:125775357-125786789 chr3:125775356-125775357;chr3:125786789-125786790 199;62 N alternative_donor CUFF.782 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 849;121 N alternative_acceptor CUFF.772 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 667;652 K jcn_only_AA CUFF.776 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 85;944 K alternative_last_exon CUFF.771 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126142168-126142219 chr3:126139473-126139765 chr3:126138946-126139072 847;1366 N jcn_only_AA CUFF.766 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 374;21 K cassette CUFF.738 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 102;66 N cassette CUFF.755 chr3 - chr3:107568819-107572719 chr3:107568819-107569143;chr3:107569199-107572719 chr3:107569144-107569198 89;243 N cassette CUFF.778 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 721;3517 N alternative_donor CUFF.743,CUFF.755 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 558;970 K intron_retention CUFF.766 chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 876;392 K intron_retention CUFF.732 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 155;293 N intron_retention chr3 - chr3:57569735-57582800 chr3:57569734-57569735;chr3:57582800-57582801 92;190 N jcn_only_AD CUFF.782 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 874;29 K cassette CUFF.733 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 152;755 N jcn_only_AA CUFF.747 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 164;512 K alternative_last_exon CUFF.775 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 chr3:133419726-133420037;chr3:133410567-133410675 chr3:133418749-133419168 662;945 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 86;548 N jcn_only_AD CUFF.727 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 99;1343 N jcn_only_AA CUFF.755 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 108;558 N cassette CUFF.769 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 558;26275 N alternative_donor CUFF.782 chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 479;706 K cassette CUFF.755 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 1054;2312 K cassette CUFF.733 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 47;1189 K alternative_acceptor CUFF.761 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 64;564 K intron_retention CUFF.732 chr3 - chr3:33441775-33442453 chr3:33441774-33441775;chr3:33442453-33442454 259;154 K jcn_only_AA CUFF.744 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 126;1827 N alternative_acceptor CUFF.747 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 186;604 K intron_retention CUFF.759 chr3 + chr3:119196296-119197180 chr3:119196295-119196296;chr3:119197180-119197181 147;304 K cassette CUFF.725 chr3 + chr3:19992554-20017092 chr3:19992554-20012039;chr3:20012210-20017092 chr3:20012040-20012209 249;247 N alternative_donor CUFF.728 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 8838;678 K alternative_donor CUFF.758 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 140;110 N jcn_only_AA CUFF.743 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 242;36 K alternative_first_exon CUFF.737 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38061679-38061843 chr3:38060461-38060557 844;67 N jcn_only_AA CUFF.728 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 982;102 K alternative_donor CUFF.741,CUFF.743 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 21;1401 N alternative_acceptor CUFF.755 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 1157;66 N alternative_first_exon CUFF.773 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911573-132911671 40;136 K alternative_first_exon CUFF.743,CUFF.746 chr3 - chr3:49348171-49362134 chr3:49348171-49348946 chr3:49362135-49362196 chr3:49348947-49350339 11;4163 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 28;1063 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 chr3:126137301-126137368 123;522 K alternative_first_exon CUFF.771 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126151912-126152047 chr3:126152202-126152317 chr3:126153019-126153224 1236;424 N jcn_only_AA CUFF.744 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 1762;76 N mutually_exclusive CUFF.747 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 262;414 N jcn_only_AA CUFF.778 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 934;241 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 34;920 K alternative_first_exon CUFF.782 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156271444-156271570 chr3:156269187-156269284 820;73 N jcn_only_AA CUFF.772 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 1665;107 K cassette CUFF.765 chr3 + chr3:122843191-122864368 chr3:122843191-122849326;chr3:122849464-122864368 chr3:122849327-122849463 58;200 K alternative_first_exon CUFF.754 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97642975-97643255;chr3:97634454-97634580 chr3:97652346-97652351 561;50 K alternative_last_exon CUFF.765 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122881022 683;474 K cassette CUFF.747 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569760-57570110 chr3:57569625-57569759 118;1372 K intron_retention CUFF.755 chr3 - chr3:107572807-107573976 chr3:107572806-107572807;chr3:107573976-107573977 66;1478 K intron_retention CUFF.732 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 33;115 K intron_retention CUFF.765 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 134;58 K intron_retention CUFF.759 chr3 + chr3:119196296-119198897 chr3:119196295-119196296;chr3:119198897-119198898 426;391 K jcn_only_AD CUFF.756,CUFF.766 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 1186;237 N jcn_only_AD CUFF.766,CUFF.776 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 463;26 K cassette CUFF.781 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 1590;1158 K alternative_first_exon CUFF.745 chr3 + chr3:51748138-51749077;chr3:51747327-51749077 chr3:51741184-51749077 chr3:51747980-51748137;chr3:51746489-51747326 chr3:51740993-51741183 725;131 N jcn_only_AD CUFF.733,CUFF.766 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 876;93 N alternative_donor CUFF.728 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 8574;942 K alternative_acceptor CUFF.733 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 1705;423 N intron_retention chr3 - chr3:141713984-141719093 chr3:141713983-141713984;chr3:141719093-141719094 106;71 K alternative_first_exon CUFF.754 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97652346-97652351;chr3:97634454-97634580 chr3:97642975-97643255 86;525 K cassette CUFF.783 chr3 - chr3:165491295-165503932 chr3:165491295-165495504;chr3:165495584-165503932 chr3:165495505-165495583 792;228 N jcn_only_AD CUFF.751 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 927;113 K alternative_first_exon CUFF.782 chr3 - chr3:156271571-156272745;chr3:156271571-156272525 chr3:156271571-156271781 chr3:156272746-156272973;chr3:156272526-156272676 chr3:156271782-156271981 521;502 N alternative_first_exon CUFF.728 chr3 + chr3:28339842-28357823,chr3:28333446-28357823,chr3:28336018-28357823;chr3:28283304-28357823 chr3:28304872-28357823 chr3:28283075-28283303 chr3:28304541-28304871 487;1521 N jcn_only_AD CUFF.751 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 1030;40 N jcn_only_AD chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 1414;28 N intron_retention chr3 - chr3:141713984-141811902 chr3:141713983-141713984;chr3:141811902-141811903 571;423 K alternative_last_exon CUFF.769 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743550-125743748 1067;5123 N cassette CUFF.743 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 32;2246 N alternative_acceptor CUFF.778 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 570;367 N cassette CUFF.747 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 175;1205 N cassette CUFF.788 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 389;1883 N jcn_only_AA CUFF.771 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 chr3:126137301-126137368 570;75 N jcn_only_AD CUFF.743,CUFF.782 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 735;168 N alternative_donor CUFF.725 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 1051;156 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 154;187 N jcn_only_AA CUFF.728 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 1044;40 N jcn_only_AA CUFF.727 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 209;48 N alternative_donor chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 1275;732 N alternative_donor CUFF.759 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 1685;732 K jcn_only_AD CUFF.733 chr3 - chr3:33686396-33686835 chr3:33686396-33686773 chr3:33686774-33686835 chr3:33686835-33686836 537;473 N alternative_acceptor CUFF.732 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 133;64 K intron_retention CUFF.741 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 620;675 K cassette CUFF.762 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 667;1262 N cassette CUFF.778 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 1389;3128 N alternative_donor CUFF.743 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33481228-33482168 chr3:33482168-33482169 195;441 N cassette CUFF.762 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 64;1243 N jcn_only_AA CUFF.755 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 102;96 K alternative_first_exon CUFF.754 chr3 + chr3:97643256-97652537;chr3:97652352-97652537 chr3:97634581-97652537 chr3:97642975-97643255;chr3:97652346-97652351 chr3:97634454-97634580 575;36 N alternative_acceptor CUFF.747 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 727;63 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 115;374 K intron_retention CUFF.741 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 1289;1107 N intron_retention chr3 - chr3:141724387-141811902 chr3:141724386-141724387;chr3:141811902-141811903 384;395 N jcn_only_AA CUFF.776 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 69;81 N jcn_only_AA CUFF.747 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 553;123 N intron_retention chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 76;434 N alternative_last_exon CUFF.727 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203672-27204092 141;1671 K alternative_first_exon CUFF.743 chr3 - chr3:49349088-49351303;chr3:49349088-49362134 chr3:49349088-49355741 chr3:49362135-49362196 chr3:49355742-49356253 325;1280 K alternative_acceptor CUFF.744 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 126;1916 N intron_retention chr3 - chr3:49350047-49362134 chr3:49350046-49350047;chr3:49362134-49362135 25;418 N jcn_only_AA CUFF.772 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 667;346 N jcn_only_AA CUFF.743 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 129;740 K alternative_first_exon CUFF.727 chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27258037 51;569 N jcn_only_AD CUFF.740 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 246;824 N alternative_acceptor CUFF.755 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 148;1075 K intron_retention chr3 - chr3:141697525-141712379 chr3:141697524-141697525;chr3:141712379-141712380 934;72 N jcn_only_AA CUFF.771 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 chr3:126137301-126137368 597;48 N intron_retention CUFF.766 chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 93;623 K intron_retention CUFF.732 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 103;196 K intron_retention CUFF.769 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 701;4910 K alternative_last_exon CUFF.733 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638203-33638226 chr3:33643807-33644081 33;1875 N cassette CUFF.766 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 27;2265 N cassette CUFF.771 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 752;843 K intron_retention CUFF.725 chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 28;918 K intron_retention CUFF.724 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 455;43 N jcn_only_AA chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 38;97 N coord_cassette CUFF.772 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 271;1246 N jcn_only_AD CUFF.743,CUFF.755 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 558;49 N jcn_only_AD CUFF.747 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 87;71 N alternative_acceptor CUFF.771 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 chr3:126137301-126137368 6812;75 K jcn_only_AD CUFF.769 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 717;701 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 chr3:126137301-126137368 5609;1278 K intron_retention CUFF.724 chr3 + chr3:13978186-13978482 chr3:13978185-13978186;chr3:13978482-13978483 589;41 K alternative_first_exon CUFF.756 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476329 chr3:108475667-108475862 1048;1061 N jcn_only_AA CUFF.747 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 635;41 K cassette CUFF.755 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 1054;1645 K alternative_first_exon CUFF.727,CUFF.737 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071348 chr3:38065647-38066262 905;2065 N jcn_only_AD CUFF.776,CUFF.778 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 1506;265 K coord_cassette CUFF.755 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107569143;chr3:107569199-107572719 chr3:107568670-107568818;chr3:107569144-107569198 566;428 K intron_retention CUFF.789 chr3 - chr3:193560545-193560866 chr3:193560544-193560545;chr3:193560866-193560867 152;80 K alternative_first_exon CUFF.743,CUFF.782 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377917-49378243 chr3:49377357-49377554 830;707 K jcn_only_AD CUFF.768 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 304;1975 N coord_cassette CUFF.778 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 1277;3449 N jcn_only_AA CUFF.727 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 716;47 N jcn_only_AA CUFF.743 chr3 - chr3:49349088-49362134;chr3:49348171-49362134;chr3:49350047-49362134 chr3:49354912-49362134 311;120 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 68;904 K intron_retention CUFF.745 chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 127;86 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 231;548 K intron_retention CUFF.739 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 20;909 K jcn_only_AA CUFF.776 chr3 - chr3:133894884-133901845 chr3:133896918-133901845 419;200 N jcn_only_AD CUFF.759 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 806;400 K jcn_only_AA CUFF.733 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 1705;423 K cassette CUFF.733 chr3 - chr3:33614847-33617660 chr3:33614847-33615964;chr3:33615989-33617660 chr3:33615965-33615988 280;1707 N jcn_only_AD CUFF.751 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 1009;61 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 233;229 K alternative_first_exon CUFF.769 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771,chr3:125787090-125802896;chr3:125787090-125802935 chr3:125787090-125797816 chr3:125802936-125803147 chr3:125797817-125797913 5069;83 N jcn_only_AA CUFF.743 chr3 - chr3:49354912-49362134;chr3:49349088-49362134;chr3:49350047-49362134 chr3:49348171-49362134 420;11 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 29;550 N jcn_only_AD CUFF.759 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 844;362 N cassette CUFF.747 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 201;968 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 10;59 N coord_cassette CUFF.766 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125057665;chr3:125057756-125093945 chr3:125050002-125050082;chr3:125057666-125057755 27;151 N alternative_acceptor CUFF.732 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 77;240 K alternative_donor CUFF.733 chr3 - chr3:33686396-33686835 chr3:33686396-33686773 chr3:33686774-33686835 chr3:33686835-33686836 537;669 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 96;568 K intron_retention CUFF.725 chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 249;438 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 10;442 N coord_cassette CUFF.750 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 56;6280 N jcn_only_AD CUFF.727,CUFF.772 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 600;34 N intron_retention chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 361;364 N mutually_exclusive CUFF.778 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 50;993 N intron_retention CUFF.755 chr3 - chr3:107574077-107574159 chr3:107574076-107574077;chr3:107574159-107574160 319;150 N jcn_only_AA CUFF.733 chr3 - chr3:33686396-33700998 chr3:33700502-33700998 91;59 N jcn_only_AD CUFF.732,CUFF.737 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 133;31 K alternative_first_exon CUFF.727,CUFF.776 chr3 - chr3:133894884-133901845 chr3:133894884-133896784 chr3:133901846-133902003 chr3:133896785-133899850 445;7461 K intron_retention CUFF.776 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 69;96 K cassette CUFF.788 chr3 + chr3:186648624-186681572 chr3:186648624-186660135;chr3:186660216-186681572 chr3:186660136-186660215 1237;568 N jcn_only_AA CUFF.732 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 77;219 K coord_cassette CUFF.755 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814 chr3:107585499-107585600;chr3:107586158-107586424 1054;260 N cassette CUFF.743 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 114;1350 K cassette CUFF.755 chr3 - chr3:107574077-107575926 chr3:107574077-107574854;chr3:107575172-107575926 chr3:107574855-107575171 1301;1638 K intron_retention CUFF.741 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 703;718 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 129;502 N cassette CUFF.769 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 77;9076 N jcn_only_AA CUFF.727 chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 172;8 N jcn_only_AD CUFF.728 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 111;942 N alternative_acceptor CUFF.728 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 11713;1437 K coord_cassette CUFF.781 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 1590;1165 N alternative_acceptor chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 38;1095 K intron_retention CUFF.744 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 1762;510 K intron_retention CUFF.732 chr3 - chr3:33453180-33454213 chr3:33453179-33453180;chr3:33454213-33454214 281;79 N cassette CUFF.778 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 1318;2049 K alternative_donor CUFF.769 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 717;6652 N intron_retention chr3 - chr3:127294349-127294782 chr3:127294348-127294349;chr3:127294782-127294783 65;502 K alternative_last_exon CUFF.745,CUFF.752 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501902 376;2799 K intron_retention CUFF.759 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 234;33 K intron_retention CUFF.762 chr3 - chr3:120365214-120365819 chr3:120365213-120365214;chr3:120365819-120365820 327;73 N jcn_only_AD CUFF.751 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 1043;27 N jcn_only_AA CUFF.762 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 133;247 K alternative_acceptor CUFF.762 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 459;963 N alternative_donor CUFF.743,CUFF.782 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 764;421 K alternative_acceptor CUFF.790 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 110;37 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 34;35 K cassette CUFF.788 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 1401;2070 K alternative_last_exon CUFF.773,CUFF.775 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 chr3:133418749-133419168;chr3:133410567-133410675 chr3:133419726-133420037 1015;592 N alternative_first_exon CUFF.769 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332753-27333077 chr3:27332108-27332266 415;755 K intron_retention CUFF.733 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 551;320 K alternative_donor CUFF.582 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 321;1451 N alternative_donor CUFF.665 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 726;1491 N intron_retention chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 22;435 N alternative_donor CUFF.601 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 1239;342 N alternative_acceptor CUFF.637 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 833;3413 K alternative_first_exon CUFF.572,CUFF.647 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677522 chr2:676574-676858 59;447 N jcn_only_AA chr2 + chr2:220095128-220096981 chr2:220095128-220096649 181;436 K alternative_acceptor CUFF.571 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 2476;759 N jcn_only_AD CUFF.591 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 511;54 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 705;677 K alternative_acceptor CUFF.620 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 27;3180 K intron_retention CUFF.612 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 81;537 N alternative_acceptor CUFF.599 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 478;917 N alternative_donor CUFF.654 chr2 + chr2:220095073-220096649;chr2:220094623-220096649 chr2:220095128-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 970;1327 N cassette CUFF.664 chr2 - chr2:242440212-242447420 