#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample N jcn_only_AD CUFF.321,CUFF.322 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133234-101133373 chr13:101133373-101133374 122;15 K alternative_first_exon CUFF.314 chr13 + chr13:31192194-31195900 chr13:31195377-31195900 chr13:31191830-31192193 chr13:31195367-31195376 61;4 N jcn_only_AD chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 10;25 K jcn_only_AD CUFF.307 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 485;68 K alternative_first_exon CUFF.325 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525609-103525693 chr13:103527002-103527208 29;220 K jcn_only_AA CUFF.307,CUFF.318 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 485;72 K alternative_last_exon CUFF.322 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131807-101132017 29;314 K alternative_first_exon CUFF.325 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 298;46 K jcn_only_AA CUFF.321 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 33;170 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 4;147 N alternative_donor CUFF.316 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 5;171 K alternative_acceptor CUFF.321 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 33;250 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 19;88 K alternative_donor CUFF.321 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 17;290 N alternative_acceptor chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 7;58 K cassette CUFF.307 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 58;857 N jcn_only_AA CUFF.314 chr13 + chr13:31192194-31195900 chr13:31192194-31195209 chr13:31195210-31195900 chr13:31195900-31195901 20;4 K jcn_only_AA CUFF.313 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 33;18 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 19;104 N jcn_only_AD chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 4;163 N alternative_last_exon CUFF.313 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 chr13:25525535-25525626 chr13:25541414-25541591 27;82 K jcn_only_AA CUFF.313 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 17;60 K alternative_first_exon CUFF.320,CUFF.321 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493532-78493903 chr13:78493142-78493374 35;18 K intron_retention CUFF.307 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 373;33 N alternative_first_exon CUFF.311 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542624 chr13:25541530-25541608 52;17 N alternative_acceptor CUFF.311 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 8;239 K alternative_first_exon CUFF.307 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 43;264 K cassette CUFF.307 chr13 + chr13:21179245-21189931 chr13:21179245-21188495;chr13:21188575-21189931 chr13:21188496-21188574 52;39 K jcn_only_AA CUFF.320 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 8;18 N jcn_only_AD CUFF.316 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 5;15 N jcn_only_AA CUFF.311 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 8;82 K jcn_only_AD CUFF.321 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 17;192 N alternative_donor CUFF.321,CUFF.322 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133234-101133373 chr13:101133373-101133374 122;16 K cassette CUFF.307 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 7;75 K jcn_only_AA CUFF.318 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 68;120 K alternative_acceptor CUFF.320 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 8;483 N alternative_donor chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 4;399 N alternative_acceptor CUFF.314 chr13 + chr13:31192194-31195900 chr13:31192194-31195209 chr13:31195210-31195900 chr13:31195900-31195901 20;6 K jcn_only_AA CUFF.307 chr13 + chr13:21141396-21148518 chr13:21141396-21141808 19;84 N alternative_donor chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 10;112 N jcn_only_AA chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 7;6 N cassette CUFF.254 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 6;1738 K alternative_last_exon CUFF.266 chr12 - chr12:25655973-25656671,chr12:25652931-25656671,chr12:25650729-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25562237-25562364 chr12:25629040-25629394 89;953 K jcn_only_AA CUFF.261 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 17;24 N alternative_first_exon CUFF.267 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26205930-26208168;chr12:26164755-26208168 chr12:26148064-26208168 chr12:26205407-26205929;chr12:26164619-26164754 chr12:26147970-26148063 189;21 K intron_retention CUFF.286 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 chr12:56578814-56578895;chr12:56579939-56580024 37;66 K intron_retention CUFF.286 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 chr12:56578814-56578876;chr12:56579939-56580024 75;42 K alternative_first_exon CUFF.301 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113623083-113623339 chr12:113621528-113621650 63;33 N alternative_donor chr12 + chr12:21229504-21279041;chr12:21242864-21279041 chr12:21272562-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 386;119 K cassette CUFF.286 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 chr12:56575788-56575863;chr12:56577959-56578028 99;386 K alternative_first_exon CUFF.246 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:336731-336834 chr12:335819-336188 54;185 K intron_retention CUFF.290 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 32;132 N alternative_donor CUFF.295 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 133;131 N jcn_only_AA CUFF.288 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 40;116 N jcn_only_AD CUFF.298 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 59;26 K intron_retention CUFF.286 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 chr12:56574761-56574885;chr12:56575266-56575381 20;306 N alternative_donor chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 25;47 K cassette CUFF.286 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 chr12:56565055-56565216;chr12:56566212-56566274 4;153 N coord_cassette CUFF.260 chr12 + chr12:13349807-13366412 chr12:13349807-13352111;chr12:13352468-13364402;chr12:13364523-13366412 chr12:13352112-13352467;chr12:13364403-13364522 47;985 K alternative_first_exon CUFF.299 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102874097-102874378 chr12:102872265-102872485 74;1093 N intron_retention chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 27;103 K mutually_exclusive CUFF.263 chr12 - chr12:22666314-22672048,chr12:22672174-22676359 chr12:22666314-22670919,chr12:22671072-22676359 chr12:22672049-22672173 chr12:22670920-22671071 147;102 N alternative_donor CUFF.276 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52403024-52404346 chr12:52403023-52403024 35;26 K jcn_only_AA CUFF.302 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 42;16 K intron_retention CUFF.295 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 39;146 K intron_retention CUFF.299 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 40;6 K cassette CUFF.273 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 chr12:49334731-49334971;chr12:49349881-49349980 41;222 K intron_retention CUFF.281 chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 180;70 N jcn_only_AD CUFF.302,CUFF.303 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 77;15 N coord_cassette CUFF.295 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 68;608 K alternative_first_exon CUFF.252 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444640-4444817 17;205 K intron_retention CUFF.260 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 166;375 N jcn_only_AA CUFF.273 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49334972-49351092 chr12:49351093-49351334 184;49 N alternative_acceptor CUFF.288 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 278;29 N alternative_first_exon CUFF.267 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26148064-26208168;chr12:26205930-26208168 chr12:26164755-26208168 chr12:26147970-26148063;chr12:26205407-26205929 chr12:26164619-26164754 129;81 N coord_cassette CUFF.295 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 47;476 N alternative_acceptor CUFF.303 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 14;143 N coord_cassette CUFF.295 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 87;216 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 17;134 K cassette CUFF.273 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 chr12:49334731-49334971;chr12:49349881-49349980 41;16 K intron_retention CUFF.297 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 14;11 N jcn_only_AA CUFF.273 chr12 - chr12:49335361-49351092;chr12:49334972-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49351093-49351334 224;9 N jcn_only_AA CUFF.273 chr12 - chr12:49334972-49350767 chr12:49350134-49350767 20;14 K intron_retention CUFF.298 chr12 - chr12:77256740-77256955 chr12:77256739-77256740;chr12:77256955-77256956 22;36 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 48;9 N jcn_only_AA CUFF.288 chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 145;11 N cassette CUFF.266 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 14;616 N jcn_only_AD CUFF.272 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 19;38 K alternative_last_exon CUFF.258 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743303 chr12:11716635-11717337 35;36 N coord_cassette CUFF.266 chr12 - chr12:25699489-25801427 chr12:25699489-25700158;chr12:25700286-25702259;chr12:25702481-25801427 chr12:25700159-25700285;chr12:25702260-25702480 16;207 N jcn_only_AA CUFF.273 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49334972-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49351093-49351334 144;89 N intron_retention chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 71;468 K cassette CUFF.253 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 279;148 N cassette CUFF.295 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 196;673 K cassette CUFF.253 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665717-4668022 chr12:4665519-4665716 60;623 N jcn_only_AD chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 345;55 N coord_cassette CUFF.270 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 6;264 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 39;93 K cassette CUFF.288 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 49;314 K jcn_only_AA CUFF.303 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 27;262 K jcn_only_AD CUFF.271 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 222;63 K cassette CUFF.246 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 163;619 N jcn_only_AA CUFF.281 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 419;12 K intron_retention chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 38;8 N jcn_only_AD CUFF.263 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 135;22 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 40;63 N alternative_first_exon CUFF.260 chr12 + chr12:13349807-13366614 chr12:13366510-13366614 chr12:13349582-13349806 chr12:13366304-13366509 63;700 N alternative_donor CUFF.298 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 59;103 N alternative_donor CUFF.272 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 19;306 K cassette CUFF.254 chr12 - chr12:7090345-7090971 chr12:7090345-7090755;chr12:7090794-7090971 chr12:7090756-7090793 704;287 K cassette CUFF.263 chr12 - chr12:22659754-22666227 chr12:22659754-22665580;chr12:22665614-22666227 chr12:22665581-22665613 116;57 N alternative_donor CUFF.263 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 135;67 N cassette CUFF.271 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 155;141 N intron_retention chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 6;10 N jcn_only_AD CUFF.248 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 148;38 N jcn_only_AA CUFF.273 chr12 - chr12:49350319-49351092;chr12:49334972-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49351093-49351334 168;65 K intron_retention CUFF.290 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 46;529 N jcn_only_AA CUFF.303 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 14;143 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 15;96 N jcn_only_AD CUFF.248 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 108;78 K jcn_only_AD CUFF.298 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 48;93 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 36;659 K intron_retention CUFF.290 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 22;55 K alternative_donor CUFF.297 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 27;43 K alternative_donor CUFF.271 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 222;162 N alternative_donor chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 174;331 K jcn_only_AA CUFF.281 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 161;187 N cassette CUFF.272 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48398019 chr12:48393702-48393908 5;126 K cassette CUFF.278 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 chr12:52961953-52962173;chr12:52963643-52963768 4;49 N cassette CUFF.260 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 47;380 K cassette CUFF.279 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 47;117 K coord_cassette CUFF.271 chr12 - chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619;chr12:48293742-48298737 chr12:48276477-48276557;chr12:48293620-48293741 73;208 K cassette CUFF.256 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 9;40 K intron_retention CUFF.281 chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 211;80 K intron_retention chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 115;439 N alternative_acceptor CUFF.280 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 59;6 N alternative_acceptor CUFF.301 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 73;11 K cassette CUFF.263 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 22;378 N cassette CUFF.270 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 7;180 K alternative_first_exon CUFF.252 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430371-4430469 chr12:4433831-4433929 29;34 K cassette CUFF.297 chr12 + chr12:72083485-72090215 chr12:72083485-72084118;chr12:72084211-72090215 chr12:72084119-72084210 53;168 K jcn_only_AA CUFF.279 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 13;47 N coord_cassette CUFF.289 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 61;112 N alternative_acceptor CUFF.288 chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 194;113 N mutually_exclusive CUFF.254 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 15;2074 N intron_retention CUFF.298 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 26;82 K alternative_donor CUFF.298 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 48;105 K intron_retention CUFF.288 chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 14;134 K intron_retention CUFF.286 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 chr12:56558087-56558152;chr12:56558432-56558515 4;17 N mutually_exclusive CUFF.271 chr12 - chr12:48272899-48293619,chr12:48293742-48298737 chr12:48272899-48276476,chr12:48276558-48298737 chr12:48293620-48293741 chr12:48276477-48276557 227;18 K cassette CUFF.253 chr12 + chr12:4653071-4655474;chr12:4653071-4654947 chr12:4653071-4654384;chr12:4654479-4655474,chr12:4654479-4654947 chr12:4654385-4654478 245;189 K alternative_donor CUFF.276 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 74;49 K cassette CUFF.273 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 chr12:49333438-49333562;chr12:49334731-49334971 53;221 K intron_retention CUFF.297 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 27;18 K coord_cassette CUFF.253 chr12 + chr12:4653071-4655474 chr12:4653071-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 222;143 K coord_cassette CUFF.246 chr12 - chr12:347177-369016 chr12:347177-347336;chr12:347510-351779;chr12:351921-352844;chr12:352980-369016 chr12:347337-347509;chr12:351780-351920;chr12:352845-352979 43;918 K intron_retention CUFF.254 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 154;57 N cassette CUFF.295 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 243;246 K intron_retention CUFF.281 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 300;25 K intron_retention CUFF.280 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 85;21 K jcn_only_AD CUFF.297 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 27;14 K cassette CUFF.299 chr12 - chr12:102796345-102813286 chr12:102796345-102811732;chr12:102811782-102813286 chr12:102811733-102811781 543;151 K jcn_only_AD CUFF.305 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 178;13 N jcn_only_AD CUFF.295 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 133;106 K cassette CUFF.280 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 11;238 K intron_retention CUFF.303 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 154;24 K intron_retention CUFF.276 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 187;37 K jcn_only_AA CUFF.298 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 59;22 K intron_retention CUFF.258 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 80;14 N jcn_only_AD CUFF.246,CUFF.280 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 59;3 N jcn_only_AD CUFF.288 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 141;39 K jcn_only_AA CUFF.267 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 46;21 K intron_retention CUFF.246 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 76;188 N cassette CUFF.295 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 16;649 K cassette CUFF.260 chr12 + chr12:13349807-13364402 chr12:13349807-13352111;chr12:13352468-13364402 chr12:13352112-13352467 184;908 N alternative_acceptor CUFF.267 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 243;56 K cassette CUFF.246 chr12 - chr12:347177-351779 chr12:347177-347336;chr12:347510-351779 chr12:347337-347509 142;456 N alternative_donor CUFF.301 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 171;53 K intron_retention CUFF.281 chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 7;62 N coord_cassette CUFF.295 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 47;316 N intron_retention CUFF.303 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 15;62 N jcn_only_AD chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 25;39 N jcn_only_AD chr12 + chr12:21229504-21279041;chr12:21242864-21279041 chr12:21272562-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 386;14 K cassette CUFF.246 chr12 - chr12:332401-333157 chr12:332401-332911;chr12:333012-333157 chr12:332912-333011 64;36 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 61;119 K coord_cassette CUFF.289 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 16;145 N jcn_only_AD CUFF.271,CUFF.288 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 158;22 N jcn_only_AD CUFF.248 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 116;70 N jcn_only_AA CUFF.267 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 48;396 K intron_retention CUFF.288 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 116;107 N coord_cassette CUFF.295 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 91;296 N jcn_only_AA CUFF.273 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49334972-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49351093-49351334 212;21 K alternative_donor CUFF.305 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 178;13 N alternative_donor CUFF.290 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 21;274 N cassette CUFF.295 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 25;446 N intron_retention chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 107;42 K cassette CUFF.281 chr12 + chr12:53853188-53854798 chr12:53853188-53854114;chr12:53854210-53854798 chr12:53854115-53854209 252;56 K coord_cassette CUFF.246 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 43;586 K intron_retention CUFF.257 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 119;55 K intron_retention CUFF.254 chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 704;50 K alternative_acceptor CUFF.303 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 27;341 N alternative_donor CUFF.261 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 16;13 K cassette CUFF.286 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 chr12:56566369-56566488;chr12:56567480-56567633 55;51 K alternative_acceptor CUFF.279 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 13;59 K cassette CUFF.286 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 chr12:56556767-56557549;chr12:56558432-56558515 41;25 K intron_retention CUFF.288 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 171;44 N coord_cassette CUFF.295 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 5;286 N intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 9;11 N cassette CUFF.253 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 164;617 K cassette CUFF.259 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 92;25 N cassette CUFF.281 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 280;343 N cassette CUFF.266 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 16;696 K alternative_acceptor CUFF.302 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 42;48 N jcn_only_AA CUFF.301 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 73;11 N jcn_only_AD CUFF.253 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 355;70 K cassette CUFF.301 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 144;163 N coord_cassette CUFF.290 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 17;98 K alternative_last_exon CUFF.252,CUFF.267 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26221856 440;216 N mutually_exclusive CUFF.263 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 248;26 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 40;16 K alternative_first_exon CUFF.248 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463;chr12:1726310-1740463 chr12:1640117-1740463 chr12:1639057-1639175;chr12:1726061-1726309 chr12:1639918-1640116 162;170 N coord_cassette CUFF.295 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 13;193 N jcn_only_AA CUFF.267 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 243;9 N cassette CUFF.266 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 8;326 N coord_cassette CUFF.295 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 13;350 N alternative_first_exon CUFF.289 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853833-57853984 chr12:57854235-57854338 15;50 N coord_cassette CUFF.295 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 91;281 N alternative_donor CUFF.246,CUFF.280 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 59;3 K alternative_first_exon CUFF.248 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1726310-1740463 chr12:1639057-1639175;chr12:1639918-1640116 chr12:1726061-1726309 236;96 N cassette CUFF.295 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 20;417 N jcn_only_AD chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 69;331 N coord_cassette CUFF.295 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 7;657 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 40;287 N alternative_acceptor CUFF.288 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 156;151 K alternative_acceptor CUFF.286 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 75;76 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 22;131 N jcn_only_AD CUFF.290 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 21;233 K alternative_acceptor CUFF.298 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 59;993 K intron_retention CUFF.254 chr12 - chr12:7086908-7087502 chr12:7086907-7086908;chr12:7087502-7087503 518;41 K alternative_acceptor CUFF.267 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 46;68 K alternative_first_exon CUFF.254 chr12 - chr12:7092701-7125577 chr12:7092701-7108732 chr12:7125578-7125781 chr12:7108733-7108733 1445;12 K alternative_acceptor CUFF.305 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 15;102 K alternative_first_exon CUFF.285 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54394071-54394510 11;79 K cassette CUFF.281 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 21;659 N cassette CUFF.290 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 17;242 N alternative_first_exon CUFF.267 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164619-26164754 9;189 N coord_cassette CUFF.295 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 58;481 K jcn_only_AD CUFF.302,CUFF.303 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 12;33 K alternative_first_exon CUFF.267 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205407-26205929 86;1206 K alternative_first_exon CUFF.281 chr12 + chr12:53846161-53848509;chr12:53846760-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53846538-53846759;chr12:53846760-53847067 chr12:53837175-53837557 360;13 N jcn_only_AA CUFF.288 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 141;15 N alternative_acceptor chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 71;170 N jcn_only_AA CUFF.266 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 14;289 N jcn_only_AD CUFF.261 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 16;7 N jcn_only_AD CUFF.272 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 9;4 N alternative_acceptor CUFF.261 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 490;672 K intron_retention CUFF.305 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 15;125 N coord_cassette CUFF.295 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 68;593 K alternative_last_exon CUFF.248,CUFF.260 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756409 chr12:1748850-1749142 404;342 N intron_retention CUFF.253 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 10;199 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 18;147 K intron_retention CUFF.276 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 34;64 K cassette CUFF.281 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 211;264 K cassette CUFF.279 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 47;67 K alternative_first_exon CUFF.281 chr12 + chr12:53846161-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53846760-53847067;chr12:53837175-53837557 chr12:53846538-53846759 256;117 K intron_retention CUFF.290 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 34;264 N mutually_exclusive CUFF.281 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 509;21 N alternative_donor chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 450;55 N cassette CUFF.290 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 123;70 K coord_cassette CUFF.281 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 37;488 N cassette CUFF.295 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 312;306 N cassette CUFF.271 chr12 - chr12:48276558-48298737;chr12:48272899-48298737 chr12:48276558-48293619,chr12:48272899-48293619;chr12:48293742-48298737 chr12:48293620-48293741 79;358 N cassette CUFF.295 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 197;477 N jcn_only_AA CUFF.288 chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 142;14 N coord_cassette CUFF.254 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 91;2485 N coord_cassette CUFF.253 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 25;157 K jcn_only_AA CUFF.305 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 15;5 N alternative_acceptor CUFF.248 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 107;112 K intron_retention CUFF.275 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 6;59 K alternative_first_exon CUFF.267 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26111962-26112081 chr12:26126681-26126820 74;57 K jcn_only_AA CUFF.246 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 35;82 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 13;625 N alternative_donor CUFF.303 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 59;6 N alternative_acceptor CUFF.288 chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 293;14 K alternative_acceptor CUFF.246 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 35;92 N alternative_donor CUFF.272 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 53;7 K intron_retention CUFF.279 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 12;98 K intron_retention chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 84;43 N coord_cassette CUFF.295 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 5;89 K alternative_acceptor CUFF.290 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 34;761 K cassette CUFF.290 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 385;327 N jcn_only_AD CUFF.303 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 59;4 K intron_retention CUFF.298 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 59;85 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 29;439 K jcn_only_AA CUFF.246 chr12 - chr12:332401-344255 chr12:336835-344255 11;74 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173436 214;669 K alternative_donor CUFF.290 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 46;1085 N alternative_donor CUFF.288 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 232;39 K alternative_acceptor CUFF.281 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 161;205 N alternative_acceptor CUFF.281 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 419;108 N intron_retention chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 123;132 K jcn_only_AD CUFF.276 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 74;34 K cassette CUFF.266 chr12 - chr12:25699489-25702259 chr12:25699489-25700158;chr12:25700286-25702259 chr12:25700159-25700285 210;345 K alternative_first_exon CUFF.248 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1640117-1740463;chr12:1726310-1740463 chr12:1639176-1740463 chr12:1639918-1640116;chr12:1726061-1726309 chr12:1639057-1639175 304;28 N jcn_only_AD CUFF.272 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 53;3 K intron_retention CUFF.298 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 67;38 N alternative_donor CUFF.302,CUFF.303 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 77;15 N jcn_only_AA CUFF.261 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 490;134 N jcn_only_AD CUFF.276 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52403024-52404346 chr12:52403023-52403024 35;25 N jcn_only_AA chr12 + chr12:21242864-21279041 chr12:21242864-21245446 55;53 K intron_retention CUFF.290 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 631;145 K alternative_donor CUFF.274 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;913 N jcn_only_AA CUFF.280 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 59;6 K cassette CUFF.263 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 157;309 N jcn_only_AA CUFF.248 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 107;84 K intron_retention ENSG00000139572.3 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 6;22 N coord_cassette CUFF.295 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 58;321 N alternative_donor CUFF.253 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 355;80 K cassette CUFF.263 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 5;202 K jcn_only_AA CUFF.290 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 34;501 N alternative_last_exon CUFF.267 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173436 110;42 K intron_retention CUFF.267 chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 18;118 N alternative_donor CUFF.271,CUFF.288 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 234;37 N cassette CUFF.303 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 13;238 N jcn_only_AD chr12 - chr12:120158391-120287977 chr12:120158391-120159113 9;32 N jcn_only_AD CUFF.301 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 171;7 K intron_retention CUFF.303 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 6;119 N cassette CUFF.281 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 46;825 K alternative_first_exon CUFF.281 chr12 + chr12:53846161-53848509;chr12:53846760-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53846538-53846759;chr12:53837175-53837557 chr12:53846760-53847067 237;136 K coord_cassette CUFF.261 chr12 + chr12:21229504-21294447 chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279052-21279191;chr12:21284057-21284170 16;1307 K intron_retention CUFF.281 chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 30;110 N alternative_first_exon CUFF.267 chr12 + chr12:26205536-26208168,chr12:26174452-26208168;chr12:26148064-26208168;chr12:26164755-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26164619-26164754 chr12:26205407-26205929 162;48 K intron_retention CUFF.280 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 8;113 K jcn_only_AA CUFF.286 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 75;37 K jcn_only_AD CUFF.274 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;172 K intron_retention CUFF.276 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 74;63 N alternative_acceptor CUFF.267 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 48;2781 K intron_retention CUFF.246 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 