chr2:242440212-242440942;chr2:242441124-242447420 chr2:242440943-242441123 235;3902 N alternative_acceptor chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 250;985 K intron_retention CUFF.664 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 122;203 N alternative_acceptor CUFF.588 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 651;76 N alternative_donor CUFF.583 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 1606;35 N jcn_only_AA CUFF.662 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 611;37 N alternative_donor CUFF.595 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 926;307 N jcn_only_AD CUFF.619 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 39;237 N jcn_only_AD CUFF.588 chr2 + chr2:33335819-33359859 chr2:33359573-33359859 chr2:33335819-33359572 chr2:33335818-33335819 4;47 K cassette CUFF.605 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 1042;1880 K intron_retention CUFF.665 chr2 + chr2:242577140-242590424 chr2:242577139-242577140;chr2:242590424-242590425 2980;108 K alternative_acceptor CUFF.610 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 88;1809 K cassette CUFF.630 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 253;1596 N jcn_only_AA CUFF.637 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 134;24 N alternative_acceptor CUFF.653 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 755;463 N jcn_only_AA CUFF.596 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 145;133 N alternative_acceptor CUFF.620 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 543;410 N alternative_donor CUFF.649 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 503;107 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 101;144 N cassette CUFF.605 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 40;2323 K intron_retention CUFF.660 chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 130;148 N alternative_acceptor CUFF.664 chr2 - chr2:242440493-242440892;chr2:242440263-242440892 chr2:242440335-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 797;182 N alternative_donor CUFF.665 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 1774;443 K intron_retention CUFF.664 chr2 - chr2:242438590-242438671 chr2:242438589-242438590;chr2:242438671-242438672 1932;249 N jcn_only_AD CUFF.654 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 834;46 N jcn_only_AD CUFF.649 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 232;65 K intron_retention CUFF.620 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 15;525 N alternative_acceptor CUFF.637 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 4217;29 N alternative_acceptor CUFF.574,CUFF.588 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 523;266 N alternative_donor CUFF.595 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 645;588 N alternative_acceptor CUFF.574 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 548;271 N mutually_exclusive CUFF.647 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 618;146 N alternative_donor CUFF.654 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 1077;78 N coord_cassette CUFF.605 chr2 - chr2:73188378-73215386 chr2:73188378-73194365;chr2:73194453-73195576;chr2:73195663-73215386 chr2:73194366-73194452;chr2:73195577-73195662 90;513 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 54;166 K alternative_acceptor CUFF.652 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 690;212 N coord_cassette CUFF.619 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 65;3522 N alternative_donor CUFF.574 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 729;166 N alternative_donor CUFF.594,CUFF.650 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 1359;407 K intron_retention CUFF.638 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 226;319 N jcn_only_AD CUFF.654 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 764;116 K intron_retention CUFF.620 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 44;23 K intron_retention CUFF.662 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 527;123 K alternative_first_exon CUFF.641,CUFF.647 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204399834-204400152 chr2:204398088-204398186 2246;187 N mutually_exclusive CUFF.664 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440892,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440893-242441123 452;215 K intron_retention CUFF.575 chr2 + chr2:3464108-3469367 chr2:3464107-3464108;chr2:3469367-3469368 1430;364 N cassette CUFF.567 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 1208;1482 K alternative_first_exon CUFF.593 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42181156-42181482 chr2:42180867-42180943 156;24 K alternative_first_exon CUFF.587 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440493 7;149 N alternative_donor CUFF.595 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 895;338 K intron_retention CUFF.649 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 500;47 N jcn_only_AD CUFF.595 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 200;338 N coord_cassette CUFF.567 chr2 - chr2:253116-264781 chr2:253116-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 341;3408 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 189;141 K intron_retention CUFF.579 chr2 - chr2:11593849-11597304 chr2:11593848-11593849;chr2:11597304-11597305 11;780 N alternative_acceptor CUFF.638 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689247-175702064 chr2:175689246-175689247 1064;242 K intron_retention CUFF.664 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 1365;105 N jcn_only_AD CUFF.575 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 1430;184 K cassette CUFF.642 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 82;4492 N jcn_only_AA CUFF.631 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 138;72 N alternative_donor CUFF.664 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1490;565 N cassette CUFF.664 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441215-242447420 chr2:242440893-242441214 235;5803 K cassette CUFF.580 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 2046;495 N cassette CUFF.664 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 287;3011 K alternative_first_exon CUFF.583,CUFF.624 chr2 - chr2:27676381-27676848 chr2:27676381-27676496 chr2:27676849-27677029 chr2:27676497-27676726 197;6878 N alternative_acceptor CUFF.586 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 435;141 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 11;78 N alternative_acceptor CUFF.637 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 3442;804 N alternative_acceptor CUFF.635,CUFF.657 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 160;25 K alternative_last_exon CUFF.647 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204258971-204259812 chr2:204304069-204306803 608;4976 K cassette CUFF.657 chr2 + chr2:232026224-232029913 chr2:232026224-232028348;chr2:232028442-232029913 chr2:232028349-232028441 793;528 N intron_retention CUFF.594 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 67;22 N alternative_donor CUFF.630 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 359;57 N cassette CUFF.567 chr2 - chr2:253116-263210;chr2:253116-262630 chr2:253116-260084;chr2:260703-262630,chr2:260703-263210 chr2:260085-260702 427;7179 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 42;149 N jcn_only_AD CUFF.595 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 411;127 N alternative_donor CUFF.620 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 543;685 N jcn_only_AA CUFF.567 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 130;42 K intron_retention CUFF.664 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 2566;1044 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 50;228 K intron_retention CUFF.616 chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 40;40 N cassette CUFF.574 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 143;1153 K intron_retention CUFF.654 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 142;841 K intron_retention CUFF.654 chr2 + chr2:220096763-220096981 chr2:220096762-220096763;chr2:220096981-220096982 1425;167 K intron_retention CUFF.609 chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 262;438 K alternative_first_exon CUFF.575 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393377-3393550 2426;1458 N jcn_only_AD CUFF.636 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 867;99 N alternative_acceptor CUFF.636 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 1103;1263 N cassette CUFF.631 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 146;1070 K cassette CUFF.635 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 26;265 N jcn_only_AA CUFF.644,CUFF.653 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 2193;20 N alternative_acceptor CUFF.638 chr2 - chr2:175689247-175742567 chr2:175740594-175742567 chr2:175689247-175740593 chr2:175689246-175689247 104;1363 N jcn_only_AA CUFF.573,CUFF.588 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 245;144 K intron_retention CUFF.596 chr2 - chr2:61722749-61724013 chr2:61722748-61722749;chr2:61724013-61724014 168;57 N jcn_only_AA CUFF.637 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 129;29 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 3;1070 K intron_retention CUFF.654 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 233;593 K intron_retention CUFF.567 chr2 - chr2:218109-218745 chr2:218108-218109;chr2:218745-218746 51;2553 K intron_retention CUFF.649 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 405;219 N alternative_donor CUFF.644 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 2193;254 N cassette CUFF.647 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 406;797 N alternative_last_exon CUFF.654 chr2 + chr2:220094623-220096649;chr2:220094623-220094949 chr2:220094623-220097211 chr2:220096650-220096762;chr2:220094950-220095127 chr2:220097212-220097743 1283;725 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 534;137 N jcn_only_AA CUFF.624 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 523;47 N alternative_donor CUFF.619 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 10528;71 K intron_retention CUFF.624 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 799;164 K alternative_first_exon CUFF.638,CUFF.650 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031718-208032084 chr2:208030637-208030919 780;342 K jcn_only_AA CUFF.647 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 37;859 K intron_retention CUFF.624 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 1084;69 N jcn_only_AD chr2 - chr2:177042550-177042742 chr2:177042550-177042730 83;80 K jcn_only_AA CUFF.571 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 2476;759 N intron_retention chr2 - chr2:204306137-204309590 chr2:204306136-204306137;chr2:204309590-204309591 43;428 K alternative_first_exon CUFF.588 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516521-33516854 414;575 K alternative_first_exon CUFF.656 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228159985-228160032 chr2:228160925-228161242 3;112 N jcn_only_AD CUFF.665 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 149;443 N cassette CUFF.588 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 332;936 K intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 188;251 N alternative_donor CUFF.649 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 516;94 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 690;1365 K intron_retention CUFF.586 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 603;728 N coord_cassette CUFF.665 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 50;4913 N alternative_donor CUFF.567 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 2304;3026 K jcn_only_AD CUFF.571,CUFF.624 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 307;156 N cassette CUFF.586 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 487;384 K intron_retention CUFF.610 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 1228;539 N jcn_only_AD CUFF.594,CUFF.650 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 1359;67 N cassette CUFF.630 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 369;331 N jcn_only_AD CUFF.605,CUFF.624 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 901;215 K intron_retention CUFF.594 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 1359;106 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 170;252 K intron_retention CUFF.575 chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 124;136 N alternative_donor CUFF.654 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 437;718 K intron_retention CUFF.611 chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 197;206 K intron_retention CUFF.665 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 1058;175 K coord_cassette CUFF.638 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 143;838 K alternative_first_exon CUFF.610 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422970 chr2:86422045-86422140 3555;60 N jcn_only_AA CUFF.582 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 312;92 K intron_retention CUFF.596 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 528;263 K alternative_last_exon CUFF.591 chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38294125-38294384 chr2:38244329-38244977 2431;11683 K intron_retention CUFF.638 chr2 - chr2:175666541-175673632 chr2:175666540-175666541;chr2:175673632-175673633 540;412 K intron_retention CUFF.665 chr2 + chr2:242592785-242592926 chr2:242592784-242592785;chr2:242592926-242592927 1220;164 K intron_retention CUFF.665 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 792;812 N intron_retention CUFF.664 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 24;185 K alternative_last_exon CUFF.586 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732708 749;410 K alternative_first_exon CUFF.575 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383362-3383610 chr2:3383611-3383647 220;114 N alternative_donor CUFF.588 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 300;112 K intron_retention CUFF.619 chr2 + chr2:101587537-101591264 chr2:101587536-101587537;chr2:101591264-101591265 296;143 K intron_retention CUFF.652 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 135;417 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 203;2164 K coord_cassette CUFF.596 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 3795;3216 N alternative_donor CUFF.664 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1930;125 K coord_cassette CUFF.647 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 80;944 K alternative_first_exon CUFF.632 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169658891-169659183 chr2:169667837-169667935 1128;39 K intron_retention chr2 - chr2:175711686-175742567 chr2:175711685-175711686;chr2:175742567-175742568 144;266 N jcn_only_AD CUFF.649 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 176;121 K alternative_donor CUFF.650 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 2019;335 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 42;466 N mutually_exclusive CUFF.567 chr2 - chr2:234273-243502,chr2:243563-247537 chr2:234273-242797,chr2:242872-247537 chr2:243503-243562 chr2:242798-242871 223;418 N jcn_only_AD CUFF.596 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 6665;584 K alternative_first_exon CUFF.651 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089660 301;7071 K intron_retention CUFF.662 chr2 + chr2:241402000-241402763 chr2:241401999-241402000;chr2:241402763-241402764 555;336 K alternative_acceptor CUFF.620 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 366;1328 K intron_retention CUFF.614 chr2 + chr2:96192968-96194965 chr2:96192967-96192968;chr2:96194965-96194966 11;302 N coord_cassette CUFF.630 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 35;74 N alternative_donor CUFF.635 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 160;28 K intron_retention CUFF.659 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 183;590 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 436;651 N jcn_only_AD CUFF.599 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 784;521 K intron_retention CUFF.664 chr2 - chr2:242438200-242438403 chr2:242438199-242438200;chr2:242438403-242438404 1587;372 K alternative_first_exon CUFF.595 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757064-48757127 chr2:48796127-48796225 166;29 N jcn_only_AA CUFF.653 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 556;194 N alternative_donor CUFF.635 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 20;21 K intron_retention CUFF.632 chr2 + chr2:169712721-169713199 chr2:169712720-169712721;chr2:169713199-169713200 212;28 N jcn_only_AD CUFF.599 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 610;695 N cassette CUFF.638 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 149;1077 K jcn_only_AA CUFF.664 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 1070;150 N cassette CUFF.579 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 72;1137 N jcn_only_AA CUFF.588 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 313;76 N alternative_donor CUFF.582,CUFF.651 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 312;81 N cassette CUFF.665 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 201;3450 K alternative_last_exon CUFF.575,CUFF.657 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3469368-3469479 chr2:3464418-3464794 1603;4259 K intron_retention CUFF.654 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 571;110 N jcn_only_AA CUFF.596 chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 51;50 K intron_retention CUFF.657 chr2 + chr2:232028442-232029913 chr2:232028441-232028442;chr2:232029913-232029914 418;95 N cassette CUFF.630 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 19;360 K jcn_only_AD CUFF.650 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 649;154 K alternative_acceptor CUFF.664 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 1070;536 K cassette CUFF.581 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 157;1039 N jcn_only_AA CUFF.583 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 225;1258 K jcn_only_AD CUFF.593,CUFF.624 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 523;20 N coord_cassette CUFF.579 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 72;1190 K intron_retention CUFF.583 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 1533;497 N jcn_only_AD chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 203;34 K intron_retention CUFF.654 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 1295;1063 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 2686;207 N alternative_acceptor CUFF.644,CUFF.653 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 2193;20 N alternative_donor CUFF.654 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 796;359 K intron_retention CUFF.583 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 1460;134 N jcn_only_AD CUFF.654 chr2 + chr2:220095128-220096649;chr2:220095073-220096649 chr2:220094623-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 784;127 N alternative_acceptor CUFF.664 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 1365;161 K alternative_first_exon CUFF.596,CUFF.610 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61763336,chr2:61761039-61763844,chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61764696 chr2:61765627-61765851 chr2:61764697-61765418 918;302 N mutually_exclusive CUFF.641 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 371;595 K jcn_only_AA CUFF.610 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 88;1785 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 265;101 N jcn_only_AD CUFF.654 chr2 + chr2:220095128-220096649;chr2:220094623-220096649 chr2:220095073-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 563;348 N jcn_only_AD CUFF.649 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 220;77 N jcn_only_AD CUFF.649 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 263;34 K alternative_first_exon CUFF.582 chr2 - chr2:25190163-25194686 chr2:25190163-25194424,chr2:25190163-25194284 chr2:25194687-25194963 chr2:25194425-25194556 488;1026 K cassette CUFF.629 chr2 + chr2:153497429-153504309 chr2:153497429-153499932;chr2:153500059-153504309 chr2:153499933-153500058 376;833 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 77;111 K jcn_only_AA CUFF.611 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 101;196 K alternative_last_exon CUFF.632 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169713200-169713288 chr2:169712396-169712494 1236;198 K cassette CUFF.619 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 295;18533 K jcn_only_AA CUFF.609 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 1679;447 K alternative_first_exon CUFF.616 chr2 + chr2:99232810-99234630 chr2:99232997-99234630 chr2:99232634-99232809 chr2:99232821-99232996 42;526 N alternative_donor CUFF.575 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 1430;3926 N jcn_only_AD CUFF.620 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 732;232 N jcn_only_AD CUFF.620 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 357;193 K intron_retention CUFF.609 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 5002;310 N alternative_donor CUFF.612 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 182;183 N alternative_donor CUFF.620 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 150;706 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 203;566 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 102;1365 K intron_retention CUFF.659 