43;149 K jcn_only_AD CUFF.290 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 46;631 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 76;195 N coord_cassette CUFF.295 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 68;80 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 110;38 K alternative_last_exon CUFF.302 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633246-113633694 chr12:113637846-113638618 57;257 N jcn_only_AD CUFF.299 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 36;9 K intron_retention CUFF.286 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 chr12:56572188-56572318;chr12:56572594-56572631 28;48 N jcn_only_AA chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 71;115 N cassette CUFF.295 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 272;936 N coord_cassette CUFF.295 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 5;301 K intron_retention CUFF.246 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 73;51 K alternative_first_exon CUFF.300 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834583-111834677 22;26 N alternative_donor CUFF.272 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 9;5 K intron_retention CUFF.254 chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 133;35 N cassette CUFF.279 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 30;196 K intron_retention CUFF.290 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 127;15 K jcn_only_AD CUFF.196 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 42;32 K intron_retention CUFF.183 chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 79;62 N jcn_only_AD chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 80;136 K intron_retention CUFF.186 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 31;148 K intron_retention CUFF.209 chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 12;72 K intron_retention CUFF.181 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 26;283 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 7;103 K jcn_only_AD CUFF.230 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 23;322 N cassette CUFF.232 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 21;91 K intron_retention CUFF.209 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 182;112 N jcn_only_AD chr11 - chr11:10819429-10823840 chr11:10819429-10820538 152;97 N alternative_first_exon CUFF.220 chr11 + chr11:74624828-74630577;chr11:74622471-74630577 chr11:74630071-74630577 chr11:74622307-74622470 chr11:74630018-74630070 245;6 K intron_retention CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 10;46 N cassette CUFF.199 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 49;691 N alternative_acceptor CUFF.181 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 5;29 K alternative_first_exon CUFF.209 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999311-63999436 chr11:64000176-64000337 13;410 N jcn_only_AD chr11 - chr11:77897863-77899618 chr11:77897863-77899569 chr11:77899570-77899618 chr11:77899618-77899619 9;43 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36467991-36483891;chr11:36476997-36483891;chr11:36476369-36483891 chr11:36472886-36483891 263;29 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 132;139 N intron_retention chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 12;21 K alternative_last_exon CUFF.237 chr11 + chr11:119058368-119060112 chr11:119058368-119058648 chr11:119060113-119060121 chr11:119058649-119058853 11;105 N jcn_only_AD CUFF.180,CUFF.196 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 68;15 N mutually_exclusive CUFF.178 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 516;112 K cassette CUFF.178 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 105;755 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36467991-36483891;chr11:36476997-36483891;chr11:36472886-36483891 chr11:36476369-36483891 127;165 N jcn_only_AD CUFF.205 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 151;94 N mutually_exclusive CUFF.228 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 217;88 N alternative_acceptor CUFF.241 chr11 - chr11:119291089-119291578;chr11:119291097-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 319;17 N intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 31;396 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 28;34 K alternative_last_exon CUFF.219 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 18;45 N jcn_only_AA CUFF.244 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 76;5 K intron_retention CUFF.235 chr11 - chr11:118923142-118923348 chr11:118923141-118923142;chr11:118923348-118923349 252;63 K intron_retention CUFF.207 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 chr11:62365799-62365862;chr11:62365994-62366111 94;139 K intron_retention CUFF.244 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 85;145 K cassette CUFF.227 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 26;49 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 217;31 K coord_cassette CUFF.188 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 160;251 N alternative_acceptor CUFF.237 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 167;215 N alternative_acceptor CUFF.237 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 243;139 N jcn_only_AA CUFF.232 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 198;50 K intron_retention CUFF.230 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 23;251 K alternative_donor CUFF.235 chr11 - chr11:118926880-118927863 chr11:118926880-118927730 chr11:118927731-118927863 chr11:118927863-118927864 32;419 N cassette CUFF.237 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 46;949 N alternative_acceptor CUFF.244 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 100;204 K alternative_acceptor CUFF.203 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 12;59 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 7;12 K intron_retention CUFF.180 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 58;67 K intron_retention CUFF.235 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 83;235 N jcn_only_AD CUFF.182,CUFF.226 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 163;53 K alternative_acceptor CUFF.211 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 76;1558 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 12;11 K alternative_first_exon CUFF.208 chr11 + chr11:63617502-63662630,chr11:63647701-63662630;chr11:63657768-63662630;chr11:63607033-63662630 chr11:63636382-63662630 chr11:63657694-63657767;chr11:63606400-63607032 chr11:63636240-63636381 346;26 K intron_retention CUFF.207 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 chr11:62363751-62363809;chr11:62363930-62364004 78;28 N jcn_only_AD CUFF.237 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 24;7 K jcn_only_AD CUFF.188 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 34;67 K intron_retention CUFF.229 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 11;174 N jcn_only_AA CUFF.180 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 74;35 K alternative_donor CUFF.232 chr11 + chr11:118402242-118402489 chr11:118402317-118402489 chr11:118402242-118402316 chr11:118402241-118402242 65;204 K alternative_last_exon CUFF.205 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61624483-61624543 chr11:61616153-61616178 174;9 N alternative_acceptor CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 221;33 N cassette CUFF.214 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 15;1238 K jcn_only_AA CUFF.208 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 71;58 N intron_retention chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 38;35 N jcn_only_AA chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 68;186 K intron_retention CUFF.237 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 158;67 N jcn_only_AA CUFF.244 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 57;24 N cassette CUFF.228 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 36;147 N jcn_only_AA chr11 + chr11:36467991-36483891 chr11:36467991-36472758 55;21 N alternative_acceptor CUFF.239 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 13;125 K alternative_donor CUFF.181 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 26;412 N alternative_donor CUFF.211 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 711;32 N jcn_only_AD chr11 + chr11:61594904-61605249;chr11:61596070-61605249 chr11:61584169-61605249 71;25 K intron_retention CUFF.237 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 213;149 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 13;1306 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514476-75514562;chr11:75514568-75514770 chr11:75520325-75520419 205;16 N cassette CUFF.194 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 15;226 K intron_retention CUFF.241 chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 17;137 K intron_retention CUFF.223 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 217;32 N alternative_donor CUFF.214 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 596;48 N jcn_only_AA CUFF.241 chr11 - chr11:119291046-119291578;chr11:119291097-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 184;17 N jcn_only_AA CUFF.195 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 39;6 N jcn_only_AA CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 485;18 N jcn_only_AD CUFF.226 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 189;27 N alternative_acceptor CUFF.189 chr11 - chr11:5687504-5699433 chr11:5691178-5699433 chr11:5687504-5691177 chr11:5687503-5687504 10;48 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 12;166 N jcn_only_AD CUFF.241 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 9;8 N cassette CUFF.178 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 98;560 K intron_retention CUFF.237 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 147;77 K intron_retention CUFF.208 chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 26;90 K intron_retention CUFF.230 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 737;41 K jcn_only_AD CUFF.186 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 13;134 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 63;20 K alternative_last_exon CUFF.221 chr11 - chr11:75520420-75522468;chr11:75514771-75522468 chr11:75514563-75522468 chr11:75520325-75520419;chr11:75514568-75514770 chr11:75514476-75514562 172;49 N alternative_donor CUFF.199 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 599;14 N jcn_only_AA chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 14;64 N cassette CUFF.196 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 12;51 K jcn_only_AA CUFF.211 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 76;615 K intron_retention CUFF.235 chr11 - chr11:118926052-118926204 chr11:118926051-118926052;chr11:118926204-118926205 527;27 K intron_retention CUFF.241 chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 167;25 N jcn_only_AA CUFF.181 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 5;7 N cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 19;250 N cassette CUFF.183 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 20;682 K cassette CUFF.209 chr11 + chr11:63998413-63999342 chr11:63998413-63998503;chr11:63998620-63999342 chr11:63998504-63998619 151;298 K alternative_first_exon CUFF.192 chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633605-6633669 chr11:6633189-6633518 4;478 K cassette CUFF.181 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 23;257 N jcn_only_AD CUFF.211 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 711;32 N cassette CUFF.232 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 21;491 N alternative_donor CUFF.189 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 75;215 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 48;23 K alternative_acceptor CUFF.183 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 269;103 K cassette CUFF.226 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 182;89 N intron_retention CUFF.209 chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 99;21 K intron_retention CUFF.196 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 32;81 K intron_retention CUFF.211 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 580;148 N jcn_only_AA CUFF.244 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 29;52 K intron_retention chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 33;273 K alternative_donor CUFF.188 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 34;281 N jcn_only_AA CUFF.196 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 10;32 K jcn_only_AA CUFF.235 chr11 - chr11:118919916-118920267 chr11:118920083-118920267 chr11:118919916-118920082 chr11:118919915-118919916 67;246 K alternative_first_exon CUFF.241 chr11 - chr11:119291097-119293822 chr11:119291097-119291578 chr11:119293823-119294838 chr11:119291579-119291639 53;167 N alternative_acceptor CUFF.209 chr11 + chr11:36397709-36440804 chr11:36397709-36398178 chr11:36398179-36440804 chr11:36440804-36440805 7;320 N jcn_only_AA CUFF.241 chr11 - chr11:119291089-119291578;chr11:119291046-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 34;167 K intron_retention CUFF.196 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 10;26 N alternative_acceptor CUFF.211,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 66;240 N alternative_acceptor CUFF.232 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 2774;50 K cassette CUFF.188 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 35;618 N jcn_only_AA chr11 + chr11:36317989-36422546 chr11:36317989-36318920 chr11:36318921-36422546 chr11:36422546-36422547 23;62 K intron_retention chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 696;45 K intron_retention CUFF.211 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 654;35 N alternative_acceptor CUFF.194 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 866;12 K intron_retention CUFF.186 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 134;30 K alternative_donor CUFF.230 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 192;512 N alternative_donor CUFF.226 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 333;61 N alternative_donor CUFF.196 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 233;15 K intron_retention CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 9;48 N alternative_acceptor CUFF.232 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 2770;54 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 10;106 N alternative_first_exon CUFF.244 chr11 - chr11:124767158-124768293;chr11:124767158-124767621 chr11:124767158-124767483 chr11:124768294-124768375;chr11:124767622-124768177 chr11:124767484-124767499 162;22 K jcn_only_AD CUFF.230 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 192;429 N cassette CUFF.196 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 38;1753 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 67;4 N cassette CUFF.232 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 38;1366 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 110;174 N alternative_acceptor CUFF.195 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 39;14 K intron_retention CUFF.229 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 51;26 K alternative_first_exon CUFF.208 chr11 + chr11:63617502-63662630,chr11:63647701-63662630;chr11:63607033-63662630;chr11:63636382-63662630 chr11:63657768-63662630 chr11:63606400-63607032;chr11:63636240-63636381 chr11:63657694-63657767 365;7 K jcn_only_AA CUFF.245 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 41;53 K alternative_donor CUFF.201 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 16;50 N jcn_only_AD chr11 + chr11:36467991-36483891;chr11:36476997-36483891;chr11:36472886-36483891;chr11:36476369-36483891 chr11:36475657-36483891 268;24 K intron_retention CUFF.237 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 136;121 K intron_retention CUFF.189 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 87;20 N jcn_only_AD CUFF.199 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 25;343 N jcn_only_AD CUFF.196 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 28;43 K alternative_first_exon CUFF.178,CUFF.207 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:417294-417322;chr11:414823-415079 chr11:417325-417376 1587;15 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 12;7 K alternative_acceptor CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 10;99 K intron_retention CUFF.235 chr11 - chr11:118923542-118924832 chr11:118923541-118923542;chr11:118924832-118924833 242;53 N intron_retention chr11 - chr11:8498831-8502080 chr11:8498830-8498831;chr11:8502080-8502081 34;6 K alternative_last_exon CUFF.205 