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 219;239 K cassette CUFF.588 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 382;1863 N jcn_only_AA CUFF.636 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 867;48 N intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 403;98 N cassette CUFF.594 chr2 - chr2:46839484-46842075 chr2:46839484-46840832;chr2:46840925-46842075 chr2:46840833-46840924 113;2313 N alternative_acceptor CUFF.596 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 145;1328 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 101;3465 K intron_retention CUFF.609 chr2 - chr2:79364054-79364349 chr2:79364053-79364054;chr2:79364349-79364350 656;4651 K jcn_only_AA CUFF.620 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 366;17 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 705;698 N jcn_only_AD CUFF.624 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 799;39 K cassette CUFF.581 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 158;891 N coord_cassette CUFF.579 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 30;3175 N cassette CUFF.665 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 2981;2144 K intron_retention CUFF.616 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 54;113 K intron_retention CUFF.571 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 2371;247 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 83;534 N jcn_only_AA chr2 - chr2:242439697-242448637 chr2:242441124-242448637 160;216 N intron_retention chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 223;124 K coord_cassette CUFF.567 chr2 - chr2:234273-247537 chr2:234273-242797;chr2:242872-243502;chr2:243563-247537 chr2:242798-242871;chr2:243503-243562 2277;270 N mutually_exclusive CUFF.610 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 138;420 K intron_retention CUFF.665 chr2 + chr2:242606254-242607557 chr2:242606253-242606254;chr2:242607557-242607558 922;151 K intron_retention CUFF.652 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 424;364 K cassette CUFF.575 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 2610;157 N alternative_acceptor CUFF.583 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 225;2733 N alternative_acceptor CUFF.588 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 452;275 K intron_retention CUFF.591 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 122;2717 N coord_cassette CUFF.579 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 72;1605 K cassette CUFF.605 chr2 - chr2:73268061-73285656 chr2:73268061-73269616;chr2:73269715-73285656 chr2:73269617-73269714 1138;134 N mutually_exclusive CUFF.610 chr2 - chr2:86393768-86398330,chr2:86398469-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398468 chr2:86397872-86397964 87;420 N alternative_acceptor CUFF.628,CUFF.653 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 744;474 N jcn_only_AA CUFF.638 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 16;226 K intron_retention CUFF.596 chr2 - chr2:61729446-61749745 chr2:61729445-61729446;chr2:61749745-61749746 1335;490 K alternative_first_exon CUFF.571 chr2 - chr2:286344-287162;chr2:286344-286869 chr2:286344-287582 chr2:287163-287387;chr2:286870-286968 chr2:287583-287892 3767;1403 N coord_cassette CUFF.567 chr2 - chr2:262787-264781 chr2:262787-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 333;3624 N jcn_only_AD CUFF.665 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 485;107 N cassette CUFF.665 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 1738;3907 N cassette CUFF.620 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 457;478 N alternative_donor chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 16;1482 K alternative_last_exon CUFF.591,CUFF.628 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328738 623;903 N cassette CUFF.664 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 235;6723 N jcn_only_AA CUFF.620 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 543;410 N jcn_only_AD CUFF.601 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 447;165 K intron_retention CUFF.596 chr2 - chr2:61709675-61710091 chr2:61709674-61709675;chr2:61710091-61710092 580;92 N alternative_donor CUFF.596 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 6665;5268 K jcn_only_AD CUFF.650 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 202;601 K coord_cassette CUFF.595 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 13;1353 K coord_cassette CUFF.644 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 110;285 N alternative_donor CUFF.619 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 5970;91 N jcn_only_AD CUFF.591 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 2143;190 K mutually_exclusive CUFF.575 chr2 + chr2:3469467-3481465,chr2:3481567-3482616 chr2:3469467-3470024,chr2:3470165-3482616 chr2:3481466-3481566 chr2:3470025-3470164 1311;1256 N intron_retention chr2 + chr2:101609990-101612257 chr2:101609989-101609990;chr2:101612257-101612258 203;218 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 70;75 K intron_retention CUFF.624 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 20;77 K cassette CUFF.632 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 710;1054 N jcn_only_AA CUFF.635,CUFF.657 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 160;25 K cassette CUFF.574 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 324;941 K alternative_last_exon CUFF.616 chr2 + chr2:99232810-99234630 chr2:99232810-99232894 chr2:99234631-99235077 chr2:99232895-99232996 170;308 N jcn_only_AA CUFF.664 chr2 - chr2:242440335-242440892;chr2:242440263-242440892 chr2:242440493-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 484;92 K intron_retention chr2 + chr2:160599765-160602280 chr2:160599764-160599765;chr2:160602280-160602281 72;246 N alternative_donor CUFF.610 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 47;103 N cassette CUFF.567 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 674;1286 N alternative_last_exon CUFF.654 chr2 + chr2:220094623-220096649;chr2:220094623-220097211 chr2:220094623-220094949 chr2:220096650-220096762;chr2:220097212-220097743 chr2:220094950-220095127 876;1132 K intron_retention CUFF.577 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 475;383 N alternative_acceptor CUFF.591 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 594;6625 K cassette CUFF.567 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 1923;3273 K intron_retention CUFF.613 chr2 + chr2:88928251-88930917 chr2:88928250-88928251;chr2:88930917-88930918 66;170 K alternative_donor CUFF.650 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 936;1418 N alternative_donor CUFF.649 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 266;344 K intron_retention CUFF.583 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 4849;26 K jcn_only_AD CUFF.582 chr2 - chr2:25190163-25194424 chr2:25190163-25194284 chr2:25194285-25194424 chr2:25194424-25194425 321;569 N alternative_acceptor CUFF.605 chr2 - chr2:73172229-73188259 chr2:73184233-73188259 chr2:73172229-73184232 chr2:73172228-73172229 371;202 N jcn_only_AA CUFF.635 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 134;26 K intron_retention CUFF.654 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 342;600 N jcn_only_AD CUFF.654 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 162;718 K jcn_only_AA CUFF.624 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 307;896 N alternative_acceptor CUFF.624 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 799;784 K jcn_only_AD CUFF.610 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 2003;197 N jcn_only_AD CUFF.610 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 47;11 K intron_retention CUFF.572 chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 204;86 N alternative_donor CUFF.588 chr2 + chr2:33335819-33359859 chr2:33359573-33359859 chr2:33335819-33359572 chr2:33335818-33335819 4;71 N jcn_only_AD CUFF.620 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 150;205 N alternative_donor chr2 - chr2:61764723-61765626 chr2:61764723-61765272 chr2:61765273-61765626 chr2:61765626-61765627 50;95 N alternative_acceptor CUFF.635 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 134;35 K jcn_only_AA CUFF.624 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 20;11 N alternative_donor CUFF.599 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1412;695 N jcn_only_AD CUFF.591 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 504;61 K jcn_only_AA CUFF.634 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 chr2:169787175-169787372;chr2:169783666-169783800 146;21 K intron_retention CUFF.632 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 1236;56 K alternative_first_exon CUFF.574 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133454-1133495 chr2:1159313-1159411 1456;100 N alternative_acceptor CUFF.631 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 138;278 K jcn_only_AD CUFF.627 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 99;20 K cassette CUFF.582 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 891;377 K intron_retention CUFF.572 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 197;325 K intron_retention CUFF.605 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 615;657 N alternative_donor CUFF.630 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 308;86 N jcn_only_AD CUFF.595 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 465;73 N intron_retention chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 113;42 K intron_retention CUFF.664 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 820;356 K cassette CUFF.653 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 174;141 N jcn_only_AA CUFF.637 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 53;105 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 22;877 N alternative_donor CUFF.574 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 393;374 N jcn_only_AD CUFF.664 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1443;24 N cassette CUFF.665 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 50;3686 K cassette CUFF.610 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 60;2020 N alternative_donor CUFF.601,CUFF.612 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 468;1113 N jcn_only_AD CUFF.583 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 1606;35 K intron_retention CUFF.624 chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 523;78 N alternative_donor CUFF.599 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1204;903 N intron_retention CUFF.624 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 39;108 N jcn_only_AD CUFF.588 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 300;112 N alternative_donor CUFF.624 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 799;882 N jcn_only_AA CUFF.583 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 2001;282 K intron_retention CUFF.596 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 283;544 N alternative_acceptor CUFF.582 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 312;92 K intron_retention CUFF.596 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 5377;80 N alternative_donor CUFF.591 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 993;54 N jcn_only_AD CUFF.635 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 134;30 N alternative_acceptor CUFF.646 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 473;54 K alternative_acceptor CUFF.611 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 101;2229 K intron_retention CUFF.573 chr2 + chr2:677474-680043 chr2:677473-677474;chr2:680043-680044 255;17 N jcn_only_AD CUFF.665 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 550;42 N cassette CUFF.567 chr2 - chr2:263373-264781 chr2:263373-263563;chr2:263763-264781 chr2:263564-263762 124;3364 N alternative_acceptor CUFF.620 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 15;773 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 116;453 K cassette CUFF.605 chr2 - chr2:73188378-73195576 chr2:73188378-73194365;chr2:73194453-73195576 chr2:73194366-73194452 510;892 N jcn_only_AA CUFF.599 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 478;296 N jcn_only_AD CUFF.574 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 135;903 N alternative_donor chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 203;145 N cassette CUFF.646 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 33;543 N intron_retention chr2 - chr2:61764723-61765272 chr2:61764722-61764723;chr2:61765272-61765273 43;72 K alternative_last_exon CUFF.657 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:232003450-232003564 chr2:231973278-231973882 935;1114 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 181;170 N jcn_only_AD CUFF.591 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 2461;430 N jcn_only_AD CUFF.630 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 359;49 K intron_retention CUFF.610 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 137;1470 K alternative_first_exon CUFF.644 chr2 + chr2:191307732-191334483;chr2:191302288-191334483 chr2:191334376-191334483 chr2:191300703-191302287 chr2:191334201-191334375 5738;229 K cassette CUFF.632 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 295;1035 K intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 888;865 N alternative_donor CUFF.620 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 732;244 N alternative_donor CUFF.583 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 1397;1228 N alternative_acceptor CUFF.596 chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 51;1815 N cassette CUFF.610 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398469-86400772 chr2:86398331-86398468 22;894 N alternative_donor CUFF.582,CUFF.637 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 29;1495 N jcn_only_AD CUFF.643 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 43;79 N alternative_donor CUFF.665 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 1934;283 N jcn_only_AA CUFF.575,CUFF.620 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 357;517 N cassette CUFF.656 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 16;16 K cassette CUFF.665 chr2 + chr2:242577140-242590424 chr2:242577140-242577675;chr2:242577786-242590424 chr2:242577676-242577785 2980;329 K intron_retention CUFF.575 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 1000;144 N coord_cassette CUFF.665 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 50;1906 N mutually_exclusive CUFF.630 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 863;554 N jcn_only_AA CUFF.638 chr2 - chr2:175689247-175742567 chr2:175740594-175742567 chr2:175689247-175740593 chr2:175689246-175689247 104;66 N jcn_only_AD CUFF.612 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88893431-88894986 chr2:88894986-88894987 182;62 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 130;575 K alternative_acceptor CUFF.616 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 362;167 N intron_retention CUFF.596 chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 104;556 K alternative_first_exon CUFF.632 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711862-169711970 chr2:169712553-169712720 1341;421 N alternative_acceptor CUFF.664 chr2 - chr2:242440335-242440892;chr2:242440263-242440892 chr2:242440493-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 601;378 K intron_retention CUFF.614 chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 14;20 K alternative_last_exon CUFF.624 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936000-110936124 chr2:110936240-110936512 320;2014 N intron_retention CUFF.596 chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 434;568 N mutually_exclusive CUFF.664 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440942,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440943-242441123 452;130 K cassette CUFF.577 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 19;998 N jcn_only_AA CUFF.635 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 368;4 K cassette CUFF.650 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 699;285 K cassette CUFF.632 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 1174;189 K alternative_first_exon CUFF.605 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73226078-73226143 chr2:73221975-73222138 615;683 N alternative_acceptor CUFF.567 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 1491;2436 N cassette CUFF.579 chr2 - chr2:11587901-11593707 chr2:11587901-11591327;chr2:11591933-11593707 chr2:11591328-11591932 30;6389 N intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 348;870 K cassette CUFF.575 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 598;901 N jcn_only_AD CUFF.574 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 729;52 K intron_retention CUFF.664 chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 65;408 N mutually_exclusive CUFF.610 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 68;420 N jcn_only_AA CUFF.575 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 2634;62 K cassette CUFF.583 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 90;4596 N intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 80;506 N alternative_donor CUFF.636 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 867;438 K alternative_acceptor CUFF.624 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 20;56 N coord_cassette CUFF.635 chr2 + chr2:171300557-171371430 chr2:171300557-171319877;chr2:171319956-171323015;chr2:171323222-171355101;chr2:171355214-171356155;chr2:171356319-171371430 chr2:171319878-171319955;chr2:171323016-171323221;chr2:171355102-171355213;chr2:171356156-171356318 7;817 N alternative_acceptor CUFF.567 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 130;1143 K cassette CUFF.579 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 519;1137 N alternative_donor CUFF.620 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 357;210 K cassette CUFF.624 chr2 - chr2:110959072-110962476 chr2:110959072-110959949;chr2:110960057-110962476 chr2:110959950-110960056 783;1199 K alternative_donor CUFF.627 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 99;20 N alternative_acceptor CUFF.636 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 867;394 N mutually_exclusive CUFF.664 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440942,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440943-242441123 452;130 K cassette CUFF.591 chr2 + chr2:38177739-38201182 chr2:38177739-38178375;chr2:38179345-38201182 chr2:38178376-38179344 995;4501 N intron_retention chr2 - chr2:175711686-175779785 chr2:175711685-175711686;chr2:175779785-175779786 149;265 K cassette CUFF.611 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 167;228 N intron_retention chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 39;738 K alternative_acceptor CUFF.588 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 133;542 N alternative_acceptor CUFF.583 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 355;149 N cassette CUFF.664 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 945;2566 N jcn_only_AD CUFF.567 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 1491;913 K intron_retention CUFF.652 chr2 + chr2:219225383-219231746 chr2:219225382-219225383;chr2:219231746-219231747 152;280 N intron_retention CUFF.664 chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 106;606 N cassette CUFF.645 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 129;671 N jcn_only_AA CUFF.646 chr2 + chr2:200472851-200493786 chr2:200472851-200489254 chr2:200489255-200493786 chr2:200493786-200493787 473;54 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 79;731 K cassette CUFF.653 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 343;902 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 22;4425 K alternative_acceptor CUFF.634 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 chr2:169787175-169787372;chr2:169783666-169783800 146;33 K intron_retention CUFF.651 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 19;110 K jcn_only_AA CUFF.652 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 690;135 N alternative_donor CUFF.605,CUFF.624 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 901;501 N jcn_only_AA CUFF.635 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 163;147 K intron_retention CUFF.610 chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 148;996 K alternative_first_exon CUFF.662 chr2 + chr2:241392512-241398446,chr2:241394438-241398446,chr2:241381924-241398446,chr2:241397535-241398446;chr2:241375502-241398446 chr2:241396887-241398446 chr2:241375088-241375501 chr2:241396785-241396886 1066;422 N jcn_only_AD CUFF.567 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 2304;121 N jcn_only_AD CUFF.583 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 1397;72 N alternative_donor CUFF.649 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 545;65 K intron_retention CUFF.575 chr2 + chr2:3447663-3460920 chr2:3447662-3447663;chr2:3460920-3460921 27;91 N cassette CUFF.638 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 143;446 K alternative_first_exon CUFF.612,CUFF.664 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88913242-88913371 chr2:88895269-88895462 36;214 N jcn_only_AA CUFF.653 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 287;463 N jcn_only_AD CUFF.582,CUFF.651 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 312;81 N cassette CUFF.575 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 189;1615 K cassette CUFF.594 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 145;2570 K intron_retention CUFF.572 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 