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615631-61615756 chr11:61615293-61615624 245;494 N coord_cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984 chr11:102950638-102950726;chr11:102953477-102953568 146;131 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 15;14 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891;chr11:36472886-36483891;chr11:36476369-36483891 chr11:36467991-36483891 237;55 K intron_retention CUFF.183 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 269;48 K jcn_only_AA CUFF.186 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 102;70 K alternative_donor CUFF.196 chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 42;123 K coord_cassette CUFF.191 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623495-6624633 chr11:6622156-6622832;chr11:6623082-6623494 10;573 N coord_cassette CUFF.232 chr11 + chr11:118403177-118404571 chr11:118403177-118403631;chr11:118403923-118404134;chr11:118404267-118404571 chr11:118403632-118403922;chr11:118404135-118404266 23;616 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 25;552 N alternative_donor CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 78;566 N alternative_acceptor CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 485;41 N alternative_acceptor CUFF.199 chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 434;122 N alternative_donor chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 142;129 N jcn_only_AD CUFF.184 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 40;7 K alternative_first_exon CUFF.213 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67772277-67772277 chr11:67771418-67771620 14;349 N alternative_last_exon CUFF.196 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818597-10819428 chr11:10823596-10823756 563;124 K intron_retention CUFF.230 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 117;417 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 15;17 N alternative_acceptor CUFF.222 chr11 - chr11:77889032-77899618 chr11:77897863-77899618 chr11:77889032-77897862 chr11:77889031-77889032 140;20 N alternative_acceptor CUFF.209 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 331;19 N jcn_only_AD CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 54;441 N jcn_only_AD chr11 + chr11:36459027-36472758 chr11:36467991-36472758 21;21 N alternative_donor CUFF.199 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 594;19 K cassette CUFF.211 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 654;653 N jcn_only_AA CUFF.199 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 25;87 K alternative_first_exon CUFF.211 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479467-65479916 chr11:65479975-65480068 1448;33 K intron_retention CUFF.232 chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 42;280 K alternative_first_exon CUFF.207 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369312 chr11:62368495-62368825 chr11:62368094-62368161 130;136 N jcn_only_AD CUFF.205 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 46;61 N alternative_first_exon CUFF.194,CUFF.213 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8615630-8615928 chr11:8615291-8615537 387;49 K intron_retention CUFF.223 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 57;126 K intron_retention CUFF.241 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 144;8 K intron_retention CUFF.239 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 82;24 K intron_retention CUFF.232 chr11 + chr11:118401950-118402492 chr11:118401949-118401950;chr11:118402492-118402493 75;285 N alternative_donor CUFF.214 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 614;30 N coord_cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102953477-102953568;chr11:102953985-102954055 19;391 N jcn_only_AA chr11 + chr11:36424929-36453402 chr11:36424929-36440804 11;100 N jcn_only_AD CUFF.199 chr11 + chr11:36397709-36398178 chr11:36397788-36398178 chr11:36397709-36397787 chr11:36397708-36397709 7;60 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 38;687 N alternative_acceptor CUFF.244 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 12;240 N alternative_acceptor chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 68;186 N jcn_only_AD CUFF.214 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 471;24 N cassette CUFF.208 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 69;160 N mutually_exclusive CUFF.196 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 46;79 N jcn_only_AA chr11 - chr11:2190926-2192914 chr11:2191102-2192914 chr11:2190926-2191101 chr11:2190925-2190926 49;14 N alternative_acceptor CUFF.195 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 87;755 N jcn_only_AA CUFF.209 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 331;19 N jcn_only_AD CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818400-67819908 chr11:67818399-67818400 14;11 N jcn_only_AD chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 175;33 K jcn_only_AA CUFF.181 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 90;82 K intron_retention CUFF.205 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 115;251 K intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 194;7 K cassette CUFF.208 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 96;83 K alternative_acceptor CUFF.181 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 90;104 N jcn_only_AA CUFF.209,CUFF.211 chr11 + chr11:63999437-63999901;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999865 333;99 K intron_retention CUFF.235 chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 213;160 N alternative_donor CUFF.178,CUFF.195 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 39;14 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 10;12 K intron_retention CUFF.207 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 chr11:62365496-62365613;chr11:62365799-62365862 84;50 K intron_retention CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 148;49 N cassette CUFF.208 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 94;117 N jcn_only_AA chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 38;61 N alternative_first_exon CUFF.226,CUFF.244 chr11 - chr11:124767158-124767483;chr11:124767158-124767621 chr11:124767158-124768293 chr11:124767484-124767499;chr11:124767622-124768177 chr11:124768294-124768375 167;17 K intron_retention CUFF.183 chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 142;45 K alternative_first_exon CUFF.181 chr11 + chr11:827319-828259,chr11:827460-828259;chr11:826267-828259 chr11:827712-828259 chr11:826144-826266 chr11:827593-827711 157;8 N cassette CUFF.232 chr11 + chr11:118403177-118404571;chr11:118403923-118404571 chr11:118403177-118404134,chr11:118403923-118404134;chr11:118404267-118404571 chr11:118404135-118404266 204;222 K intron_retention CUFF.201 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 12;59 K coord_cassette CUFF.232 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118402864;chr11:118402915-118403049;chr11:118403177-118403631 chr11:118402490-118402586;chr11:118402865-118402914;chr11:118403050-118403176 21;1448 N alternative_acceptor CUFF.244 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 299;5 K alternative_acceptor CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 148;63 N alternative_donor chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 258;136 N intron_retention CUFF.196 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 43;59 N cassette CUFF.235 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 91;235 N cassette CUFF.194 chr11 - chr11:8496614-8615290 chr11:8496614-8554894;chr11:8555044-8615290 chr11:8554895-8555043 4;85 N alternative_acceptor CUFF.241 chr11 - chr11:119291046-119291578;chr11:119291097-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 307;29 K coord_cassette CUFF.191 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623446-6624633 chr11:6622156-6622832;chr11:6623082-6623445 10;548 K alternative_acceptor CUFF.219,CUFF.229 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 51;85 N alternative_acceptor CUFF.241 chr11 - chr11:119291089-119291578;chr11:119291046-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 46;290 K alternative_first_exon CUFF.192,CUFF.235 chr11 - chr11:118926880-118926990,chr11:118926880-118927711,chr11:118926880-118927737;chr11:118926880-118927863,chr11:118926880-118927730 chr11:118926880-118927515 chr11:118927864-118927987 chr11:118927516-118927591 280;60 N jcn_only_AA CUFF.209 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-64001365 chr11:63999437-63999981 413;19 K intron_retention CUFF.230 chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 192;103 K intron_retention CUFF.188 chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 201;60 K intron_retention chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 61;24 K cassette CUFF.235 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 32;625 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 90;44 N alternative_donor CUFF.241 chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 110;263 K jcn_only_AD CUFF.211 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 21;277 N alternative_acceptor CUFF.203 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 37;165 N jcn_only_AA CUFF.237 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 351;24 N jcn_only_AA CUFF.189 chr11 - chr11:5687504-5699433 chr11:5691178-5699433 chr11:5687504-5691177 chr11:5687503-5687504 10;48 N alternative_donor CUFF.199 chr11 + chr11:36397709-36398178 chr11:36397788-36398178 chr11:36397709-36397787 chr11:36397708-36397709 7;64 N jcn_only_AD CUFF.180 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 35;48 K jcn_only_AA CUFF.189 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 75;87 K cassette CUFF.187 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 16;36 N intron_retention chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 41;272 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 56;506 K intron_retention CUFF.181 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 23;135 N intron_retention chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 176;381 N alternative_acceptor chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 48;38 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 12;11 N intron_retention CUFF.196 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 19;67 K intron_retention CUFF.211 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 1075;26 K alternative_donor CUFF.186 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 13;825 K jcn_only_AD CUFF.234 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 75;38 N alternative_acceptor chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 14;86 N jcn_only_AA CUFF.232 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 236;12 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615928 chr11:8476291-8476379 44;127 N jcn_only_AA chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 126;190 N jcn_only_AA CUFF.232,CUFF.237 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 62;186 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 47;43 K coord_cassette CUFF.208 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 32;63 N alternative_acceptor CUFF.182 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 92;30 K intron_retention CUFF.209 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 272;45 N alternative_acceptor chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 38;78 K intron_retention CUFF.193 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 899;73 K alternative_acceptor CUFF.235 chr11 - chr11:118919916-118920267 chr11:118920083-118920267 chr11:118919916-118920082 chr11:118919915-118919916 67;677 N cassette CUFF.222 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 24;302 K intron_retention CUFF.178 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 253;92 N jcn_only_AD chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 47;87 K intron_retention CUFF.244 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 73;12 K jcn_only_AA CUFF.232,CUFF.237 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 75;475 N intron_retention chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 12;139 K intron_retention CUFF.189 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 75;110 N coord_cassette CUFF.183 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188116;chr11:2188263-2188664 chr11:2187863-2187998;chr11:2188117-2188262 20;1585 K intron_retention CUFF.234 chr11 - chr11:118531625-118531868 chr11:118531624-118531625;chr11:118531868-118531869 114;42 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 46;610 K intron_retention chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 136;43 K intron_retention CUFF.189 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 30;104 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75520420-75522468 chr11:75514771-75522468 chr11:75514476-75514562;chr11:75520325-75520419 chr11:75514568-75514770 65;156 N alternative_last_exon chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74631067 chr11:74624740-74624807 1116;15 K intron_retention chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 24;44 K intron_retention CUFF.181 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 88;18 N intron_retention CUFF.189 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 15;168 N jcn_only_AD CUFF.237 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 136;12 N cassette CUFF.224 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 4;6 N cassette CUFF.194 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 28;237 N coord_cassette CUFF.178 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 48;1527 N cassette CUFF.178 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 98;978 N jcn_only_AA chr11 + chr11:36459027-36472758 chr11:36459027-36467849 21;66 K alternative_first_exon CUFF.184 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466500-2466714 chr11:2483038-2483207 55;56 K intron_retention CUFF.243 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 25;26 K intron_retention CUFF.183 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 444;153 K intron_retention CUFF.202 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 15;30 N cassette CUFF.194 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 41;231 N jcn_only_AA CUFF.203 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 37;37 K cassette CUFF.235 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 174;432 K intron_retention CUFF.181 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 79;133 K intron_retention CUFF.213 chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 143;145 N intron_retention CUFF.211 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 35;807 K alternative_first_exon CUFF.227 chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104972135-104972152 chr11:104916018-104916081 17;10 N cassette CUFF.196 chr11 - chr11:10828433-10829823;chr11:10828433-10830251 chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251 chr11:10828802-10828928 152;984 N alternative_acceptor CUFF.196 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 10;149 K intron_retention CUFF.191 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 7;79 N intron_retention chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 175;281 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 13;322 K intron_retention CUFF.232 chr11 + chr11:118401950-118402489 chr11:118401949-118401950;chr11:118402489-118402490 475;283 K jcn_only_AA CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 148;33 K jcn_only_AA CUFF.203 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 12;52 K alternative_first_exon CUFF.241 chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119295608-119295695 chr11:119293823-119294838 62;444 K intron_retention CUFF.178 chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 15;31 K jcn_only_AA CUFF.241 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 154;144 N alternative_donor CUFF.180,CUFF.196 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 90;36 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 10;12 K intron_retention CUFF.211 chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 33;244 N alternative_donor CUFF.199 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 33;580 N mutually_exclusive CUFF.235 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 36;154 K alternative_first_exon CUFF.178 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:417325-417376;chr11:414823-415079 chr11:417294-417322 1548;54 N jcn_only_AA CUFF.194 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 228;12 K jcn_only_AD CUFF.237 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 47;147 N jcn_only_AD chr11 + chr11:36424929-36453402 chr11:36440854-36453402 11;78 K alternative_first_exon CUFF.208 chr11 + chr11:63617502-63662630,chr11:63647701-63662630;chr11:63657768-63662630;chr11:63636382-63662630 chr11:63607033-63662630 chr11:63657694-63657767;chr11:63636240-63636381 chr11:63606400-63607032 60;312 K intron_retention CUFF.196 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 114;46 K jcn_only_AD CUFF.232 chr11 + chr11:118402242-118402489 chr11:118402317-118402489 chr11:118402242-118402316 chr11:118402241-118402242 65;42 K cassette CUFF.195 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949230-8950923 chr11:8949050-8949229 39;235 K alternative_first_exon CUFF.227,CUFF.239 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119252183-119252421 chr11:119234559-119234988 29;190 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 20;403 K intron_retention CUFF.229 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 68;25 K cassette CUFF.184 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 22;56 K intron_retention CUFF.193 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 74;383 N cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102953476;chr11:102953569-102953984 chr11:102953477-102953568 146;371 N alternative_donor CUFF.237 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 24;58 N intron_retention CUFF.209 chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 19;314 N jcn_only_AA CUFF.194 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 206;34 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 25;407 N mutually_exclusive CUFF.208 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 119;74 K cassette CUFF.194 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 7;256 K intron_retention CUFF.232 chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 65;295 N jcn_only_AD CUFF.178,CUFF.195 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 39;6 K intron_retention CUFF.213 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 265;62 K intron_retention CUFF.196 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 42;96 K intron_retention CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 72;104 K jcn_only_AA CUFF.191 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 18;23 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 38;754 K alternative_acceptor CUFF.189 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 75;1235 N alternative_acceptor CUFF.199,CUFF.229 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 546;10 K intron_retention CUFF.196 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 80;23 N cassette CUFF.178 chr11 - chr11:408207-414822;chr11:408894-414822 chr11:408894-409867,chr11:408207-409867;chr11:410028-414822 chr11:409868-410027 61;1558 N jcn_only_AD chr11 + chr11:61594904-61605249;chr11:61584169-61605249 chr11:61596070-61605249 72;24 N alternative_acceptor CUFF.180 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 74;42 N alternative_donor CUFF.180 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 78;48 N intron_retention CUFF.226 chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 27;49 N alternative_donor CUFF.205 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 46;69 K alternative_last_exon CUFF.205,CUFF.228 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107948903-107948967 chr11:107944527-107944792 7;91 K alternative_acceptor CUFF.232,CUFF.237 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 75;610 K intron_retention CUFF.186 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 13;129 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36467991-36483891;chr11:36472886-36483891;chr11:36476369-36483891 chr11:36476997-36483891 273;19 K jcn_only_AD CUFF.181 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 26;82 K intron_retention CUFF.196 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 104;74 N jcn_only_AA CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 221;8 K cassette CUFF.226 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 14;444 K intron_retention CUFF.207 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 chr11:62364788-62364887;chr11:62365082-62365184 81;17 K intron_retention CUFF.188 chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 67;316 K cassette CUFF.225 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 53;124 K intron_retention CUFF.211 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 66;661 K alternative_first_exon CUFF.230 chr11 + chr11:117072658-117073717;chr11:117070149-117073717,chr11:117070546-117073717 chr11:117071059-117073717 chr11:117070006-117070148 chr11:117070984-117071058 409;7 K jcn_only_AA CUFF.178 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 95;407 K alternative_acceptor CUFF.241 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 154;230 N alternative_acceptor chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 132;424 N cassette CUFF.183 chr11 - chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192926 chr11:2191920-2192000 7;58 K alternative_first_exon CUFF.226 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102962990 chr11:102959956-102960047 630;227 N jcn_only_AD CUFF.237 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 213;18 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 83;674 K intron_retention CUFF.195 chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 65;216 N jcn_only_AD CUFF.189 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 75;15 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 28;102 N jcn_only_AD CUFF.183,CUFF.235 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 142;49 N coord_cassette CUFF.232 chr11 + chr11:118402587-118403631 chr11:118402587-118402864;chr11:118402915-118403049;chr11:118403177-118403631 chr11:118402865-118402914;chr11:118403050-118403176 16;1043 N jcn_only_AA CUFF.182 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 92;17 K intron_retention CUFF.244 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 83;8 N jcn_only_AA CUFF.194 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 46;194 K intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 24;170 K alternative_acceptor CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 72;103 K intron_retention CUFF.193 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 697;69 K cassette CUFF.234 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 68;84 N alternative_acceptor CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 9;34 N alternative_donor CUFF.205 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 151;106 K intron_retention CUFF.209 chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 302;42 N mutually_exclusive CUFF.232 chr11 + chr11:118403177-118404134,chr11:118404267-118404571 chr11:118403177-118403631,chr11:118403923-118404571 chr11:118404135-118404266 chr11:118403632-118403922 28;871 K jcn_only_AA CUFF.183 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 269;79 N jcn_only_AD CUFF.214 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 465;30 N alternative_acceptor CUFF.194 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 201;677 N cassette CUFF.214 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 32;949 K cassette CUFF.235 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118920083-118920267 chr11:118919730-118920082 32;1247 K cassette CUFF.189 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 146;199 N alternative_donor CUFF.241 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 9;227 K jcn_only_AD CUFF.235 chr11 - chr11:118926880-118927863 chr11:118926880-118927730 chr11:118927731-118927863 chr11:118927863-118927864 32;142 N jcn_only_AD chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 63;20 N jcn_only_AA CUFF.237 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 239;136 K coord_cassette CUFF.232 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118402864;chr11:118402915-118403049;chr11:118403177-118403631 chr11:118402493-118402586;chr11:118402865-118402914;chr11:118403050-118403176 21;1095 N intron_retention chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 215;42 K cassette CUFF.178 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 268;1044 N alternative_acceptor CUFF.244 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 209;95 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 131;3 K intron_retention CUFF.207 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 chr11:62363930-62364004;chr11:62364109-62364297 83;23 N alternative_acceptor CUFF.237 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 354;28 N jcn_only_AD CUFF.241 chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 110;24 N jcn_only_AD chr11 - chr11:6639008-6640426 chr11:6639008-6640006 19;960 K intron_retention CUFF.237 chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 47;126 K alternative_donor CUFF.230 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 23;1182 N jcn_only_AA CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 9;27 K alternative_acceptor CUFF.191 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 18;43 K intron_retention CUFF.221 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 13;66 K intron_retention CUFF.196 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 4;66 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 441;21 N alternative_donor CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818400-67819908 chr11:67818399-67818400 14;36 N jcn_only_AD chr11 + chr11:61584169-61605249;chr11:61596070-61605249 chr11:61594904-61605249 49;47 K alternative_first_exon CUFF.232 chr11 + chr11:118401950-118402489 chr11:118402242-118402489,chr11:118402317-118402489 chr11:118401724-118401949 chr11:118402241-118402241 673;107 N alternative_acceptor CUFF.194 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 689;189 N alternative_first_exon CUFF.193 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615928 chr11:8494710-8494823 15;130 K alternative_first_exon CUFF.244 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768375 chr11:124767622-124768177 12;16 N mutually_exclusive CUFF.178 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 516;112 K cassette CUFF.189 chr11 - chr11:5701469-5706097 chr11:5701469-5705215;chr11:5705370-5706097 chr11:5705216-5705369 82;59 N alternative_donor CUFF.196,CUFF.226 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 170;78 N alternative_donor CUFF.182,CUFF.226 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 197;197 K alternative_acceptor CUFF.208 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 71;58 N alternative_donor chr11 - chr11:77897863-77899618 chr11:77897863-77899569 chr11:77899570-77899618 chr11:77899618-77899619 9;51 N jcn_only_AA CUFF.237 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 160;215 N jcn_only_AD CUFF.199 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 354;14 N cassette CUFF.234 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 15;164 K intron_retention CUFF.188 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 34;360 N jcn_only_AA CUFF.222 chr11 - chr11:77889032-77899618 chr11:77897863-77899618 chr11:77889032-77897862 chr11:77889031-77889032 140;9 K intron_retention CUFF.182 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 44;64 K intron_retention chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 459;258 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 18;170 N jcn_only_AD chr11 + chr11:36397709-36440804 chr11:36424929-36440804 7;100 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 7;19 N alternative_donor CUFF.184 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 40;16 K intron_retention CUFF.230 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 429;35 K intron_retention CUFF.213 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 33;35 K alternative_first_exon CUFF.182 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785222 chr11:1783363-1783459 30;32 N alternative_acceptor CUFF.232,CUFF.237 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 104;2720 N cassette CUFF.183 chr11 - chr11:2187999-2188664 chr11:2187999-2188116;chr11:2188263-2188664 chr11:2188117-2188262 13;940 N jcn_only_AA CUFF.199 chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 194;122 K intron_retention CUFF.181 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 82;123 K jcn_only_AA CUFF.219,CUFF.229 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 51;68 K intron_retention CUFF.188 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 126;37 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 235;453 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 13;441 K alternative_donor CUFF.237 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 47;229 N jcn_only_AA CUFF.244 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 12;17 N jcn_only_AA CUFF.211,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 66;35 K jcn_only_AA CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 10;28 K alternative_first_exon CUFF.196,CUFF.223 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706662-94706776 chr11:94706437-94706481 248;36 K mutually_exclusive CUFF.189 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 15;273 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 17;30 K alternative_first_exon CUFF.207,CUFF.234 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367894 chr11:62366690-62366739 chr11:62365994-62366111 243;5 N alternative_donor CUFF.183,CUFF.235 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 142;63 K intron_retention CUFF.232 chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 41;894 K intron_retention CUFF.181 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 52;172 N jcn_only_AA CUFF.209 chr11 + chr11:36397709-36440804 chr11:36397709-36398178 chr11:36398179-36440804 chr11:36440804-36440805 7;7 K alternative_first_exon CUFF.178 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:417325-417376;chr11:417294-417322 chr11:414823-415079 69;1533 N alternative_donor CUFF.237 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 136;63 K intron_retention CUFF.211 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 560;11 N alternative_first_exon CUFF.181 chr11 + chr11:827460-828229;chr11:826267-828229 chr11:827712-828229 chr11:826144-826266 chr11:827593-827711 183;10 N jcn_only_AA CUFF.239 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 13;3 K alternative_acceptor CUFF.178 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 95;517 N jcn_only_AD CUFF.196,CUFF.226 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 62;9 N alternative_acceptor CUFF.196 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 42;159 N alternative_donor CUFF.237 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 213;96 K alternative_donor CUFF.211 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 21;287 K intron_retention CUFF.205 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 65;25 K alternative_acceptor CUFF.245 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 41;111 K jcn_only_AD CUFF.193 chr11 - chr11:6637735-6638589 chr11:6637735-6637891 393;68 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 105;342 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 7;272 K jcn_only_AA CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 72;13 N jcn_only_AD CUFF.196 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 56;15 K intron_retention CUFF.214 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 317;237 N mutually_exclusive CUFF.196 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 46;79 N alternative_donor chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 175;353 N jcn_only_AA CUFF.196 chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 42;7 K intron_retention chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 206;27 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 268;3 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 32;112 N jcn_only_AA CUFF.209 chr11 + chr11:63999437-63999865;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999901 130;302 K intron_retention CUFF.237 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 204;37 K intron_retention CUFF.241 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 154;90 N intron_retention CUFF.196 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 9;62 K intron_retention CUFF.181 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 83;98 N alternative_donor CUFF.196 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 124;124 K alternative_acceptor CUFF.186 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 102;70 N alternative_acceptor chr11 + chr11:36317989-36422546 chr11:36317989-36318920 chr11:36318921-36422546 chr11:36422546-36422547 23;297 K