29;311 N cassette CUFF.605 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 90;550 N jcn_only_AD CUFF.601,CUFF.612 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 263;349 K cassette CUFF.629 chr2 + chr2:153476233-153481951 chr2:153476233-153479050;chr2:153479072-153481951 chr2:153479051-153479071 180;287 K intron_retention CUFF.583 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 587;901 N jcn_only_AD CUFF.601 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 569;43 N alternative_acceptor CUFF.624 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 523;92 N jcn_only_AD CUFF.635 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 160;28 N alternative_acceptor CUFF.653 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 937;281 K cassette CUFF.610 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 60;3717 N cassette CUFF.641 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 231;3228 K intron_retention CUFF.626 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 69;99 N intron_retention chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 106;195 N jcn_only_AD CUFF.591 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 115;450 N cassette CUFF.567 chr2 - chr2:234273-247537;chr2:234273-243502 chr2:234273-242797;chr2:242872-243502,chr2:242872-247537 chr2:242798-242871 2391;684 K alternative_first_exon CUFF.605 chr2 - chr2:73285726-73286222,chr2:73285726-73298168,chr2:73285726-73298732,chr2:73285726-73302708;chr2:73285726-73297588 chr2:73285726-73286136 chr2:73297589-73298430 chr2:73286137-73286318 2956;636 N jcn_only_AD CUFF.644 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 2193;18 K intron_retention chr2 - chr2:242439697-242440154 chr2:242439696-242439697;chr2:242440154-242440155 2776;336 K intron_retention CUFF.586 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 528;148 K alternative_first_exon CUFF.571 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:287163-287387;chr2:287583-287892 chr2:286870-286968 4584;586 K intron_retention CUFF.616 chr2 + chr2:99232810-99232894 chr2:99232809-99232810;chr2:99232894-99232895 293;246 N alternative_donor CUFF.587,CUFF.596 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 129;18 N jcn_only_AA CUFF.652 chr2 + chr2:220095073-220096981 chr2:220095073-220096649 217;348 N jcn_only_AA CUFF.664 chr2 - chr2:242440493-242440892;chr2:242440263-242440892 chr2:242440335-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 511;65 N jcn_only_AD CUFF.601 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 557;55 N alternative_acceptor CUFF.583 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 1606;28 K coord_cassette CUFF.574 chr2 + chr2:1168870-1215567 chr2:1168870-1204788;chr2:1204917-1206142;chr2:1206366-1215567 chr2:1204789-1204916;chr2:1206143-1206365 366;1372 K cassette CUFF.577 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 15;1476 K alternative_acceptor CUFF.634 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 5;351 N jcn_only_AD CUFF.638 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 200;52 N alternative_donor CUFF.599 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1598;509 K jcn_only_AA CUFF.634 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 5;73 K intron_retention CUFF.665 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 42;1050 N cassette CUFF.610 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 22;331 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 46;439 N cassette CUFF.572 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 84;1366 N alternative_donor CUFF.601 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 1526;55 N jcn_only_AD CUFF.646 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 473;55 N alternative_donor CUFF.591 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 801;246 N alternative_donor CUFF.654 chr2 + chr2:220095128-220096649;chr2:220095073-220096649 chr2:220094623-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 2170;127 K alternative_last_exon CUFF.574,CUFF.575 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 915;885 K intron_retention CUFF.652 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 690;377 K jcn_only_AA CUFF.583 chr2 - chr2:27676381-27676848 chr2:27676607-27676848 102;263 K intron_retention CUFF.654 chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 718;388 N intron_retention chr2 + chr2:231934883-231937046 chr2:231934882-231934883;chr2:231937046-231937047 250;357 K alternative_first_exon CUFF.571 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:286870-286968;chr2:287583-287892 chr2:287163-287387 1989;3181 K alternative_last_exon CUFF.577 chr2 - chr2:4006532-4007153 chr2:4006986-4007153 chr2:4005150-4006531 chr2:4006802-4006985 1460;560 N jcn_only_AA CUFF.588 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 220;169 N jcn_only_AA CUFF.664 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 1365;106 N mutually_exclusive CUFF.638 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 344;574 N alternative_acceptor CUFF.575 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 2634;558 K alternative_first_exon CUFF.654 chr2 + chr2:220094623-220097211 chr2:220097085-220097211 chr2:220094386-220094622 chr2:220096982-220097084 417;2453 N alternative_donor CUFF.635 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 134;288 N intron_retention chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 108;266 N jcn_only_AD CUFF.587,CUFF.596 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 129;18 K intron_retention CUFF.616 chr2 + chr2:99232810-99234630 chr2:99232809-99232810;chr2:99234630-99234631 24;49 K intron_retention CUFF.637 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 29;1683 K jcn_only_AA CUFF.616,CUFF.659 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 183;219 K intron_retention CUFF.654 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 835;458 K intron_retention CUFF.653 chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 463;277 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 419;606 N jcn_only_AA CUFF.636 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 1103;78 K alternative_first_exon CUFF.641 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177053147-177053356 chr2:177052793-177053005 479;313 N jcn_only_AA CUFF.624 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 799;54 K intron_retention CUFF.652 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 846;456 K jcn_only_AA CUFF.620 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 27;1850 N jcn_only_AA chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 250;432 N alternative_donor CUFF.591 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 2461;2349 K alternative_donor CUFF.593,CUFF.624 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 523;112 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 47;79 N cassette CUFF.575 chr2 + chr2:3469467-3482616 chr2:3469467-3470024;chr2:3470165-3482616 chr2:3470025-3470164 189;1256 K intron_retention CUFF.632 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 198;59 K intron_retention CUFF.654 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 535;756 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 12;6 N jcn_only_AD CUFF.654 chr2 + chr2:220095073-220096649;chr2:220094623-220096649 chr2:220095128-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 475;436 N cassette CUFF.605 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 269;1079 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 12;16 K intron_retention CUFF.665 chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 25;299 N jcn_only_AA CUFF.628,CUFF.653 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 657;93 N jcn_only_AA CUFF.574 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 548;144 N alternative_acceptor CUFF.635 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 163;1537 K alternative_first_exon CUFF.619 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436614-101436876 chr2:101437407-101437661 108;523 N intron_retention CUFF.567 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 18;145 N intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 66;224 N jcn_only_AD CUFF.619 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 10528;61 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 104;59 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 chr2:61765273-61765626 chr2:61765626-61765627 50;43 K intron_retention CUFF.567 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 1208;432 N jcn_only_AA CUFF.583 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 355;127 N alternative_acceptor CUFF.662 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 611;45 N mutually_exclusive CUFF.665 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 217;57 K cassette CUFF.587 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 16;196 K intron_retention CUFF.596 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 263;403 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 1725;681 N cassette CUFF.610 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 22;2527 N alternative_donor CUFF.591 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 2143;244 N cassette CUFF.567 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 2474;708 K cassette CUFF.577 chr2 - chr2:4009485-4021134 chr2:4009485-4015768;chr2:4015879-4021134 chr2:4015769-4015878 187;347 K alternative_donor CUFF.610 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 2003;242 N jcn_only_AA CUFF.638 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689247-175702064 chr2:175689246-175689247 1064;81 N jcn_only_AA CUFF.574,CUFF.588 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 523;75 N jcn_only_AA CUFF.620 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 15;88 K intron_retention CUFF.665 chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 1981;167 N alternative_donor CUFF.591 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 300;747 N intron_retention CUFF.572 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 55;211 N jcn_only_AA chr2 + chr2:3469467-3481462 chr2:3469467-3471200 77;33 N cassette CUFF.605 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 116;1398 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 107;980 K alternative_acceptor CUFF.609 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 1679;447 N jcn_only_AD CUFF.599 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 1216;89 N intron_retention chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 443;1117 K alternative_first_exon CUFF.574 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263142-1263213 chr2:1266624-1266721 564;113 K intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 1287;40 N alternative_acceptor CUFF.573,CUFF.588 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 351;376 N alternative_donor CUFF.567 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 1491;1075 K cassette CUFF.579 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 618;812 K cassette CUFF.653 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 256;286 N jcn_only_AA CUFF.586 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 435;61 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 597;112 N jcn_only_AD CUFF.664 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 1389;78 N cassette CUFF.647 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 152;1236 N alternative_first_exon CUFF.654 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220096763-220096981 chr2:220094386-220095127 chr2:220096500-220096762 911;2441 N alternative_donor CUFF.601 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 1510;71 K cassette CUFF.664 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 476;2094 N coord_cassette CUFF.665 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 1000;563 N jcn_only_AD CUFF.635 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 20;21 K jcn_only_AA CUFF.616 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 362;144 K intron_retention CUFF.578 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 287;2470 K alternative_last_exon CUFF.595 chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003753 chr2:48906474-48906742 1354;993 N alternative_acceptor CUFF.575,CUFF.620 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 357;1358 K alternative_acceptor CUFF.616,CUFF.659 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 183;782 N coord_cassette CUFF.605 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 90;2557 N jcn_only_AD CUFF.620 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 543;685 N coord_cassette CUFF.605 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73194365;chr2:73194453-73195576 chr2:73188260-73188377;chr2:73194366-73194452 269;1195 N coord_cassette CUFF.638 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 177;606 K intron_retention CUFF.609 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 374;414 K alternative_acceptor CUFF.647 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 37;859 K intron_retention CUFF.664 chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 625;771 K intron_retention CUFF.594 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 1294;74 K alternative_first_exon CUFF.575 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461392-3461464 chr2:3462134-3462232 2634;67 K alternative_last_exon CUFF.583 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672865-27672963 chr2:27675907-27676137 418;9888 N cassette CUFF.657 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 20;1268 K intron_retention CUFF.665 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 1039;72 N alternative_acceptor CUFF.664 chr2 - chr2:242440335-242440892;chr2:242440493-242440892 chr2:242440263-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 560;419 N jcn_only_AD chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 16;572 N alternative_acceptor CUFF.635 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 368;4 K intron_retention CUFF.572 chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 11;186 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 54;1534 K cassette CUFF.577 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009394-4021134 chr2:4009360-4009393 19;976 N jcn_only_AD CUFF.574 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 393;129 N jcn_only_AD CUFF.619 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 5970;91 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 50;193 K jcn_only_AA CUFF.588 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 133;542 N alternative_donor CUFF.646 chr2 + chr2:200472851-200493786 chr2:200489320-200493786 chr2:200472851-200489319 chr2:200472850-200472851 473;57 N jcn_only_AA CUFF.664 chr2 - chr2:242440335-242440892;chr2:242440493-242440892 chr2:242440263-242440892 chr2:242440263-242440334;chr2:242440335-242440492 chr2:242440262-242440263;chr2:242440334-242440335 157;419 K intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 338;1805 K coord_cassette CUFF.652 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 152;2606 K alternative_first_exon CUFF.638 chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 chr2:175712447-175712545 chr2:175712041-175712311 263;352 N jcn_only_AD CUFF.630 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 308;36 N alternative_acceptor CUFF.583 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 2001;282 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 66;170 K intron_retention CUFF.583 chr2 - chr2:27670790-27671781 chr2:27670789-27670790;chr2:27671781-27671782 235;259 N jcn_only_AA CUFF.605 chr2 - chr2:73172229-73188259 chr2:73184233-73188259 chr2:73172229-73184232 chr2:73172228-73172229 371;155 K intron_retention CUFF.583 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 20;1531 K cassette CUFF.641 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 463;435 K intron_retention CUFF.619 chr2 + chr2:101604739-101606717 chr2:101604738-101604739;chr2:101606717-101606718 595;34 K jcn_only_AD CUFF.650 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 755;48 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 217;389 K intron_retention CUFF.596 chr2 - chr2:61726049-61726847 chr2:61726048-61726049;chr2:61726847-61726848 6079;532 N jcn_only_AA CUFF.583 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 1606;28 K alternative_donor CUFF.650 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 1753;601 N alternative_donor CUFF.654 chr2 + chr2:220095128-220096649;chr2:220094623-220096649 chr2:220095073-220096649 chr2:220094623-220095072;chr2:220095073-220095127 chr2:220094622-220094623;chr2:220095072-220095073 1454;843 N jcn_only_AA CUFF.591 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 594;89 N alternative_last_exon CUFF.654 chr2 + chr2:220094623-220097211;chr2:220094623-220094949 chr2:220094623-220096649 chr2:220097212-220097743;chr2:220094950-220095127 chr2:220096650-220096762 1857;151 N jcn_only_AD CUFF.582,CUFF.637 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 29;30 N intron_retention CUFF.654 chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 127;711 N jcn_only_AA CUFF.567 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 1491;1049 K intron_retention CUFF.657 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 362;138 K alternative_first_exon CUFF.580 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535524-16535568 chr2:16536437-16536535 2693;291 K alternative_first_exon CUFF.661 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476336-237476484 chr2:237478227-237478567 129;408 N alternative_donor CUFF.638 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 200;52 K cassette CUFF.638 chr2 - chr2:175677211-175689161 chr2:175677211-175686456;chr2:175686508-175689161 chr2:175686457-175686507 910;648 N mutually_exclusive CUFF.664 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440892,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440893-242441123 452;215 K cassette CUFF.60 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 202;160 N alternative_donor chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 131;500 K alternative_last_exon CUFF.3 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512309 chr1:10502322-10502945 1302;2846 K jcn_only_AD CUFF.5 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 144;1089 K jcn_only_AA CUFF.73 chr1 - chr1:213173726-213178374 chr1:213174255-213178374 231;275 K alternative_donor CUFF.49 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 291;282 N alternative_acceptor CUFF.9 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 254;6279 N jcn_only_AD CUFF.55 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 21;20 K alternative_last_exon CUFF.80 chr1 - chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307,chr1:247320706-247322307 chr1:247301348-247302059;chr1:247285277-247287173 chr1:247319442-247320519 2112;1934 K mutually_exclusive CUFF.60 chr1 + chr1:167190196-167272710,chr1:167272812-167301706 chr1:167190196-167210643,chr1:167210848-167301706 chr1:167272711-167272811 chr1:167210644-167210847 587;660 K cassette CUFF.18 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 822;226 K alternative_first_exon CUFF.75 chr1 + chr1:224363650-224377278;chr1:224371534-224377278 chr1:224371121-224377278 chr1:224363372-224363649;chr1:224371366-224371533 chr1:224370879-224371120 445;293 K intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 144;119 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 371;190 K intron_retention CUFF.20 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 90;223 K alternative_donor CUFF.59 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 66;187 N alternative_donor CUFF.34 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 6807;843 K intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 120;733 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 33;224 N jcn_only_AD CUFF.55 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 29;94 N alternative_first_exon CUFF.47 chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930537-153930619;chr1:153930821-153931091 chr1:153930622-153930741 347;398 N cassette CUFF.25 chr1 + chr1:54360029-54370338 chr1:54360029-54360111;chr1:54360221-54370338 chr1:54360112-54360220 34;3060 K intron_retention CUFF.10 chr1 + chr1:22963196-22964102 chr1:22963195-22963196;chr1:22964102-22964103 535;140 K cassette CUFF.2 chr1 + chr1:2075781-2077465 chr1:2075781-2076827;chr1:2076951-2077465 chr1:2076828-2076950 2381;1613 N alternative_donor CUFF.54,CUFF.6 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 21;1946 N alternative_donor CUFF.74 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 79;1200 K alternative_first_exon CUFF.6 chr1 - chr1:11710892-11715696;chr1:11710892-11713447 chr1:11710892-11714375 chr1:11715697-11715938;chr1:11713448-11713650 chr1:11714376-11714739 1608;365 N jcn_only_AD CUFF.66 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200877016-200877677 chr1:200877015-200877016 489;190 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 831;1370 N cassette CUFF.39 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 228;527 K alternative_first_exon CUFF.10 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963196-22963353 1186;1143 K cassette CUFF.79 chr1 + chr1:245222761-245245384 chr1:245222761-245238875;chr1:245238914-245245384 chr1:245238876-245238913 1019;2674 N jcn_only_AA chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 185;83 K cassette CUFF.61 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 12;1360 K intron_retention CUFF.41 chr1 + chr1:145580611-145581181 chr1:145580610-145580611;chr1:145581181-145581182 