intron_retention CUFF.226 chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 136;105 K jcn_only_AA CUFF.230 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 23;117 K cassette CUFF.188 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 54;219 N cassette CUFF.196 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 41;795 N jcn_only_AA CUFF.241 chr11 - chr11:119291089-119291578;chr11:119291097-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 184;17 N jcn_only_AA CUFF.199,CUFF.229 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 312;4 N alternative_donor chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 84;42 N jcn_only_AA CUFF.209 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-63999981 chr11:63999437-64001365 420;12 K intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 78;229 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 15;28 N jcn_only_AD CUFF.199 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 357;11 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 447;226 K intron_retention CUFF.188 chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 35;77 N coord_cassette CUFF.178 chr11 - chr11:408894-414822 chr11:408894-409216;chr11:409309-409867;chr11:410028-414822 chr11:409217-409308;chr11:409868-410027 11;1774 K jcn_only_AA CUFF.241 chr11 - chr11:119291097-119293822 chr11:119291640-119293822 29;248 K jcn_only_AD CUFF.201 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 16;45 N alternative_first_exon CUFF.244 chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124767484-124767499;chr11:124768294-124768375 chr11:124767622-124768177 39;145 N jcn_only_AA CUFF.195 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 87;461 N alternative_last_exon CUFF.193 chr11 - chr11:6639008-6640426 chr11:6640147-6640426 chr11:6638857-6639007 chr11:6639705-6640146 28;1538 N alternative_acceptor chr11 - chr11:2190926-2192914 chr11:2191102-2192914 chr11:2190926-2191101 chr11:2190925-2190926 49;116 N coord_cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102950638-102950726;chr11:102953477-102953568;chr11:102953985-102954055 19;300 K intron_retention CUFF.193 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 151;41 N alternative_donor CUFF.174 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 2202;103 K alternative_first_exon CUFF.150 chr10 + chr10:70661228-70666466 chr10:70666094-70666466 chr10:70660996-70661227 chr10:70666027-70666093 47;68 K coord_cassette CUFF.174 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 115;4050 N jcn_only_AA CUFF.160 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 52;13 N alternative_donor CUFF.157 chr10 - chr10:78729826-78734244;chr10:78729826-78771724 chr10:78729826-78761164 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 164;48 K intron_retention chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 28;87 K cassette CUFF.150 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 9;61 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35464634-35467816 chr10:35456732-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 682;61 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35467799 chr10:35437420-35495822 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 2477;33 N jcn_only_AA CUFF.152 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 297;13 K mutually_exclusive CUFF.167 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 41;155 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35426808-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 729;14 N jcn_only_AD CUFF.157 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 76;8 K jcn_only_AD CUFF.162 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833592-94833880 chr10:94833591-94833592 6;44 N alternative_acceptor CUFF.157 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 111;13 K coord_cassette CUFF.120 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5123873;chr10:5124078-5138601 chr10:5122938-5123093;chr10:5123874-5124077 82;373 N jcn_only_AD CUFF.148 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 chr10:69866559-69882097 chr10:69866558-69866559 4;11 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 58;48 N jcn_only_AA CUFF.157 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 127;4 N alternative_first_exon CUFF.152 chr10 - chr10:73973090-73975534;chr10:73973090-73975539;chr10:73973090-73975964 chr10:73973090-73976578 chr10:73975540-73975867;chr10:73975965-73976054 chr10:73976579-73976665 315;38 N alternative_donor CUFF.135 chr10 + chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485071-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 1911;230 N jcn_only_AD CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378 chr10:35468205-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 242;115 N jcn_only_AA CUFF.152 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 211;99 N alternative_donor CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378 chr10:35468205-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 2026;115 N alternative_acceptor CUFF.157 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 112;150 K alternative_last_exon CUFF.134 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351888-35351990 chr10:35352780-35353044 192;165 K alternative_first_exon CUFF.127,CUFF.173 chr10 - chr10:17636383-17645558 chr10:17636383-17641288 chr10:17645559-17645827 chr10:17641289-17641410 37;120 N jcn_only_AD CUFF.174 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 295;863 K alternative_first_exon CUFF.118 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:735434-735776 chr10:629529-629652 835;5 N alternative_donor CUFF.157 chr10 - chr10:78729826-78761164;chr10:78729826-78771724 chr10:78729826-78734244 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 88;124 N alternative_donor chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 21;136 K cassette CUFF.163 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 11;131 K alternative_last_exon CUFF.118 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410314-410522 chr10:410919-410961 12;9 N jcn_only_AD CUFF.157 chr10 - chr10:78729826-78734244;chr10:78729826-78771724 chr10:78729826-78761164 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 49;35 N jcn_only_AA chr10 + chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35467816 196;38 N jcn_only_AD CUFF.152 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 31;7 K alternative_last_exon CUFF.160 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722581-80722643 chr10:80803913-80804269 20;185 N jcn_only_AD CUFF.152 chr10 - chr10:73956748-73963184;chr10:73956748-73958206 chr10:73956748-73972944 434;47 K alternative_donor CUFF.163 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 7;52 K alternative_first_exon CUFF.173 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123687958 chr10:123687359-123687551 162;149 N alternative_acceptor chr10 + chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35467816 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 1390;1120 K mutually_exclusive CUFF.173 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 228;21 N cassette CUFF.131 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 20;84 N jcn_only_AA CUFF.157 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 50;58 K jcn_only_AD CUFF.169 chr10 + chr10:106937932-106970894 chr10:106961012-106970894 40;38 K alternative_first_exon CUFF.127,CUFF.177 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061295-135061475 chr10:135061058-135061205 114;24 N alternative_donor CUFF.139 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 65;20 N cassette CUFF.131 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 6;135 N alternative_acceptor CUFF.157 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 76;5 K intron_retention CUFF.171 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 11;17 N jcn_only_AD chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274030-44274154 chr10:44274154-44274155 3;18 K coord_cassette CUFF.123 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 5;586 K coord_cassette CUFF.150 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 38;84 K alternative_first_exon CUFF.139 chr10 - chr10:46159291-46167719;chr10:46159291-46168126 chr10:46159291-46167697 chr10:46168127-46168276 chr10:46167698-46167796 chr10:46158990-46159290 91;83 N alternative_donor CUFF.157 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 76;10 N jcn_only_AA CUFF.150 chr10 + chr10:70661228-70666466;chr10:70661228-70666039 chr10:70661228-70665981 38;13 K cassette CUFF.163 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 38;43 K cassette CUFF.123 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 162;127 K cassette CUFF.160 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 16;28 N jcn_only_AA CUFF.152 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 232;78 N jcn_only_AD CUFF.160,CUFF.177 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 52;9 K intron_retention CUFF.127 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 74;86 K alternative_acceptor CUFF.135 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 739;2626 N alternative_donor CUFF.152 chr10 - chr10:27048168-27054146 chr10:27048168-27052808 chr10:27052809-27054146 chr10:27054146-27054147 31;7 N cassette CUFF.123 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 14;93 N jcn_only_AA chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35437295 chr10:35416122-35495822 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 324;52 K cassette CUFF.131 chr10 - chr10:27059275-27065993 chr10:27059275-27059451;chr10:27059470-27065993 chr10:27059452-27059469 18;23 N jcn_only_AD chr10 + chr10:35464634-35477127 chr10:35468205-35477127 24;398 N alternative_donor CUFF.131 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 64;5 N jcn_only_AA CUFF.131 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 64;6 K cassette CUFF.146 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 10;88 N alternative_donor CUFF.152 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 332;32 N alternative_donor CUFF.157 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 7;566 N jcn_only_AD CUFF.139 chr10 - chr10:46113709-46116227;chr10:46113709-46120030 chr10:46113709-46143741 chr10:46113588-46113708 109;10 N jcn_only_AD chr10 + chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35464928-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 451;292 N jcn_only_AA CUFF.152 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 228;82 N jcn_only_AA CUFF.139 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 98;20 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35442988 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 2313;197 N jcn_only_AA CUFF.127 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 57;29 K intron_retention CUFF.133 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 20;9 N alternative_acceptor CUFF.157 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 197;65 N jcn_only_AA CUFF.157 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 76;3 N jcn_only_AA CUFF.157 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 111;13 N jcn_only_AD CUFF.139,CUFF.152 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 57;50 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35464780 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 1989;521 N jcn_only_AD chr10 - chr10:46113709-46116227;chr10:46113709-46143741 chr10:46113709-46120030 chr10:46113588-46113708 48;71 K alternative_first_exon CUFF.166 chr10 + chr10:101482868-101496002 chr10:101492167-101496002,chr10:101492318-101496002 chr10:101482675-101482867 chr10:101491924-101492166 25;134 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 10;39 K alternative_first_exon CUFF.176 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 22;484 N cassette CUFF.173 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 17;115 N cassette CUFF.123 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 5;415 N jcn_only_AA CUFF.150 chr10 + chr10:70661228-70665981;chr10:70661228-70666039 chr10:70661228-70666466 36;15 N jcn_only_AA chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 5;10 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 343;99 N alternative_acceptor CUFF.135 chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35495822 chr10:35416122-35437295 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 1768;821 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35416122-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 1599;61 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 43;554 N jcn_only_AD CUFF.152 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 396;92 N jcn_only_AD ENSG00000230500.1 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 12;14 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 190;252 N alternative_acceptor CUFF.157 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 50;113 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061 chr10:35464634-35467799 210;24 N alternative_donor CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35468205-35490378 chr10:35477317-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 1869;272 N cassette CUFF.129 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 3;202 N jcn_only_AA CUFF.157 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 85;15 N alternative_acceptor chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 5;45 N jcn_only_AA CUFF.152 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 272;38 K alternative_last_exon CUFF.177 chr10 - chr10:135060555-135061294 chr10:135061206-135061294 chr10:135059982-135060554 chr10:135061017-135061205 388;28 N jcn_only_AA CUFF.157 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 101;7 N jcn_only_AD CUFF.127,CUFF.157 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 111;19 K alternative_first_exon CUFF.130,CUFF.156 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290351 chr10:76289051-76289146 12;60 N alternative_donor chr10 + chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35464928-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 702;958 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35467799 chr10:35437420-35495822 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 474;33 K cassette CUFF.150 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 38;40 N jcn_only_AA CUFF.152 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 80;332 K cassette CUFF.120 chr10 + chr10:5123094-5138601 chr10:5123094-5123873;chr10:5124078-5138601 chr10:5123874-5124077 29;251 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35467915-35468061 chr10:35460243-35468061 882;39 K alternative_last_exon CUFF.155 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476874-75476950 chr10:75477773-75477923 12;32 K intron_retention CUFF.152 chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 99;36 N jcn_only_AA CUFF.148 chr10 + chr10:35456732-35467816 chr10:35456732-35460120 61;60 N jcn_only_AD CUFF.139,CUFF.154 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 chr10:46143742-46143982;chr10:46147414-46147481 98;25 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35464780 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 400;107 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816 chr10:35464634-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 705;38 K alternative_acceptor CUFF.150 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 32;44 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 478;123 N mutually_exclusive CUFF.131 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 39;7 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822 chr10:35437420-35467799 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 493;14 N jcn_only_AD CUFF.152 chr10 - chr10:73956748-73972944;chr10:73956748-73958206 chr10:73956748-73963184 81;400 N cassette CUFF.123 chr10 + chr10:6268329-6274857 chr10:6268329-6270158;chr10:6270182-6274857 chr10:6270159-6270181 48;151 N jcn_only_AA CUFF.152 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 400;24 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 43;22 N alternative_acceptor chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35437295 chr10:35416122-35495822 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 2537;52 K cassette CUFF.166 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 6;120 K alternative_first_exon CUFF.130 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833305 11;31 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 107;74 K cassette CUFF.131 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 18;69 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35477127 210;24 N jcn_only_AA chr10 + chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35467816 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 230;277 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35467799 chr10:35464634-35468061 221;13 N jcn_only_AA CUFF.152 chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 102;58 N jcn_only_AD CUFF.157,CUFF.176 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 147;6 N alternative_donor CUFF.148 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 chr10:69866559-69882097 chr10:69866558-69866559 4;78 K jcn_only_AD CUFF.163 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 7;52 K alternative_acceptor CUFF.134 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 22;113 N alternative_acceptor CUFF.152 chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 102;58 N jcn_only_AA CUFF.152 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 365;47 N alternative_acceptor CUFF.131 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 64;24 K jcn_only_AA CUFF.147 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 18;25 N alternative_donor CUFF.152 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 396;103 N jcn_only_AA CUFF.120 chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35441207 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 450;57 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 34;22 K mutually_exclusive CUFF.173 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 215;77 N jcn_only_AD CUFF.157 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 7;34 N alternative_acceptor CUFF.157 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 215;47 K intron_retention CUFF.152 chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 38;22 N jcn_only_AD chr10 + chr10:35460243-35468061;chr10:35467915-35468061 chr10:35464634-35468061 908;13 N jcn_only_AD CUFF.152 chr10 - chr10:73956748-73963184;chr10:73956748-73972944 chr10:73956748-73958206 447;34 N jcn_only_AA chr10 + chr10:35426808-35467816 chr10:35426808-35437295 14;252 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 14;24 K jcn_only_AA CUFF.165 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 6;14 N alternative_acceptor CUFF.135 chr10 + chr10:35416122-35467816;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35426709 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 1209;1380 K cassette CUFF.147 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 63;77 K alternative_first_exon CUFF.174 chr10 + chr10:124134323-124152696 chr10:124151889-124152696 chr10:124134212-124134322 chr10:124151819-124151888 92;1168 N alternative_acceptor CUFF.135 chr10 + chr10:35416122-35426709;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35467816 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 2253;336 N alternative_acceptor CUFF.157 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 127;4 N alternative_donor CUFF.152 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 244;102 N jcn_only_AD chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 21;8 N cassette CUFF.123 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 33;279 N jcn_only_AD CUFF.157 chr10 - chr10:78729826-78761164;chr10:78729826-78771724 chr10:78729826-78734244 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 75;9 N cassette CUFF.174 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 23;3242 N alternative_donor CUFF.139,CUFF.154 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 chr10:46143742-46143982;chr10:46147414-46147481 98;497 K jcn_only_AA CUFF.134 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 22;113 N cassette CUFF.152 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 79;388 N jcn_only_AD CUFF.174 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 874;284 N jcn_only_AA CUFF.152 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 379;33 K cassette CUFF.134 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 31;195 K alternative_donor CUFF.162 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833592-94833880 chr10:94833591-94833592 6;134 N jcn_only_AD CUFF.135 chr10 + chr10:35485071-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35484143-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 292;65 K alternative_first_exon CUFF.136 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572475-43572779 chr10:43606655-43606913 46;14 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 10;68 N jcn_only_AA CUFF.152 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 396;73 N alternative_donor chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 164;185 N alternative_last_exon CUFF.139 chr10 - chr10:46135870-46143741;chr10:46113709-46143741 chr10:46135412-46143741 chr10:46113227-46113708 chr10:46135264-46135411 chr10:46143742-46143982 47;92 N jcn_only_AA CUFF.157 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 53;47 N alternative_donor CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485028-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 990;1151 N jcn_only_AA chr10 + chr10:35416496-35437295 chr10:35416496-35426709 91;66 K cassette CUFF.173 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 50;228 K cassette CUFF.173 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 50;77 K cassette CUFF.152 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 19;534 N jcn_only_AA CUFF.150 chr10 + chr10:70661228-70666466;chr10:70661228-70665981 chr10:70661228-70666039 28;23 N alternative_donor CUFF.156 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 6;95 N alternative_donor CUFF.146 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 198;14 N alternative_donor CUFF.174 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 387;1918 K alternative_last_exon CUFF.157 chr10 - chr10:78761339-78771724,chr10:78737397-78771724,chr10:78734332-78771724;chr10:78729826-78771724 chr10:78755467-78771724 chr10:78729732-78729825 chr10:78755057-78755466 91;146 N alternative_acceptor CUFF.118 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:356033-370959 chr10:356032-356033 2;51 K mutually_exclusive CUFF.173 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 129;12 N alternative_donor ENSG00000230500.1 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 12;40 N alternative_first_exon CUFF.152 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975539 chr10:73973090-73975964 chr10:73976579-73976665;chr10:73975540-73975867 chr10:73975965-73976054 275;78 N alternative_first_exon CUFF.152 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73976579-73976665;chr10:73975965-73976054 chr10:73975540-73975867 132;221 N alternative_donor CUFF.139,CUFF.152 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 57;52 N alternative_donor CUFF.118,CUFF.154 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 8;23 N alternative_donor CUFF.118 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 5;9 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 502;99 K cassette CUFF.156 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 41;78 K cassette CUFF.173 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 73;531 N alternative_donor CUFF.135 chr10 + chr10:35485071-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35484143-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 1768;373 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 34;22 N jcn_only_AD chr10 - chr10:78729826-78761164;chr10:78729826-78734244 chr10:78729826-78771724 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 44;40 N alternative_acceptor CUFF.157 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 120;43 N jcn_only_AD CUFF.156 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 6;28 N jcn_only_AD CUFF.131 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 64;5 N cassette CUFF.135 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 767;722 K intron_retention CUFF.146 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 23;135 N alternative_acceptor CUFF.120 chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35441207 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 1931;579 K coord_cassette CUFF.120 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 42;519 N jcn_only_AA CUFF.146 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 198;13 K alternative_donor CUFF.166 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 36;37 N intron_retention chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 6;109 K cassette CUFF.173 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 5;484 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 107;135 N jcn_only_AA CUFF.157 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 62;38 N alternative_donor chr10 - chr10:78729826-78761164;chr10:78729826-78734244 chr10:78729826-78771724 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 172;40 K cassette CUFF.147 chr10 - chr10:69583151-69597691 chr10:69583151-69587299;chr10:69587442-69597691 chr10:69587300-69587441 72;25 N jcn_only_AD CUFF.118,CUFF.154 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 8;7 N alternative_acceptor CUFF.160 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 52;15 N alternative_donor CUFF.157,CUFF.176 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 147;19 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822 chr10:35437420-35467799 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 2450;60 N alternative_acceptor CUFF.152 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 396;73 N alternative_donor chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274030-44274154 chr10:44274154-44274155 3;20 K cassette CUFF.120 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 82;192 N alternative_acceptor CUFF.127 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 57;130 N jcn_only_AD CUFF.135 chr10 + chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485071-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 340;17 N jcn_only_AA CUFF.135 chr10 + chr10:35416122-35426709;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35467816 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 315;61 K jcn_only_AA CUFF.150 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 32;28 K cassette CUFF.139 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 chr10:46147414-46147481;chr10:46158990-46159290 19;174 K alternative_acceptor CUFF.165 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 6;14 N jcn_only_AD CUFF.152 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 332;32 K alternative_acceptor CUFF.147 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 18;25 N jcn_only_AA CUFF.157 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 65;43 N alternative_donor CUFF.160,CUFF.177 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 52;11 N alternative_acceptor CUFF.157 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 128;81 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816 chr10:35464634-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 1558;102 K jcn_only_AA CUFF.176 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 4;27 N alternative_acceptor CUFF.146 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 198;23 N jcn_only_AD CUFF.139 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 65;10 K coord_cassette CUFF.131 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 3;131 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 351;91 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35442988 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 488;19 N jcn_only_AD CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485028-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 248;109 N jcn_only_AD chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 164;66 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35426808-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 1643;17 K jcn_only_AA CUFF.120 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 7;135 K alternative_last_exon CUFF.157 chr10 - chr10:78823902-78832854;chr10:78799396-78832854 chr10:78831404-78832854 chr10:78799286-78799395 chr10:78830995-78831403 174;694 K alternative_first_exon CUFF.134,CUFF.139 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35378823 chr10:35360268-35379357 chr10:35363120-35363224;chr10:35378824-35378984 chr10:35379358-35379584 165;98 N alternative_acceptor CUFF.157 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 156;7 N jcn_only_AD CUFF.152 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 244;16 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 222;379 N alternative_acceptor CUFF.139 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 98;492 N jcn_only_AA CUFF.135 chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35495822 chr10:35416122-35437295 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 277;99 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35437420-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 1262;398 K cassette CUFF.129 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 73;88 N coord_cassette CUFF.173 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 17;453 K cassette CUFF.147 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575888-69583071 chr10:69575798-69575887 63;70 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35416122-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 682;61 N alternative_donor CUFF.174 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 2021;284 K intron_retention CUFF.152 chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 13;68 N jcn_only_AD CUFF.134,CUFF.139 chr10 - chr10:46113709-46143741;chr10:46113709-46120030 chr10:46113709-46116227 chr10:46113588-46113708 81;38 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35460243-35468061 chr10:35467915-35468061 52;869 K alternative_last_exon CUFF.173 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499939-123503373 chr10:123542025-123542214 1123;295 N jcn_only_AA CUFF.157 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 128;20 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35464780 99;135 N jcn_only_AA CUFF.135 chr10 + chr10:35416122-35467816;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35426709 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 212;164 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35464634-35467816 chr10:35456732-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 1536;124 K mutually_exclusive CUFF.160 chr10 - chr10:80808690-80814352,chr10:80814486-80825503 chr10:80808690-80810038,chr10:80810175-80825503 chr10:80814353-80814485 chr10:80810039-80810174 28;126 K mutually_exclusive CUFF.131 chr10 - chr10:27059275-27060003,chr10:27060019-27065993 chr10:27059275-27059451,chr10:27059470-27065993 chr10:27060004-27060018 chr10:27059452-27059469 69;23 K jcn_only_AA CUFF.135 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 739;592 K alternative_first_exon CUFF.134 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35379357 chr10:35360268-35378823 chr10:35363120-35363224;chr10:35379358-35379584 chr10:35378824-35378984 193;70 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35437420-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 466;277 K intron_retention CUFF.152 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 82;212 K alternative_first_exon CUFF.123 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186867-6186976 chr10:6244778-6245299 11;656 N jcn_only_AD CUFF.174 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 1147;11 K alternative_first_exon CUFF.134 chr10 - chr10:35360268-35379106;chr10:35360268-35379357;chr10:35360268-35378823 chr10:35360268-35363119 chr10:35379358-35379584;chr10:35378824-35378984 chr10:35363120-35363224 179;84 K cassette CUFF.155 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 18;28 N intron_retention CUFF.152 chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 78;57 K jcn_only_AD CUFF.166 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 36;11 N jcn_only_AA chr10 - chr10:27048168-27054146 chr10:27052890-27054146 31;9 K alternative_last_exon CUFF.127 chr10 - chr10:17636383-17645558 chr10:17641411-17645558 chr10:17636204-17636382 chr10:17641110-17641410 39;189 N jcn_only_AD CUFF.118 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 5;5 N alternative_acceptor CUFF.152 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 400;92 K cassette CUFF.173 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 8;680 N jcn_only_AA CUFF.118 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:356033-370959 chr10:356032-356033 2;20 N jcn_only_AD CUFF.135 chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35468205-35490378 chr10:35477317-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 306;51 N jcn_only_AD CUFF.146 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 198;4 N alternative_donor CUFF.127,CUFF.157 