137;137 K cassette CUFF.65 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 313;939 K alternative_first_exon CUFF.6 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11715697-11715938;chr1:11714376-11714739 chr1:11713448-11713650 1054;919 N alternative_donor CUFF.60 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 604;179 K alternative_first_exon CUFF.16 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655425-28655635 chr1:28656740-28656886 1418;1255 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 41;319 K jcn_only_AD CUFF.2 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 647;137 K jcn_only_AA CUFF.80 chr1 - chr1:247320520-247322307 chr1:247320706-247322307 chr1:247320520-247320705 chr1:247320519-247320520 206;89 K alternative_first_exon CUFF.22 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 25;498 N jcn_only_AD CUFF.46 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 20;63 N alternative_acceptor CUFF.40 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 18;868 K cassette CUFF.60 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 453;464 K coord_cassette CUFF.3 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 217;919 K cassette CUFF.56 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 40;119 K jcn_only_AD CUFF.59 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 66;87 N coord_cassette CUFF.19 chr1 + chr1:32541424-32557275 chr1:32541424-32542164;chr1:32542248-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542165-32542247;chr1:32542364-32542447;chr1:32542765-32542919 29;1915 K alternative_last_exon CUFF.63,CUFF.74 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838651-222841354 chr1:222838225-222838610 4539;326 N jcn_only_AD CUFF.2 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 929;65 N coord_cassette CUFF.19 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 29;2233 K intron_retention CUFF.47 chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 250;71 K alternative_donor CUFF.2 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 647;1975 K cassette CUFF.43 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 38;198 K cassette CUFF.59 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 78;137 N coord_cassette CUFF.2 chr1 + chr1:2075781-2080310 chr1:2075781-2076827;chr1:2076951-2077465;chr1:2077548-2080310 chr1:2076828-2076950;chr1:2077466-2077547 78;2268 K alternative_donor CUFF.18 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 1823;267 K jcn_only_AD CUFF.22,CUFF.42 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 120;217 K alternative_last_exon CUFF.36 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110215825-110216230;chr1:110224431-110224456 chr1:110251103-110252171 5164;327 K coord_cassette CUFF.51 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446285;chr1:156446307-156446803 chr1:156444900-156445029;chr1:156446286-156446306 100;409 K cassette CUFF.60 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 90;1213 N alternative_donor CUFF.51 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 129;74 N alternative_acceptor CUFF.24 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 115;150 K alternative_last_exon CUFF.36 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110215825-110216230;chr1:110251103-110252171 chr1:110224431-110224456 4415;1076 N alternative_donor CUFF.18 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 841;65 K intron_retention CUFF.47 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 388;162 K alternative_last_exon CUFF.80 chr1 - chr1:247320520-247322307,chr1:247320706-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247319442-247320519;chr1:247301348-247302059 chr1:247285277-247287173 3757;289 N jcn_only_AA CUFF.58 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 16;227 N cassette CUFF.2 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 231;1522 N jcn_only_AD CUFF.21 chr1 - chr1:16909254-16918341 chr1:16909254-16910088 25;3 K alternative_donor CUFF.18 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 410;1680 N alternative_acceptor chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 20;225 N alternative_donor CUFF.2 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 704;127 K alternative_last_exon CUFF.3 chr1 + chr1:10494748-10511433 chr1:10494748-10500403 chr1:10511434-10512309 chr1:10500404-10500470 707;392 K cassette CUFF.75 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 337;99 K intron_retention CUFF.74 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 143;518 K alternative_acceptor CUFF.21 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 101;224 K alternative_last_exon CUFF.60,CUFF.79 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167367231-167367370 chr1:167365770-167366003 384;97 K cassette CUFF.60 chr1 + chr1:167190196-167301706;chr1:167190196-167272710 chr1:167190196-167210643;chr1:167210848-167301706,chr1:167210848-167272710 chr1:167210644-167210847 451;845 N alternative_donor CUFF.34 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 4336;3314 N cassette CUFF.62 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 227;653 N alternative_donor CUFF.2 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 929;65 K intron_retention CUFF.24 chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 165;681 N jcn_only_AA chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 20;9 N jcn_only_AD CUFF.25 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 285;56 K intron_retention CUFF.41 chr1 + chr1:145584837-145585355 chr1:145584836-145584837;chr1:145585355-145585356 241;40 N jcn_only_AA CUFF.40 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 18;10 K jcn_only_AD CUFF.49 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 651;49 K cassette CUFF.41 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 97;2376 K intron_retention CUFF.20 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 169;300 K intron_retention CUFF.73 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 132;54 K jcn_only_AD CUFF.66 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 488;351 K intron_retention CUFF.20 chr1 - chr1:32827137-32827330 chr1:32827136-32827137;chr1:32827330-32827331 180;132 K cassette CUFF.69 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 105;84 N alternative_acceptor CUFF.58 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 769;110 N jcn_only_AA CUFF.60 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 631;143 N jcn_only_AD CUFF.34 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 467;94 N jcn_only_AD CUFF.11,CUFF.62 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 174;31 K alternative_first_exon CUFF.73 chr1 - chr1:213173726-213178374 chr1:213173726-213174127 chr1:213178375-213178796 chr1:213174128-213175613 1488;2836 K jcn_only_AA CUFF.45 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 367;37 K intron_retention CUFF.49 chr1 + chr1:155180419-155182175 chr1:155180418-155180419;chr1:155182175-155182176 109;76 N jcn_only_AD CUFF.2 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 917;115 K alternative_first_exon CUFF.75 chr1 + chr1:224371121-224377278;chr1:224371534-224377278 chr1:224363650-224377278 chr1:224370879-224371120;chr1:224371366-224371533 chr1:224363372-224363649 372;366 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 2059;417 K alternative_first_exon CUFF.21,CUFF.34 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642188 873;196 N alternative_donor CUFF.80 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 20;1975 K cassette CUFF.4 chr1 + chr1:11074023-11076900 chr1:11074023-11076179;chr1:11076312-11076900 chr1:11076180-11076311 966;218 K cassette CUFF.44 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 665;831 N jcn_only_AD CUFF.60 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 631;160 K alternative_acceptor CUFF.80 chr1 - chr1:247320520-247322307 chr1:247320706-247322307 chr1:247320520-247320705 chr1:247320519-247320520 206;205 K alternative_first_exon CUFF.19 chr1 + chr1:32538700-32540551;chr1:32539474-32540551;chr1:32538653-32540551 chr1:32538054-32540551 chr1:32539378-32539473;chr1:32538440-32538652 chr1:32537632-32538053 1407;212 K cassette CUFF.47 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 104;2013 K coord_cassette CUFF.60 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 24;285 K intron_retention CUFF.78 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 300;239 N alternative_donor CUFF.11,CUFF.62 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 174;119 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 178;1374 K intron_retention CUFF.4 chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 120;314 K jcn_only_AA CUFF.60,CUFF.63 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 33;622 N jcn_only_AD CUFF.52 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156933484-156937778 chr1:156937778-156937779 5;61 K coord_cassette CUFF.59 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 78;222 N jcn_only_AA CUFF.38 chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 95;7 N cassette CUFF.18 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 44;1303 N intron_retention chr1 + chr1:200883724-200884202 chr1:200883723-200883724;chr1:200884202-200884203 77;156 K cassette CUFF.33 chr1 - chr1:103975719-104068017 chr1:103975719-104011963;chr1:104012013-104068017 chr1:104011964-104012012 149;386 N intron_retention chr1 + chr1:110211106-110211546 chr1:110211105-110211106;chr1:110211546-110211547 271;164 K jcn_only_AD CUFF.16 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 47;778 N coord_cassette CUFF.25 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 217;1165 N cassette CUFF.25 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 356;5026 N jcn_only_AD CUFF.52 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 148;83 K cassette CUFF.73 chr1 - chr1:213181809-213188954 chr1:213181809-213186434;chr1:213186761-213188954 chr1:213186435-213186760 186;545 N cassette CUFF.19 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 107;1941 K alternative_last_exon CUFF.79 chr1 + chr1:245246991-245250034,chr1:245246991-245285221;chr1:245246991-245250546;chr1:245246991-245254795;chr1:245246991-245250061 chr1:245246991-245254328 chr1:245250547-245251236;chr1:245254796-245255091;chr1:245250062-245250160 chr1:245254329-245254794 12610;295 K intron_retention CUFF.4 chr1 + chr1:11085266-11085607 chr1:11085265-11085266;chr1:11085607-11085608 321;273 K intron_retention CUFF.38 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 1284;185 N jcn_only_AA CUFF.47 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 169;114 N alternative_donor CUFF.30 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 369;38 K intron_retention CUFF.47 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 275;104 K cassette CUFF.19 chr1 + chr1:32541424-32542363 chr1:32541424-32542164;chr1:32542248-32542363 chr1:32542165-32542247 543;223 K alternative_last_exon CUFF.79 chr1 + chr1:245246991-245250034,chr1:245246991-245285221;chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245250061 chr1:245246991-245254795 chr1:245254329-245254794;chr1:245250547-245251236;chr1:245250062-245250160 chr1:245254796-245255091 12648;257 K alternative_last_exon CUFF.72 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211599553-211599625 chr1:211570198-211570296 485;67 N jcn_only_AD CUFF.34 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 469;92 N alternative_donor CUFF.55 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 21;20 K alternative_donor CUFF.5 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 144;1673 K intron_retention CUFF.54 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 476;237 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 178;771 K alternative_first_exon CUFF.1 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1655853-1656202 chr1:1663966-1664283 1333;902 K intron_retention CUFF.36 chr1 + chr1:110211123-110211546 chr1:110211122-110211123;chr1:110211546-110211547 1469;203 K jcn_only_AA CUFF.47 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 120;250 K intron_retention CUFF.6 chr1 - chr1:11709932-11710001 chr1:11709931-11709932;chr1:11710001-11710002 198;316 K alternative_first_exon CUFF.38 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113498656;chr1:113471975-113497897 chr1:113471975-113478445 chr1:113498657-113498975;chr1:113497898-113498656 chr1:113478446-113478696 1194;2528 K alternative_acceptor CUFF.45 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 367;47 N alternative_acceptor CUFF.52 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 148;217 N mutually_exclusive CUFF.25 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 645;616 N mutually_exclusive CUFF.39 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 171;503 K alternative_donor CUFF.4 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 120;708 N intron_retention chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 39;25 K alternative_acceptor CUFF.30,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 96;57 N alternative_acceptor CUFF.60 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 631;1473 N jcn_only_AA CUFF.29 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 650;96 K alternative_last_exon CUFF.77 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613857 427;4804 N coord_cassette CUFF.19 chr1 + chr1:32541424-32542764 chr1:32541424-32542164;chr1:32542248-32542363;chr1:32542448-32542764 chr1:32542165-32542247;chr1:32542364-32542447 94;343 K cassette CUFF.64 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 528;147 N coord_cassette CUFF.4 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 30;652 K cassette CUFF.22 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 123;1507 N jcn_only_AD CUFF.2 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 704;50 K alternative_first_exon CUFF.68 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601169 chr1:205594760-205594858 chr1:205592804-205593019 268;155 K alternative_acceptor CUFF.8 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 400;33 K alternative_last_exon CUFF.36,CUFF.60 chr1 + chr1:110224457-110244273 chr1:110224457-110225828 chr1:110244274-110245163 chr1:110225829-110226290 7012;1907 K alternative_first_exon CUFF.67 chr1 - chr1:202894336-202897608 chr1:202894336-202896216 chr1:202897609-202897861 chr1:202896217-202896390 chr1:202894096-202894335 354;37 N alternative_donor CUFF.55 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 29;131 N alternative_first_exon CUFF.47 chr1 - chr1:153927643-153930820;chr1:153927643-153930621 chr1:153927643-153930536 chr1:153930821-153931091;chr1:153930622-153930741 chr1:153930537-153930619 694;51 K alternative_donor CUFF.22,CUFF.42 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 120;613 K cassette CUFF.9 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 47;996 K cassette CUFF.59 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 37;156 K alternative_last_exon CUFF.36 chr1 + chr1:110214206-110217368;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110215824 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110215825-110216230 1517;3974 K intron_retention CUFF.49 chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 59;127 K intron_retention CUFF.75 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 155;58 N jcn_only_AA CUFF.24 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 115;108 K intron_retention CUFF.47 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 120;62 K alternative_first_exon CUFF.19 chr1 + chr1:32538700-32540551;chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551 chr1:32539378-32539473;chr1:32537632-32538053 chr1:32538440-32538652 280;1339 N alternative_donor CUFF.2 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 917;115 N jcn_only_AA CUFF.36 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 224;1976 N jcn_only_AD CUFF.34 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 376;185 K alternative_first_exon CUFF.22,CUFF.73 chr1 - chr1:213186761-213188954 chr1:213186761-213188567 chr1:213188955-213189263 chr1:213188568-213188875 21;416 N alternative_acceptor CUFF.36,CUFF.55 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 1420;598 K alternative_acceptor CUFF.20 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 180;276 K intron_retention CUFF.52 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 74;141 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 49;2535 K alternative_last_exon CUFF.11 chr1 - chr1:25554727-25558594 chr1:25555615-25558594 chr1:25554609-25554726 chr1:25555419-25555614 101;1140 K coord_cassette CUFF.60 chr1 + chr1:167353189-167365522 chr1:167353189-167356417;chr1:167356485-167358824;chr1:167358999-167365522 chr1:167356418-167356484;chr1:167358825-167358998 90;655 K intron_retention CUFF.22 chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 217;193 K alternative_first_exon CUFF.65 chr1 + chr1:196789033-196918584 chr1:196913069-196918584 chr1:196788898-196789032 chr1:196912828-196913068 111;185 K jcn_only_AD CUFF.18 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 548;267 K alternative_first_exon CUFF.19 chr1 + chr1:32538700-32540551;chr1:32538653-32540551;chr1:32538054-32540551 chr1:32539474-32540551 chr1:32538440-32538652;chr1:32537632-32538053 chr1:32539378-32539473 1597;22 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 54;3107 N coord_cassette CUFF.18 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 44;321 N alternative_donor CUFF.80 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 294;1989 K alternative_acceptor CUFF.80 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 254;243 K intron_retention CUFF.64 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 158;474 K coord_cassette CUFF.60 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 274;238 K cassette CUFF.53 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 260;3610 N alternative_first_exon CUFF.73 chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941710 5;677 K jcn_only_AD CUFF.36 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 1976;30 N cassette CUFF.29 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 130;354 N alternative_donor CUFF.52 chr1 - chr1:156908306-156909339 chr1:156908306-156908940 chr1:156908941-156909339 chr1:156909339-156909340 148;182 K intron_retention CUFF.2 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 818;235 N jcn_only_AD CUFF.24 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 115;227 N cassette CUFF.62 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 123;758 K intron_retention CUFF.53 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 286;270 N alternative_acceptor chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 185;392 K alternative_first_exon CUFF.24 chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905791 chr1:53905100-53905321 326;694 N alternative_acceptor chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 168;332 K cassette CUFF.49 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 109;1391 K jcn_only_AA CUFF.4 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 692;479 K alternative_acceptor CUFF.60,CUFF.77 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 169;363 K cassette CUFF.19 chr1 + chr1:32560573-32566042 chr1:32560573-32561260;chr1:32561364-32566042 chr1:32561261-32561363 722;59 K coord_cassette CUFF.65 chr1 + chr1:196913069-196927020 chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918585-196918779;chr1:196919982-196920158 313;1193 K intron_retention CUFF.66 chr1 + chr1:200883188-200883601 chr1:200883187-200883188;chr1:200883601-200883602 79;114 K jcn_only_AA CUFF.60,CUFF.77 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 169;51 K jcn_only_AD CUFF.18 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 333;482 N alternative_acceptor CUFF.58 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 16;227 K intron_retention CUFF.12 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 1076;875 K intron_retention CUFF.22 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 498;255 K intron_retention CUFF.36 chr1 + chr1:110212686-110212796 chr1:110212685-110212686;chr1:110212796-110212797 28;94 K jcn_only_AA CUFF.60 chr1 + chr1:167301773-167343392 chr1:167301773-167334703 215;604 N mutually_exclusive CUFF.79 chr1 + chr1:245133746-245180543,chr1:245180629-245222687 chr1:245133746-245165422,chr1:245165535-245222687 chr1:245180544-245180628 chr1:245165423-245165534 3858;59 K cassette CUFF.51 chr1 - chr1:156445030-156446803 chr1:156445030-156446285;chr1:156446307-156446803 chr1:156446286-156446306 33;230 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 54;2916 K jcn_only_AD CUFF.45 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 201;149 K alternative_first_exon CUFF.11,CUFF.64 chr1 - chr1:25554727-25558594 chr1:25554727-25555488 chr1:25558595-25559077 chr1:25555489-25555614 249;363 K cassette CUFF.4 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 966;413 K alternative_first_exon CUFF.45 chr1 - chr1:151158427-151167754 chr1:151158427-151162599,chr1:151158427-151162480 chr1:151167755-151167888 chr1:151162600-151162664 84;350 K alternative_last_exon CUFF.26 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387140-54387440 392;694 K alternative_acceptor CUFF.4 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 692;2055 K alternative_last_exon CUFF.80 chr1 - chr1:247320520-247322307,chr1:247320706-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247319442-247320519;chr1:247285277-247287173 chr1:247301348-247302059 2223;1823 K intron_retention CUFF.41 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 241;478 N alternative_first_exon chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612240 chr1:120572529-120572610 47;79 N alternative_first_exon CUFF.78 chr1 + chr1:230193826-230313963 chr1:230203154-230313963 chr1:230193439-230193825 chr1:230202941-230203153 718;10 N alternative_acceptor CUFF.38 chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 95;14 N coord_cassette CUFF.25 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 139;1165 N jcn_only_AA chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 168;71 N jcn_only_AD CUFF.22 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 64;67 K intron_retention CUFF.22 chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 120;494 N alternative_donor chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 96;388 K alternative_first_exon CUFF.66 chr1 + chr1:200860830-200867434;chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860088-200860530 chr1:200863872-200864215 276;1422 K alternative_last_exon CUFF.79 chr1 + chr1:245246991-245250034,chr1:245246991-245285221;chr1:245246991-245254328;chr1:245246991-245254795;chr1:245246991-245250061 chr1:245246991-245250546 chr1:245254329-245254794;chr1:245254796-245255091;chr1:245250062-245250160 chr1:245250547-245251236 907;11998 K intron_retention CUFF.79 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 42;508 K alternative_donor CUFF.45 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 201;372 K intron_retention CUFF.47 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 266;266 K alternative_first_exon CUFF.72 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556145-211556267 chr1:211563906-211564012 621;96 N alternative_first_exon CUFF.47 chr1 - chr1:153927643-153930536;chr1:153927643-153930621 chr1:153927643-153930820 chr1:153930537-153930619;chr1:153930622-153930741 chr1:153930821-153931091 449;296 K intron_retention CUFF.58 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 769;464 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 9;441 K intron_retention CUFF.66 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 102;663 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 37;82 K jcn_only_AA CUFF.80 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 254;125 N jcn_only_AA CUFF.9 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 45;94 K alternative_first_exon CUFF.38 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113497897;chr1:113471975-113478445 chr1:113471975-113498656 chr1:113497898-113498656;chr1:113478446-113478696 chr1:113498657-113498975 3301;421 K alternative_last_exon CUFF.12 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210574-26212360 chr1:26226511-26227578 522;8047 K intron_retention CUFF.26 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 554;324 K alternative_last_exon CUFF.79 chr1 + chr1:245246991-245250034,chr1:245246991-245285221;chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245254795 chr1:245246991-245250061 chr1:245254329-245254794;chr1:245250547-245251236;chr1:245254796-245255091 chr1:245250062-245250160 12761;144 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 54;176 K alternative_first_exon CUFF.4 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072320-11072485 chr1:11072675-11072800 552;431 K alternative_acceptor CUFF.60,CUFF.63 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 33;1204 N alternative_donor CUFF.36 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 271;1577 K alternative_first_exon CUFF.64 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129235 chr1:174128025-174128496 110;2187 K intron_retention CUFF.22 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 21;489 K alternative_first_exon CUFF.76 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401076 chr1:224397943-224398114 2872;550 N cassette CUFF.78 chr1 + chr1:230203154-230338882 chr1:230203154-230313963;chr1:230314058-230338882 chr1:230313964-230314057 46;205 N alternative_acceptor CUFF.51 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 129;95 K alternative_last_exon CUFF.8 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383902 chr1:16382917-16383003 491;327 K alternative_last_exon CUFF.66 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877372 1020;532 K cassette CUFF.67 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 chr1:202860131-202861787;chr1:202863312-202863410 14;307 K intron_retention CUFF.54 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 9;224 N alternative_donor CUFF.46 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389040-153389754 chr1:153389039-153389040 20;74 K alternative_last_exon CUFF.33 chr1 - chr1:103960847-103971908 chr1:103961438-103971908 chr1:103960701-103960846 chr1:103961289-103961437 198;297 K alternative_first_exon CUFF.6 chr1 - chr1:11710892-11713447;chr1:11710892-11714375 chr1:11710892-11715696 chr1:11713448-11713650;chr1:11714376-11714739 chr1:11715697-11715938 1284;689 N alternative_acceptor CUFF.36 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 224;2001 K alternative_last_exon CUFF.31 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723031-85723154 9264;917 N cassette CUFF.60 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 10;1898 N coord_cassette CUFF.74 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 38;1112 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 145;53 N jcn_only_AA CUFF.2 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 929;79 K intron_retention CUFF.52 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 148;32 N jcn_only_AD CUFF.80 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 20;25 K jcn_only_AD CUFF.18 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 749;66 N alternative_donor CUFF.47 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 26;118 K alternative_last_exon CUFF.34 chr1 - chr1:106143382-106146784;chr1:106132408-106146784 chr1:106146181-106146784 chr1:106132302-106132407 chr1:106144679-106146180 330;7581 K alternative_acceptor CUFF.47 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 120;282 K jcn_only_AA CUFF.30,CUFF.69 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 96;28 K intron_retention CUFF.59 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 127;55 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 41;632 N coord_cassette CUFF.4 chr1 + chr1:11074023-11078789 chr1:11074023-11076179;chr1:11076312-11076900;chr1:11077065-11078789 chr1:11076180-11076311;chr1:11076901-11077064 30;335 K cassette CUFF.29 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 779;306 N alternative_donor CUFF.52 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156933484-156937778 chr1:156937778-156937779 5;698 N intron_retention chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 224;97 N alternative_acceptor CUFF.9 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 6498;35 K intron_retention CUFF.54 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 7;246 K jcn_only_AA CUFF.22 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 169;514 K intron_retention CUFF.52 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 112;20 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 240;1015 K intron_retention CUFF.13 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 248;58 N jcn_only_AD chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 131;90 N cassette CUFF.34 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 65;3947 K cassette CUFF.65 chr1 + chr1:196913069-196919981 chr1:196913069-196918584;chr1:196918780-196919981 chr1:196918585-196918779 147;813 N cassette CUFF.15 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 157;544 N jcn_only_AA CUFF.9 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 104;35 K jcn_only_AA CUFF.21 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 101;127 K intron_retention CUFF.49 chr1 + chr1:155182359-155182484 chr1:155182358-155182359;chr1:155182484-155182485 831;471 N intron_retention chr1 + chr1:145580323-145580504 chr1:145580322-145580323;chr1:145580504-145580505 141;348 N alternative_donor CUFF.2 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 818;751 K alternative_first_exon CUFF.75 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224370879-224371120;chr1:224363372-224363649 chr1:224371366-224371533 659;79 N cassette CUFF.74 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 530;148 K alternative_first_exon CUFF.47 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 437;345 N jcn_only_AD CUFF.18 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 841;36 K jcn_only_AD CUFF.42,CUFF.47 chr1 - chr1:145926413-145927113 chr1:145926413-145927048 chr1:145927049-145927113 chr1:145927113-145927114 116;83 N jcn_only_AD CUFF.60 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 604;148 K intron_retention CUFF.45 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 400;73 N jcn_only_AA CUFF.52 chr1 - chr1:156908306-156909339 chr1:156909078-156909339 chr1:156908306-156909077 chr1:156908305-156908306 148;39 K intron_retention CUFF.11 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 408;646 K alternative_first_exon CUFF.38 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113498656;chr1:113471975-113478445 chr1:113471975-113497897 chr1:113498657-113498975;chr1:113478446-113478696 chr1:113497898-113498656 3004;718 K cassette CUFF.47 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 347;363 K jcn_only_AA CUFF.20 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 180;243 N mutually_exclusive CUFF.51 chr1 - chr1:156449589-156450625,chr1:156450764-156452228 chr1:156449589-156450434,chr1:156450570-156452228 chr1:156450626-156450763 chr1:156450435-156450569 50;65 K cassette CUFF.25 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 1964;860 K cassette CUFF.60 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 298;713 K intron_retention CUFF.41 chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 77;1967 K intron_retention CUFF.2 chr1 + chr1:1991031-2066700 chr1:1991030-1991031;chr1:2066700-2066701 493;66 N mutually_exclusive CUFF.19 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 250;154 N alternative_acceptor CUFF.2 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 917;119 N coord_cassette CUFF.19 chr1 + chr1:32541424-32557275 chr1:32541424-32542164;chr1:32542248-32542363;chr1:32542448-32557275 chr1:32542165-32542247;chr1:32542364-32542447 29;264 K intron_retention CUFF.49 chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 49;173 K cassette CUFF.74 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 143;8896 N cassette CUFF.36 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 35;2475 N jcn_only_AD CUFF.54,CUFF.6 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 21;432 K alternative_donor CUFF.18 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 1947;143 N alternative_acceptor CUFF.9 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 6314;219 N alternative_donor CUFF.34 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 4347;3303 N jcn_only_AD CUFF.12,CUFF.52 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 35;13 K intron_retention CUFF.4 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 604;292 K alternative_last_exon CUFF.2 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2066701-2066786 chr1:2002738-2003062 493;2082 N alternative_donor CUFF.24 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 115;269 N cassette CUFF.79 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 227;6350 N alternative_acceptor CUFF.2 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 929;79 N jcn_only_AD CUFF.51 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 129;56 N jcn_only_AD CUFF.74 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 79;402 N jcn_only_AA CUFF.51 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 129;70 N alternative_donor CUFF.22 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 64;379 K intron_retention chr1 - chr1:114423763-114424394 chr1:114423762-114423763;chr1:114424394-114424395 284;119 K cassette CUFF.13 chr1 - chr1:27436269-27480473 chr1:27436269-27440316;chr1:27440778-27480473 chr1:27440317-27440777 36;1634 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 9;638 N intron_retention chr1 - chr1:106148712-106161480 chr1:106148711-106148712;chr1:106161480-106161481 65;354 N cassette CUFF.4 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 30;2682 N jcn_only_AA CUFF.9 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 129;10 N jcn_only_AD CUFF.80 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 294;39 K intron_retention CUFF.4 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 479;382 K intron_retention CUFF.4 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 692;593 K intron_retention CUFF.4 chr1 + chr1:11084393-11085166 chr1:11084392-11084393;chr1:11085166-11085167 514;434 K jcn_only_AA CUFF.8 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 400;33 N jcn_only_AA CUFF.58 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 769;41 K alternative_first_exon CUFF.3 chr1 + chr1:10490626-10493898 chr1:10491459-10493898 chr1:10490061-10490625 chr1:10490859-10491458 537;1258 N alternative_donor CUFF.60 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 631;160 K intron_retention CUFF.49 chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 651;147 K intron_retention chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 2916;172 K cassette CUFF.57 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 549;53 K alternative_acceptor CUFF.22 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 169;1379 N jcn_only_AD CUFF.36 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 271;1469 N intron_retention chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 168;287 K cassette CUFF.31 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 585;1303 N alternative_donor CUFF.25 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 285;99 K alternative_donor CUFF.42,CUFF.47 chr1 - chr1:145926413-145927113 chr1:145926413-145927048 chr1:145927049-145927113 chr1:145927113-145927114 116;135 N alternative_acceptor CUFF.2 chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 145;2001 N cassette CUFF.19 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 123;1263 N jcn_only_AD CUFF.2 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 818;37 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 29;1170 K coord_cassette CUFF.60 chr1 + chr1:167190196-167301706 chr1:167190196-167210643;chr1:167210848-167272710;chr1:167272812-167301706 chr1:167210644-167210847;chr1:167272711-167272811 24;227 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 32;149 N jcn_only_AD CUFF.30 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 369;9 K alternative_last_exon CUFF.24 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53902613-53904721 219;4203 K cassette CUFF.23 chr1 + chr1:47139892-47152344 chr1:47139892-47147852;chr1:47147937-47152344 chr1:47147853-47147936 544;94 N jcn_only_AD CUFF.47 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 26;52 K intron_retention CUFF.16 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 260;1837 K cassette CUFF.7 chr1 + chr1:15753781-15755088 chr1:15753781-15754393;chr1:15754506-15755088 chr1:15754394-15754505 38;141 K alternative_first_exon CUFF.2 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700 chr1:2065440-2066700 chr1:1990980-1991030 chr1:2065276-2065439 2793;160 K cassette CUFF.78 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 63;437 K intron_retention CUFF.47 chr1 - chr1:153925311-153925741 chr1:153925310-153925311;chr1:153925741-153925742 405;39 N jcn_only_AA CUFF.2 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 917;119 K jcn_only_AD CUFF.49 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 291;282 K alternative_last_exon CUFF.1 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1667256-1667412 chr1:1661685-1663411 785;2797 K jcn_only_AD CUFF.4 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 120;604 N alternative_donor CUFF.12,CUFF.52 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 35;77 N jcn_only_AA CUFF.2 chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 145;100 N alternative_acceptor CUFF.29 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 650;247 N intron_retention CUFF.52 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 83;34 K alternative_first_exon CUFF.12 chr1 - chr1:26231230-26231539,chr1:26231230-26231634,chr1:26231230-26232342;chr1:26231230-26233278 chr1:26231230-26232879 chr1:26233279-26233561 chr1:26232880-26232993 915;429 K alternative_first_exon CUFF.12 chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26230304 chr1:26219005-26219098 478;43 N jcn_only_AD chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 96;74 K cassette CUFF.51 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 100;265 K intron_retention chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 1976;102 K alternative_donor CUFF.16 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 47;1546 N jcn_only_AA CUFF.36,CUFF.55 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 1420;150 N alternative_donor CUFF.66 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200877016-200877677 chr1:200877015-200877016 489;337 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 7460;190 N cassette CUFF.2 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 78;5300 K jcn_only_AD CUFF.1059 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 85;83 N alternative_donor CUFF.1059 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 135;934 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 62;4025 K cassette CUFF.1085 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 454;1217 K intron_retention CUFF.1093 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 951;149 K alternative_first_exon CUFF.1085 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002264-131002275 chr9:131003207-131003326 1059;241 K jcn_only_AD CUFF.1066 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 17;21 N jcn_only_AD CUFF.1059 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 129;503 N alternative_donor CUFF.1094 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 419;886 K cassette CUFF.1079 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 172;1015 K alternative_donor CUFF.1078 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 165;656 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667713 chr9:125655188-125655305 83;615 N jcn_only_AD CUFF.1084 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 720;1747 K intron_retention CUFF.1084 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 663;105 N cassette CUFF.1087 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 211;2615 N coord_cassette CUFF.1084 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 105;4765 K cassette CUFF.1087 chr9 + chr9:133320383-133327610 chr9:133320383-133325658;chr9:133325721-133327610 chr9:133325659-133325720 110;2413 N alternative_donor chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 43;447 N alternative_acceptor CUFF.1088 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 38;17 K intron_retention CUFF.1084 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 2699;706 N jcn_only_AA CUFF.1088 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 38;17 K intron_retention CUFF.1086 chr9 - chr9:131483782-131483929 chr9:131483781-131483782;chr9:131483929-131483930 261;429 K alternative_acceptor CUFF.1055,CUFF.1093 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 951;128 N intron_retention chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 107;219 N alternative_donor CUFF.1083,CUFF.1088 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 70;49 N alternative_acceptor CUFF.1076 chr9 + chr9:116791253-116793083;chr9:116791253-116794927 chr9:116791253-116794924 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 620;66 K alternative_last_exon CUFF.1059 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43822518-43822779 chr9:43819610-43821458 357;6955 K alternative_acceptor CUFF.1079 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 33;968 N jcn_only_AA CUFF.1059,CUFF.1082 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 192;80 K alternative_first_exon CUFF.1084,CUFF.1086 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486273-131486498 chr9:131486231-131486271 1386;66 K cassette CUFF.1069 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 41;828 N alternative_donor CUFF.1087 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346903-133351776 chr9:133346902-133346903 1614;153 K cassette CUFF.1082 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 46;5102 N jcn_only_AD CUFF.1084 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 2369;98 K intron_retention CUFF.1052 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 567;472 K cassette CUFF.1052 chr9 - chr9:15214248-15225914 chr9:15214248-15224337;chr9:15224504-15225914 chr9:15224338-15224503 799;737 N jcn_only_AD chr9 + chr9:34991414-34993196 chr9:34992984-34993196 104;29 K cassette CUFF.1066 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 105;273 K intron_retention CUFF.1085 chr9 + chr9:131010215-131010861 chr9:131010214-131010215;chr9:131010861-131010862 853;293 N alternative_donor CUFF.1084 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 2712;689 N alternative_acceptor CUFF.1076 chr9 + chr9:116791253-116794924;chr9:116791253-116794927 chr9:116791253-116793083 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 570;116 N cassette CUFF.1084 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 135;3112 K intron_retention CUFF.1084 chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 2518;1297 N alternative_acceptor CUFF.1082 chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 1599;1423 N intron_retention CUFF.1084 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 98;191 K intron_retention CUFF.1051 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 285;151 K alternative_last_exon CUFF.1088 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730244-135730312 chr9:135736685-135736984 87;2298 N jcn_only_AA CUFF.1082 chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 1076;793 K alternative_last_exon CUFF.1079 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514157-123515589 chr9:123526360-123527125 chr9:123533626-123533795 1233;1408 K alternative_acceptor CUFF.1086 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 378;786 N alternative_acceptor CUFF.1082 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 2131;891 N jcn_only_AD chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 1845;622 K alternative_donor CUFF.1079,CUFF.1084 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 390;531 N intron_retention chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 104;135 K intron_retention CUFF.1084 chr9 - chr9:130943094-130947825 chr9:130943093-130943094;chr9:130947825-130947826 4611;50 N jcn_only_AD CUFF.1056 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 chr9:35078602-35078733 95;397 K mutually_exclusive CUFF.1085 chr9 + chr9:130985140-130988313,chr9:130988453-130996299 chr9:130985140-130986529,chr9:130986669-130996299 chr9:130988314-130988452 chr9:130986530-130986668 762;1329 K coord_cassette CUFF.1082 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 1034;1333 N alternative_first_exon CUFF.1059 chr9 + chr9:43908524-43915825 chr9:43915591-43915825 chr9:43907404-43908523 chr9:43914374-43915590 246;1554 N jcn_only_AA CUFF.1052 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 115;135 K intron_retention chr9 - chr9:130943079-130947825 chr9:130943078-130943079;chr9:130947825-130947826 403;87 K jcn_only_AD CUFF.1078 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 165;249 N alternative_donor CUFF.1084 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 10556;62 K cassette CUFF.1058 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 22;919 N cassette CUFF.1074 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 43;69 N jcn_only_AA CUFF.1059 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 198;74 N cassette CUFF.1088 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 25;99 K alternative_first_exon CUFF.1087 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355103-133355187 chr9:133355188-133355286 1661;572 K alternative_first_exon CUFF.1094 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139784995-139793164 chr9:139777163-139793164 chr9:139780487-139780731;chr9:139780901-139780993;chr9:139784801-139784994 chr9:139777119-139777162 875;288 K intron_retention CUFF.1086 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 277;56 K jcn_only_AA CUFF.1083 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 138;430 K intron_retention CUFF.1055 chr9 + chr9:34990810-34993196 chr9:34990809-34990810;chr9:34993196-34993197 100;116 K jcn_only_AD CUFF.1079,CUFF.1084 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 390;156 K mutually_exclusive CUFF.1055 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 197;1030 N jcn_only_AD CUFF.1094 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 54;886 K intron_retention CUFF.1055 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 397;129 K alternative_last_exon CUFF.1056 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35077909-35078340 chr9:35078602-35078733 135;3003 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 3969;222 K jcn_only_AA CUFF.1086 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 585;277 K cassette CUFF.1058 chr9 + chr9:35259048-35295692 chr9:35259048-35291065;chr9:35291102-35295692 chr9:35291066-35291101 37;65 K intron_retention CUFF.1079 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 33;673 K alternative_last_exon CUFF.1052 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185278-15185404 chr9:15185429-15185526 747;29 K intron_retention chr9 + chr9:43908524-43915359 chr9:43908523-43908524;chr9:43915359-43915360 121;182 K alternative_last_exon CUFF.1070 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000271-100000367 1090;64 K intron_retention CUFF.1086 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 585;472 K alternative_last_exon CUFF.1081 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906561-124906657 2205;42 N cassette CUFF.1052 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 314;1580 N cassette CUFF.1059 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 75;212 K intron_retention CUFF.1086 chr9 - chr9:131483760-131483929 chr9:131483759-131483760;chr9:131483929-131483930 38;555 N jcn_only_AA CUFF.1082 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 978;891 K alternative_last_exon CUFF.1066 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506210-86506416 chr9:86513516-86513863 82;395 N alternative_acceptor CUFF.1059 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 135;628 N jcn_only_AD CUFF.1083,CUFF.1084 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 141;205 N jcn_only_AD CUFF.1058 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 20;61 N alternative_acceptor CUFF.1076 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 25;22 N jcn_only_AA CUFF.1052 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 85;795 N jcn_only_AA CUFF.1059,CUFF.1069 chr9 + chr9:43908524-43915825;chr9:43908524-43915359 chr9:43908524-43909283 225;382 K intron_retention CUFF.1054 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 46;230 N intron_retention CUFF.1059 chr9 + chr9:43907538-43908111 chr9:43907537-43907538;chr9:43908111-43908112 192;196 N jcn_only_AA CUFF.1076 chr9 + chr9:116791253-116794924;chr9:116791253-116794927 chr9:116791253-116793083 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 570;59 N alternative_donor CUFF.1083,CUFF.1084 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 2046;8572 K cassette CUFF.1058 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 105;967 N intron_retention CUFF.1061 chr9 - chr9:46686830-46687372 chr9:46686829-46686830;chr9:46687372-46687373 67;49 N alternative_acceptor CUFF.1059 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 129;363 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 154;118 K jcn_only_AA CUFF.1086 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 299;519 K alternative_acceptor CUFF.1086 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 1126;38 N jcn_only_AA CUFF.1052 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 815;65 K cassette CUFF.1084 chr9 - chr9:130931799-130932298 chr9:130931799-130931901;chr9:130931980-130932298 chr9:130931902-130931979 1119;158 N alternative_acceptor CUFF.1052 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214248-15249685 chr9:15214247-15214248 115;1524 K jcn_only_AA CUFF.1076 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 451;121 K cassette CUFF.1093 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 1367;2073 K alternative_first_exon CUFF.1052 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15267912-15267946 chr9:15232230-15232460 795;653 N mutually_exclusive CUFF.1084 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 177;66 N jcn_only_AA CUFF.1083 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 34;389 K jcn_only_AA CUFF.1086 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 557;261 K intron_retention CUFF.1079 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 157;401 N jcn_only_AD chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 43;393 K intron_retention CUFF.1056 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 chr9:35074368-35074429;chr9:35076519-35076601 503;186 K alternative_acceptor CUFF.1086 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 824;340 K mutually_exclusive CUFF.1073 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 243;136 K alternative_last_exon CUFF.1083 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125635981-125637647 1046;4983 N jcn_only_AA CUFF.1059 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 129;287 K intron_retention CUFF.1083 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 330;339 K intron_retention CUFF.1059 chr9 + chr9:43907538-43908435 chr9:43907537-43907538;chr9:43908435-43908436 135;181 N alternative_donor CUFF.1084 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 8634;1984 K cassette CUFF.1093 chr9 + chr9:139744590-139745206 chr9:139744590-139744954;chr9:139745013-139745206 chr9:139744955-139745012 1367;1196 N jcn_only_AD CUFF.1079 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 157;173 N jcn_only_AD CUFF.1083,CUFF.1088 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 70;23 N jcn_only_AA CUFF.1059 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 135;192 K alternative_last_exon CUFF.1069,CUFF.1093 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600831 60;338 K alternative_first_exon CUFF.1082 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026792-125027217 chr9:125027962-125028059 1476;50 K alternative_first_exon CUFF.1072 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104295735-104295914 chr9:104294959-104295045 452;12 K jcn_only_AA CUFF.1055,CUFF.1093 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 951;74 K intron_retention CUFF.1086 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 93;864 N alternative_acceptor CUFF.1059 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 553;74 K cassette CUFF.1089 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 21;126 K cassette CUFF.1076 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 395;241 N intron_retention chr9 + chr9:43908524-43909283 chr9:43908523-43908524;chr9:43909283-43909284 382;254 K intron_retention CUFF.1056 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 chr9:35079148-35079238;chr9:35079438-35080108 554;4563 K alternative_first_exon CUFF.1082 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125026792-125027217 chr9:125027962-125028059 1421;44 K alternative_donor CUFF.1059 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 85;239 N jcn_only_AD CUFF.1061,CUFF.1066 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 795;67 K intron_retention CUFF.1082 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 460;287 N jcn_only_AA chr9 + chr9:43908524-43915825;chr9:43908524-43909283 chr9:43908524-43915359 486;121 K intron_retention CUFF.1084 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 622;527 N alternative_acceptor CUFF.1076 chr9 + chr9:116791253-116793083;chr9:116791253-116794924 chr9:116791253-116794927 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 182;504 N alternative_donor CUFF.1094 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 1214;91 K alternative_first_exon CUFF.1094 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780732-139793164 chr9:139780901-139780993;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780487-139780731 688;475 N alternative_donor CUFF.1061,CUFF.1066 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 795;119 N alternative_acceptor CUFF.1082 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 2314;708 N intron_retention CUFF.1084 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 1747;231 K cassette CUFF.1076 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 21;1081 K jcn_only_AA CUFF.1079 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 33;390 N jcn_only_AD CUFF.1079 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 20;1149 K jcn_only_AA CUFF.1055 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 83;792 K intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 79;3752 N alternative_donor CUFF.1084 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 1311;2090 N alternative_donor CUFF.1058 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35162303-35227930 chr9:35162302-35162303 20;163 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 509;118 N alternative_donor chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 2779;622 K intron_retention CUFF.1061 chr9 - chr9:46686830-46687553 chr9:46686829-46686830;chr9:46687553-46687554 795;46 K alternative_first_exon CUFF.1094 chr9 + chr9:139780732-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139780487-139780731;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780901-139780993 1078;85 K intron_retention CUFF.1061 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 101;1290 K alternative_acceptor CUFF.1082 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 50;821 K jcn_only_AD CUFF.1052,CUFF.1071 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 38;69 K intron_retention CUFF.1056 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 202;111 K cassette CUFF.1072 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 7;14 N alternative_donor CUFF.1059 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 129;579 N cassette CUFF.1082 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 173;1047 K alternative_acceptor CUFF.1086 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 585;931 K jcn_only_AA CUFF.1082 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 50;44 N cassette CUFF.1084 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 205;3577 K intron_retention CUFF.1087 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 110;143 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 215;1641 K alternative_first_exon CUFF.1084 chr9 - chr9:130953142-130953558,chr9:130953142-130954133,chr9:130953142-130966464;chr9:130953142-130954010 chr9:130953142-130953710 chr9:130954011-130954133 chr9:130953711-130953912 462;5237 K intron_retention CUFF.1056 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 chr9:35079148-35079532;chr9:35079728-35080108 307;1894 N jcn_only_AA CUFF.1052 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 860;20 K intron_retention CUFF.1086 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 66;444 K intron_retention CUFF.1087 chr9 + chr9:133346903-133352257 chr9:133346902-133346903;chr9:133352257-133352258 1614;123 N cassette CUFF.1084 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 40;7017 K cassette CUFF.1060 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 138;115 K alternative_acceptor CUFF.1055 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 83;1746 N alternative_donor CUFF.1079 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 157;349 N jcn_only_AA CUFF.1082 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 1684;185 K jcn_only_AA CUFF.1084 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 403;4611 K alternative_acceptor CUFF.1076 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 451;319 N jcn_only_AD CUFF.1084 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 267;79 N coord_cassette CUFF.1066 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 30;112 K cassette CUFF.1090 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 238;414 N alternative_donor CUFF.1094 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 977;328 N cassette CUFF.1094 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 159;533 K cassette CUFF.1076 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 484;38 K alternative_last_exon CUFF.1085 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017626 chr9:131016288-131016441 4412;175 N jcn_only_AD CUFF.1076 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 25;27 K intron_retention CUFF.1094 chr9 + chr9:139794973-139802521 chr9:139794972-139794973;chr9:139802521-139802522 886;182 K alternative_first_exon CUFF.1094 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139777163-139793164 chr9:139784995-139793164 chr9:139780487-139780731;chr9:139780901-139780993;chr9:139777119-139777162 chr9:139784801-139784994 848;315 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 29;199 K intron_retention CUFF.1083 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 270;222 K intron_retention CUFF.1093 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 74;153 K cassette CUFF.1073 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 197;49 N jcn_only_AD CUFF.1087 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346903-133351776 chr9:133346902-133346903 1614;50 K intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 205;1729 N alternative_donor CUFF.1056 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 chr9:35078602-35078733 95;3795 N jcn_only_AD CUFF.1084 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 284;62 N jcn_only_AD CUFF.1059 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 135;345 K cassette CUFF.1085 chr9 + chr9:131008783-131009653 chr9:131008783-131009215;chr9:131009403-131009653 chr9:131009216-131009402 1023;474 K intron_retention CUFF.1059 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 36;277 K alternative_first_exon CUFF.1064,CUFF.1072 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161598 chr9:71160845-71161032 103;125 N jcn_only_AD CUFF.1094 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 906;34 N jcn_only_AA CUFF.1059 chr9 + chr9:43908524-43909283;chr9:43908524-43915359 chr9:43908524-43915825 503;104 K alternative_last_exon CUFF.1069 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592140 894;472 K jcn_only_AD CUFF.1052 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 82;848 N jcn_only_AA CUFF.1076 chr9 + chr9:116791253-116793083;chr9:116791253-116794927 chr9:116791253-116794924 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 563;66 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 15;177 N cassette CUFF.1082 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 1034;656 N intron_retention CUFF.1079 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 173;418 K alternative_acceptor CUFF.1083 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 138;439 K cassette CUFF.1055 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 290;197 K jcn_only_AA CUFF.1086 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 780;38 N alternative_donor CUFF.1076 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 25;404 N jcn_only_AA CUFF.1076 chr9 + chr9:116791253-116793083;chr9:116791253-116794924 chr9:116791253-116794927 chr9:116793084-116794924;chr9:116794925-116794927 chr9:116794924-116794925;chr9:116794927-116794928 125;504 N cassette CUFF.1082 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 158;3330 N intron_retention chr9 + chr9:43908211-43908435 chr9:43908210-43908211;chr9:43908435-43908436 345;239 K alternative_acceptor CUFF.1084 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 403;4678 N alternative_acceptor CUFF.1059,CUFF.1082 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 192;435 N coord_cassette CUFF.1059 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 61;312 N jcn_only_AD CUFF.1094 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 920;20 N jcn_only_AA CUFF.1076 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 25;22 K intron_retention CUFF.1093 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 239;657 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 58;1491 N alternative_acceptor CUFF.1028 chr8 - chr8:80976829-80992549 chr8:80979593-80992549 chr8:80976829-80979592 chr8:80976828-80976829 957;626 K intron_retention CUFF.1019 chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 384;478 N coord_cassette CUFF.1039 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 102;883 N alternative_first_exon CUFF.1040 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542531-118543066 132;518 K alternative_last_exon CUFF.1028 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80948241-80950470 687;18668 K jcn_only_AA CUFF.1017,CUFF.1034 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 220;92 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 42;145 K alternative_donor CUFF.1028 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 636;825 K cassette CUFF.1028 chr8 - chr8:80963864-80965516 chr8:80963864-80964840;chr8:80964911-80965516 chr8:80964841-80964910 1577;1383 N intron_retention CUFF.1028 chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 100;158 K alternative_first_exon CUFF.1020 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008864 chr8:38006594-38006688 424;145 N alternative_acceptor CUFF.1022 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 8674;367 K intron_retention CUFF.1020 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 271;129 N alternative_acceptor CUFF.1024 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 99;574 N jcn_only_AD chr8 - chr8:99055004-99057574;chr8:99055004-99057054 chr8:99055004-99057170 180;366 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 2043;95 N jcn_only_AA CUFF.1047 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 1091;230 N alternative_acceptor CUFF.1035 chr8 - chr8:99054947-99057170;chr8:99055004-99057170 chr8:99037967-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 1896;40 K alternative_last_exon CUFF.1049 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824403 1536;578 N mutually_exclusive CUFF.1028 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 335;70 K intron_retention CUFF.1015 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 358;98 K alternative_donor CUFF.1012 chr8 + chr8:7123432-7124095 chr8:7123438-7124095 chr8:7123432-7123437 chr8:7123431-7123432 chr8:7124096-7125058;chr8:7123323-7123431 67;42 N jcn_only_AA CUFF.1038 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 320;58 K intron_retention CUFF.1016 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 459;191 K alternative_acceptor CUFF.1017,CUFF.1034 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 220;92 K alternative_last_exon CUFF.1047 chr8 + chr8:144356973-144357147,chr8:144356973-144358172;chr8:144356973-144358066 chr8:144356973-144357364 chr8:144358067-144359200 chr8:144357365-144357996 6543;4364 N alternative_acceptor chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 176;113 K alternative_last_exon CUFF.1039 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107691438-107691520 chr8:107617010-107617498 671;1636 K jcn_only_AA CUFF.1015 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 107;196 K intron_retention CUFF.1039 chr8 + chr8:107715319-107718609 chr8:107715318-107715319;chr8:107718609-107718610 291;178 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 1674;107 N jcn_only_AA CUFF.1022 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 3319;1045 K intron_retention chr8 + chr8:74891097-74891313 chr8:74891096-74891097;chr8:74891313-74891314 1103;591 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 109;1674 K cassette CUFF.1044 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 47;1485 K intron_retention CUFF.1037 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 532;203 N jcn_only_AA CUFF.1022 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 4047;317 K cassette CUFF.1041 chr8 - chr8:120807872-120809901 chr8:120807872-120809229;chr8:120809344-120809901 chr8:120809230-120809343 840;17 N cassette CUFF.1022 chr8 - chr8:56668971-56676494 chr8:56668971-56675193;chr8:56675588-56676494 chr8:56675194-56675587 124;6543 N jcn_only_AD CUFF.1041 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 228;82 K jcn_only_AD CUFF.1044 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 83;393 N alternative_acceptor CUFF.1016 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 1169;241 N jcn_only_AD chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 154;107 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 194;1545 K coord_cassette CUFF.1038 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 50;174 N jcn_only_AD chr8 - chr8:56675588-56676195 chr8:56675588-56675980 106;234 N alternative_acceptor chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 103;2831 N jcn_only_AD CUFF.1041 chr8 - chr8:120756634-120758944 chr8:120756634-120757120 chr8:120757121-120758944 chr8:120758944-120758945 22;131 K alternative_last_exon CUFF.1027 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401206 chr8:75276220-75277069 982;5401 K intron_retention chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 1929;247 N alternative_donor CUFF.1026 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 131;1848 N jcn_only_AD chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 531;672 N jcn_only_AA chr8 - chr8:80965666-81083659;chr8:80976829-81083659 chr8:81032120-81083659 142;267 N jcn_only_AA CUFF.1046 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 714;95 N jcn_only_AD chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 317;216 K jcn_only_AD CUFF.1028 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 636;632 N intron_retention chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 62;1374 N cassette CUFF.1039 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 133;418 N cassette CUFF.1022 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 194;3791 N alternative_donor CUFF.1038 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 320;112 N jcn_only_AD CUFF.1026 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 473;18 K intron_retention chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 60;265 N jcn_only_AA CUFF.1028 chr8 - chr8:81090515-81130703;chr8:80976829-81130703 chr8:81095374-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 94;271 N alternative_acceptor CUFF.1038 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 320;162 N alternative_donor CUFF.1026 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 1961;18 K alternative_acceptor CUFF.1020 chr8 - chr8:38001905-38003480 chr8:38002834-38003480 chr8:38001905-38002833 chr8:38001904-38001905 293;844 K intron_retention CUFF.1015 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 381;74 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 262;405 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 344;424 N alternative_donor CUFF.1026 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 684;202 N alternative_donor CUFF.1039 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 848;151 N alternative_donor CUFF.1041 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 228;115 K alternative_first_exon CUFF.1028 chr8 - chr8:80976829-81032049,chr8:80976829-81070671,chr8:80976829-81083255,chr8:80976829-81083659;chr8:80976829-81083441;chr8:80976829-80992549 chr8:80976829-81130703 chr8:81083442-81083634;chr8:80992550-80993129 chr8:81130704-81130774 5066;60 N alternative_acceptor CUFF.1026 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 1091;789 N alternative_donor CUFF.1041 chr8 - chr8:120756634-120758944 chr8:120756634-120757120 chr8:120757121-120758944 chr8:120758944-120758945 22;202 K alternative_first_exon CUFF.1013,CUFF.1019 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 30;930 N jcn_only_AD CUFF.1038 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 186;9 K intron_retention CUFF.1028 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 112;229 N jcn_only_AA CUFF.1016 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 chr8:23225948-23261586 chr8:23225947-23225948 111;162 K alternative_first_exon CUFF.1030 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192598-82192909 chr8:82193452-82193548 1336;45 N alternative_acceptor CUFF.1022 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 7749;1292 K alternative_donor CUFF.1044 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 83;1079 K intron_retention CUFF.1035 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 1595;125 N alternative_donor chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 317;1165 K jcn_only_AA CUFF.1020 chr8 - chr8:38001905-38003480 chr8:38002834-38003480 chr8:38001905-38002833 chr8:38001904-38001905 293;55 N alternative_acceptor CUFF.1035 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 118;12223 K jcn_only_AD CUFF.1014 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 58;240 N intron_retention chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 112;1136 K intron_retention CUFF.1016 chr8 - chr8:23198717-23217602 chr8:23198716-23198717;chr8:23217602-23217603 14;185 K cassette CUFF.1032 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 24;594 N alternative_acceptor CUFF.1016 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 1173;237 N jcn_only_AA CUFF.1024 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 99;156 N jcn_only_AA CUFF.1035 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 368;366 N jcn_only_AA chr8 - chr8:81032120-81083659;chr8:80965666-81083659 chr8:80976829-81083659 309;100 N jcn_only_AD CUFF.1022 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 868;335 N jcn_only_AA CUFF.1028 chr8 - chr8:80976829-80992549 chr8:80979593-80992549 chr8:80976829-80979592 chr8:80976828-80976829 957;93 N jcn_only_AA CUFF.1016 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 434;69 K cassette CUFF.1027 chr8 + chr8:75262814-75272371 chr8:75262814-75263508;chr8:75263557-75272371 chr8:75263509-75263556 79;568 K intron_retention CUFF.1020 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 99;89 K cassette CUFF.1038 chr8 + chr8:106370866-106431371 chr8:106370866-106427102;chr8:106427235-106431371 chr8:106427103-106427234 31;311 N alternative_donor CUFF.1028 chr8 - chr8:80965666-81083659 chr8:80965666-80976712 chr8:80976713-81083659 chr8:81083659-81083660 42;2828 N jcn_only_AD CUFF.1026 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 79;412 K jcn_only_AA CUFF.1018 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 215;96 N cassette CUFF.1016 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 63;707 N alternative_acceptor CUFF.1035 chr8 - chr8:99055004-99057170;chr8:99037967-99057170 chr8:99054947-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 1151;785 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 328;1418 N alternative_acceptor CUFF.1034,CUFF.1048 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 271;67 K alternative_acceptor CUFF.1020 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 271;180 N jcn_only_AA chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 176;100 K alternative_first_exon CUFF.1019,CUFF.1020 chr8 - chr8:30657272-30667505;chr8:30657272-30669835 chr8:30657272-30671402 chr8:30667506-30667832;chr8:30669836-30670159 chr8:30671403-30671929 2983;3601 K alternative_acceptor CUFF.1015 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 107;238 N cassette CUFF.1022 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 262;796 N alternative_donor CUFF.1026 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 1866;113 K alternative_first_exon CUFF.1026 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888404-74888726 1457;2746 K intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 631;1012 K jcn_only_AA CUFF.1020 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 271;99 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 99;1651 N jcn_only_AA CUFF.1041 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 228;43 K alternative_last_exon CUFF.1012 chr8 + chr8:7123432-7131717 chr8:7123432-7124095 chr8:7131718-7132778 chr8:7124096-7125155 chr8:7123323-7123431 641;860 K alternative_first_exon CUFF.1019 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30671403-30671929;chr8:30669836-30670159 chr8:30667506-30667832 4735;1849 N jcn_only_AD CUFF.1039 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 62;23 N jcn_only_AD CUFF.1038 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 320;8 N jcn_only_AD CUFF.1028 chr8 - chr8:80965666-81083659 chr8:80965666-80976712 chr8:80976713-81083659 chr8:81083659-81083660 42;1929 N jcn_only_AA CUFF.1024 chr8 + chr8:144349655-144356873 chr8:144349655-144351529 56;595 N jcn_only_AD CUFF.1041 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 14;89 N jcn_only_AA chr8 - chr8:81032120-81083659;chr8:80976829-81083659 chr8:80965666-81083659 367;42 N cassette CUFF.1028 chr8 - chr8:80956444-80963761 chr8:80956444-80962580;chr8:80962707-80963761 chr8:80962581-80962706 35;2263 K intron_retention CUFF.1020 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 55;119 K intron_retention CUFF.1019 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 203;663 N cassette CUFF.1027 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 188;1500 N jcn_only_AA CUFF.1041 chr8 - chr8:120756634-120758944 chr8:120757277-120758944 chr8:120756634-120757276 chr8:120756633-120756634 22;127 N jcn_only_AA CUFF.1028 chr8 - chr8:80976829-81130703;chr8:81095374-81130703 chr8:81090515-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 331;34 K alternative_first_exon CUFF.1019 chr8 - chr8:30657272-30667505;chr8:30657272-30671402 chr8:30657272-30669835 chr8:30667506-30667832;chr8:30671403-30671929 chr8:30669836-30670159 5450;1134 N jcn_only_AA CUFF.1016 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 262;241 N jcn_only_AA CUFF.1047 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 1302;19 N jcn_only_AA CUFF.1035 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 118;1595 K intron_retention CUFF.1028 chr8 - chr8:80954904-80956401 chr8:80954903-80954904;chr8:80956401-80956402 1232;81 K alternative_first_exon CUFF.1039 chr8 + chr8:107670314-107691437,chr8:107670414-107691437,chr8:107630412-107691437;chr8:107531368-107691437 chr8:107593480-107691437 chr8:107531171-107531367 chr8:107593128-107593479 409;1800 N jcn_only_AA CUFF.1016 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 310;193 N intron_retention CUFF.1022 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 106;219 K intron_retention CUFF.1026 chr8 + chr8:74888727-74890990 chr8:74888726-74888727;chr8:74890990-74890991 1057;123 N intron_retention chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 118;411 K alternative_last_exon CUFF.1017 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27530631 chr8:27516013-27517056 48;770 N cassette CUFF.1028 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 1176;1903 N jcn_only_AA CUFF.1026 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74888540-74890990 chr8:74890990-74890991 1091;45 N cassette CUFF.1015 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 5;895 K intron_retention CUFF.1020 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 50;145 K alternative_donor CUFF.1014 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 58;240 N cassette CUFF.1028 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 1270;2219 N alternative_acceptor CUFF.1022 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 4566;4475 K intron_retention CUFF.1028 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 1064;175 K alternative_first_exon CUFF.1045 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855377 212;1397 N alternative_acceptor CUFF.1028 chr8 - chr8:81090515-81130703;chr8:80976829-81130703 chr8:81095374-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 655;4889 N jcn_only_AD CUFF.1018,CUFF.1022 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 1007;196 K intron_retention CUFF.1020 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 293;126 N alternative_donor CUFF.1039 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 62;55 N jcn_only_AD chr8 - chr8:99055004-99057170;chr8:99055004-99057054 chr8:99055004-99057574 428;118 N alternative_acceptor CUFF.1041 chr8 - chr8:120756634-120758944 chr8:120757277-120758944 chr8:120756634-120757276 chr8:120756633-120756634 22;740 N alternative_last_exon chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552600 chr8:118542962-118543066 119;66 N alternative_donor CUFF.1022 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 1299;462 N jcn_only_AA CUFF.1035 chr8 - chr8:99054947-99057170;chr8:99055004-99057170 chr8:99037967-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 694;40 K jcn_only_AD CUFF.1020 chr8 - chr8:38001905-38003480 chr8:38001905-38002739 chr8:38002740-38003480 chr8:38003480-38003481 293;50 K intron_retention CUFF.1038 chr8 + chr8:106646586-106800945 chr8:106646585-106646586;chr8:106800945-106800946 186;40 N alternative_donor chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 1089;672 N jcn_only_AD CUFF.1039 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 848;131 K intron_retention CUFF.1027 chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 36;603 N alternative_donor chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 154;1226 N alternative_donor CUFF.1041 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 14;203 K alternative_first_exon CUFF.1023 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224493 188;67 N alternative_acceptor CUFF.1041 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 228;83 N alternative_last_exon CUFF.1047 chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74895117 chr8:74891314-74891369 105;1103 N alternative_acceptor CUFF.1016 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 chr8:23225948-23261586 chr8:23225947-23225948 111;489 N intron_retention chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 1045;296 N alternative_donor CUFF.1018,CUFF.1022 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 1134;627 K alternative_acceptor CUFF.1011 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 30;50 N jcn_only_AA CUFF.1034,CUFF.1048 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 271;48 N jcn_only_AA chr8 - chr8:56652778-56657619 chr8:56656180-56657619 249;216 K jcn_only_AD CUFF.1012 chr8 + chr8:7123432-7124095 chr8:7123438-7124095 chr8:7123432-7123437 chr8:7123431-7123432 chr8:7124096-7125058;chr8:7123323-7123431 67;42 N alternative_donor CUFF.1038 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 186;27 N alternative_acceptor CUFF.1046 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 714;442 N coord_cassette CUFF.1028 chr8 - chr8:80954904-80963486 chr8:80954904-80956401;chr8:80956444-80962580;chr8:80962707-80963486 chr8:80956402-80956443;chr8:80962581-80962706 171;723 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 109;1882 K alternative_first_exon CUFF.1028 chr8 - chr8:80976829-81032049,chr8:80976829-81070671,chr8:80976829-81083255,chr8:80976829-81083659;chr8:80976829-80992549;chr8:80976829-81130703 chr8:80976829-81083441 chr8:80992550-80993129;chr8:81130704-81130774 chr8:81083442-81083634 4939;187 K coord_cassette CUFF.1028 chr8 - chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80962580;chr8:80962707-80963761 chr8:80956402-80956443;chr8:80962581-80962706 1064;2812 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 695;1443 K jcn_only_AA CUFF.1024,CUFF.1039 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 243;757 K alternative_first_exon CUFF.1048 chr8 + chr8:144374455-144375141,chr8:144373781-144375141;chr8:144373029-144375141 chr8:144373938-144375141 chr8:144372915-144373028 chr8:144373070-144373937 344;1494 K alternative_first_exon CUFF.1015,CUFF.1033 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085486 chr8:96084945-96085148 194;31 N alternative_acceptor CUFF.1035 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 825;1111 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 1538;600 N intron_retention chr8 - chr8:81090189-81095252 chr8:81090188-81090189;chr8:81095252-81095253 39;198 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 673;95 N jcn_only_AA CUFF.1047 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 249;1072 N jcn_only_AD chr8 - chr8:99055004-99057170;chr8:99055004-99057574 chr8:99055004-99057054 484;62 K intron_retention CUFF.1028 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 1577;407 N alternative_acceptor CUFF.1022 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 6134;2907 N jcn_only_AA CUFF.1028 chr8 - chr8:81090515-81130703;chr8:81095374-81130703 chr8:80976829-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 305;60 N jcn_only_AA CUFF.1035 chr8 - chr8:99055004-99057170;chr8:99037967-99057170 chr8:99054947-99057170 chr8:99037967-99054946;chr8:99054947-99055003 chr8:99037966-99037967;chr8:99054946-99054947 406;328 K jcn_only_AA CUFF.1043 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 125;102 N jcn_only_AD CUFF.1046 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 612;64 K alternative_first_exon CUFF.1028 chr8 - chr8:80976829-81032049,chr8:80976829-81070671,chr8:80976829-81083255,chr8:80976829-81083659;chr8:80976829-81083441;chr8:80976829-81130703 chr8:80976829-80992549 chr8:81083442-81083634;chr8:81130704-81130774 chr8:80992550-80993129 620;4506 N jcn_only_AD CUFF.1026 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 430;61 N alternative_acceptor CUFF.1028 chr8 - chr8:80976829-81130703;chr8:81095374-81130703 chr8:81090515-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 4949;595 K jcn_only_AA CUFF.1011 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 30;50 N jcn_only_AA chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 103;509 N alternative_first_exon CUFF.1047 chr8 + chr8:144349655-144356873 chr8:144351691-144356873 chr8:144349511-144349654 chr8:144351468-144351690 63;2421 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 519;249 K cassette CUFF.1048 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 376;208 N jcn_only_AA CUFF.1022 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 4269;95 K cassette CUFF.1016 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 335;496 N jcn_only_AD CUFF.1026 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 684;31 K alternative_first_exon CUFF.1019,CUFF.1028 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648831 chr8:30643948-30644046 1989;1265 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 1054;516 K alternative_donor CUFF.1020 chr8 - chr8:38001905-38003480 chr8:38001905-38002739 chr8:38002740-38003480 chr8:38003480-38003481 293;505 N jcn_only_AA CUFF.1022 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 1457;2907 K intron_retention CUFF.1028 chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 63;157 K alternative_first_exon CUFF.1018 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605704 chr8:29592687-29592739 146;211 N cassette CUFF.1039 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 102;840 K alternative_first_exon CUFF.1049 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821488-144821673 24;195 N alternative_acceptor CUFF.1028 chr8 - chr8:81090515-81130703;chr8:81095374-81130703 chr8:80976829-81130703 chr8:80976829-81090514;chr8:81090515-81095373 chr8:80976828-80976829;chr8:81090514-81090515 5484;60 N mutually_exclusive CUFF.1022 chr8 - chr8:56663717-56675193,chr8:56675588-56676494 chr8:56663717-56668802,chr8:56668971-56676494 chr8:56675194-56675587 chr8:56668803-56668970 1104;396 N alternative_donor CUFF.1046 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 612;86 K intron_retention chr8 - chr8:56663717-56668802 chr8:56663716-56663717;chr8:56668802-56668803 1206;1380 K intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 243;1813 N alternative_acceptor CUFF.1016 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 478;932 N intron_retention chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 366;1555 N alternative_first_exon CUFF.1039 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726051-107726213 chr8:107738317-107738485 169;416 K alternative_last_exon CUFF.1014 chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17501080-17501679 chr8:17500122-17500642 593;2148