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 111;19 K cassette CUFF.600 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 385;608 N intron_retention chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 22;65 N jcn_only_AD CUFF.597 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 18;667 K coord_cassette CUFF.600 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77004144;chr17:77004254-77005745 chr17:76996182-76996352;chr17:77001454-77001563;chr17:77004145-77004253 49;361 N intron_retention CUFF.604 chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 6;119 N jcn_only_AD CUFF.544 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 301;4 K intron_retention CUFF.597 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 chr17:66511128-66511260;chr17:66511535-66511717 45;66 K intron_retention chr17 + chr17:79890661-79890871 chr17:79890660-79890661;chr17:79890871-79890872 12;290 N alternative_acceptor CUFF.589 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 33;86 K cassette CUFF.600 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 403;400 N jcn_only_AA CUFF.608 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 490;11 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 83;503 K alternative_first_exon CUFF.581 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307939-47308224 chr17:47307830-47307890 985;901 N jcn_only_AA CUFF.540 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 131;26 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 16;223 N jcn_only_AA CUFF.544 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 311;6 K intron_retention CUFF.604 chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 12;134 N intron_retention chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 8;89 N jcn_only_AA CUFF.593 chr17 + chr17:61904884-61907492 chr17:61904884-61904979 chr17:61904980-61907492 chr17:61907492-61907493 chr17:61907493-61907549 81;23 N jcn_only_AA CUFF.580 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 34;48 N jcn_only_AD CUFF.587 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 22;23 N cassette CUFF.556 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 58;150 K alternative_acceptor CUFF.589 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 171;428 N cassette CUFF.536 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 19;484 K coord_cassette CUFF.600 chr17 - chr17:76996353-77005745 chr17:76996353-77001453;chr17:77001564-77004144;chr17:77004254-77005745 chr17:77001454-77001563;chr17:77004145-77004253 354;102 K intron_retention CUFF.593 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 chr17:61908866-61908976;chr17:61909084-61909170 202;18 N intron_retention CUFF.604 chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 68;135 N jcn_only_AA CUFF.556,CUFF.597 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 420;46 N intron_retention CUFF.604 chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 52;136 K alternative_first_exon CUFF.579 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46710928 chr17:46685591-46685606 136;15 N alternative_donor CUFF.584 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 303;14 N alternative_acceptor CUFF.580 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 34;158 N mutually_exclusive CUFF.608 chr17 + chr17:80426773-80436446,chr17:80436544-80436675 chr17:80426773-80430439,chr17:80430575-80436675 chr17:80436447-80436543 chr17:80430440-80430574 283;528 N jcn_only_AD CUFF.597 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 420;42 N intron_retention CUFF.593 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 chr17:61908169-61908295 22;7 N alternative_donor CUFF.597 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 18;716 N jcn_only_AA CUFF.538 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 81;8 N alternative_acceptor CUFF.602 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 466;12 K coord_cassette CUFF.600 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77004144;chr17:77004254-77005745 chr17:76996182-76996352;chr17:77001454-77001563;chr17:77004145-77004253 28;361 N jcn_only_AA CUFF.601 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 55;64 N cassette CUFF.608 chr17 + chr17:80426773-80436675;chr17:80430575-80436675 chr17:80430575-80436446,chr17:80426773-80436446;chr17:80436544-80436675 chr17:80436447-80436543 288;635 K alternative_first_exon CUFF.607 chr17 - chr17:79994890-79995325;chr17:79994890-79995506 chr17:79994890-79995489 chr17:79995507-79995649 chr17:79995490-79995491 298;23 K cassette CUFF.574 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 27;335 N coord_cassette CUFF.600 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 6;1173 N jcn_only_AA CUFF.556 chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 7;488 K alternative_first_exon CUFF.550 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380292-17380579 chr17:17388614-17388747 29;26 N alternative_donor CUFF.576,CUFF.603 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 60;39 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 75;16 N alternative_acceptor CUFF.603 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 235;40 N alternative_acceptor CUFF.601 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 55;281 N jcn_only_AA CUFF.550 chr17 + chr17:61560051-61560820 chr17:61560051-61560389 16;33 N intron_retention CUFF.603 chr17 - chr17:79479387-79479631 chr17:79479386-79479387;chr17:79479631-79479632 16;13 N alternative_acceptor CUFF.607 chr17 - chr17:79994890-79995506;chr17:79995418-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 891;837 N alternative_acceptor chr17 + chr17:60783831-60784792;chr17:60783831-60813446 chr17:60783831-60803388 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 99;20 N intron_retention chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 11;58 K intron_retention CUFF.557 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 6;67 K intron_retention CUFF.544 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 35;17 N jcn_only_AA chr17 + chr17:29664899-29665042;chr17:29664899-29667522 chr17:29664899-29665019 54;9 K jcn_only_AA CUFF.603 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 19;245 K coord_cassette CUFF.559 chr17 + chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704;chr17:29584745-29585361 chr17:29579956-29580018;chr17:29584705-29584744 10;119 K intron_retention CUFF.603 chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 22;189 N alternative_acceptor CUFF.604 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 81;788 N intron_retention chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 38;112 N jcn_only_AA CUFF.537 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 483;9 K intron_retention CUFF.544 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 115;20 N intron_retention chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 16;123 K intron_retention CUFF.606 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 312;15 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 chr17:61907631-61907861 49;11 K intron_retention CUFF.608 chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 13;78 N alternative_donor CUFF.559 chr17 + chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29645582 chr17:29592357-29592358 11;124 N alternative_acceptor CUFF.547 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 465;257 K intron_retention CUFF.600 chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 6;105 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 43;120 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 28;147 N jcn_only_AA chr17 + chr17:61907310-61907630 chr17:61907310-61907492 49;239 N coord_cassette CUFF.569 chr17 - chr17:34500807-34503839 chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839 chr17:34502090-34502175;chr17:34502339-34502411 32;23 N jcn_only_AA chr17 + chr17:60783831-60784792;chr17:60783831-60803388 chr17:60783831-60813446 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 16;13 N cassette CUFF.547 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 21;554 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 45;36 K cassette CUFF.585 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777551-57784731 chr17:57776232-57777550 15;608 K alternative_donor CUFF.580 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 39;49 K intron_retention CUFF.607 chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 21;581 N intron_retention CUFF.538 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 8;23 K alternative_first_exon CUFF.596 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66287227-66287257 chr17:66281686-66281700 4;14 N intron_retention chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 21;201 K jcn_only_AA CUFF.554 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 138;9 N alternative_donor CUFF.589 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 199;647 N cassette CUFF.547 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 119;773 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 14;262 K coord_cassette CUFF.608 chr17 + chr17:80426773-80436675 chr17:80426773-80430439;chr17:80430575-80436446;chr17:80436544-80436675 chr17:80430440-80430574;chr17:80436447-80436543 73;602 N jcn_only_AA CUFF.603 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 235;22 N coord_cassette CUFF.547 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178 chr17:15562116-15562190;chr17:15580490-15580594 46;89 N alternative_first_exon CUFF.536 chr17 - chr17:653150-654890;chr17:653150-655372 chr17:653150-655857 chr17:654891-654942;chr17:655373-655501 chr17:655858-655997 53;360 N intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 6;1094 K cassette CUFF.600 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 203;1526 K alternative_last_exon CUFF.556 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25969264-25969374 chr17:25967991-25968047 194;82 N jcn_only_AD CUFF.544 chr17 + chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724 chr17:6348662-6348663 48;311 N jcn_only_AA CUFF.592 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 77;3 N jcn_only_AD CUFF.537 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 118;64 N jcn_only_AD chr17 - chr17:37595447-37596875 chr17:37595447-37596638 2;4 N cassette CUFF.580 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 25;96 K alternative_first_exon CUFF.602,CUFF.603 chr17 - chr17:79479387-79479631;chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79479759,chr17:79479387-79479640 chr17:79479387-79490667 chr17:79479490-79479620;chr17:79481573-79481642;chr17:79479760-79479900 chr17:79490668-79490756 262;23 K jcn_only_AD CUFF.537,CUFF.571 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 182;80 K alternative_last_exon CUFF.601 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250831-79250933 chr17:79253497-79253960 47;684 N jcn_only_AA CUFF.537 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 374;118 N jcn_only_AA CUFF.607 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 604;40 K cassette CUFF.588 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 chr17:61555292-61555459 5;359 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 chr17:66511535-66511717 31;126 N cassette CUFF.597 chr17 + chr17:66509120-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 chr17:66507921-66508283;chr17:66511535-66511717 295;76 K cassette CUFF.571 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 8;96 K intron_retention CUFF.538 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 120;52 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 chr17:66511535-66511717 290;74 N jcn_only_AD CUFF.607 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 421;16 N alternative_acceptor CUFF.547 chr17 - chr17:15557746-15584178;chr17:15580997-15584178 chr17:15581036-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 50;380 K intron_retention CUFF.593 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 chr17:61907493-61907549 81;781 K intron_retention CUFF.538 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 81;41 K cassette CUFF.545 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 7;29 N jcn_only_AD CUFF.607 chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 73;364 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 95;117 K intron_retention CUFF.538 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 52;78 N jcn_only_AA CUFF.537 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 203;202 N jcn_only_AA chr17 + chr17:60783831-60784792;chr17:60783831-60813446 chr17:60783831-60803388 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 26;3 N jcn_only_AA CUFF.537 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 325;80 N cassette CUFF.547 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 38;357 N coord_cassette CUFF.556 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 4;365 K jcn_only_AD CUFF.579,CUFF.607 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 99;604 K intron_retention CUFF.588 chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 chr17:61555292-61555459 75;156 K intron_retention CUFF.600 chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 71;410 N jcn_only_AA chr17 + chr17:29664899-29665042;chr17:29664899-29665019 chr17:29664899-29667522 39;24 N jcn_only_AA CUFF.537 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 409;83 N alternative_donor CUFF.589 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 681;165 N cassette CUFF.548 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 31;17 N jcn_only_AD CUFF.584,CUFF.607 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 36;16 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 chr17:66511128-66511260 14;72 K alternative_first_exon CUFF.577 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339479 64;150 K intron_retention CUFF.603 chr17 - chr17:79477356-79477504 chr17:79477355-79477356;chr17:79477504-79477505 18;350 N jcn_only_AA CUFF.540 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 159;12 N jcn_only_AD CUFF.592,CUFF.601 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 32;22 N jcn_only_AD chr17 + chr17:29664899-29667522 chr17:29665824-29667522 24;50 N intron_retention chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 380;15 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 40;183 N alternative_acceptor CUFF.556 chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 7;2229 N alternative_donor CUFF.597 chr17 + chr17:66509112-66511127;chr17:66509120-66511127 chr17:66508284-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 396;8 N jcn_only_AA CUFF.597 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 504;15 N mutually_exclusive CUFF.547 chr17 - chr17:15584268-15586167,chr17:15586266-15586349 chr17:15584268-15584364,chr17:15584537-15586349 chr17:15586168-15586265 chr17:15584365-15584536 686;28 K alternative_acceptor CUFF.603 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 19;334 K intron_retention CUFF.601 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 94;135 K coord_cassette CUFF.600 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 49;969 N intron_retention chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 48;250 K intron_retention CUFF.538 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 268;381 K alternative_first_exon CUFF.608 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416707-80417867;chr17:80417325-80417867 chr17:80416394-80417867 chr17:80416539-80416706;chr17:80417227-80417324 chr17:80416056-80416393 932;308 N jcn_only_AA chr17 + chr17:66508690-66511534 chr17:66508690-66509050 chr17:66509051-66511534 chr17:66511534-66511535 chr17:66511535-66511717 108;21 N jcn_only_AA CUFF.602 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 98;380 K intron_retention CUFF.584 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 46;41 N alternative_acceptor CUFF.537 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 1208;10 K intron_retention CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 2331;9 K jcn_only_AD CUFF.603 chr17 - chr17:79479387-79479759 chr17:79479387-79479640 chr17:79479641-79479759 chr17:79479759-79479760 142;16 K cassette CUFF.558 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 33;102 K jcn_only_AD CUFF.580 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 39;26 K coord_cassette CUFF.600 chr17 - chr17:76994046-77005745 chr17:76994046-77001453;chr17:77001564-77004144;chr17:77004254-77005745 chr17:77001454-77001563;chr17:77004145-77004253 49;102 N alternative_acceptor chr17 + chr17:60783831-60784792;chr17:60783831-60803388 chr17:60783831-60813446 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 106;13 N alternative_first_exon CUFF.536 chr17 - chr17:653150-655857;chr17:653150-654890 chr17:653150-655372 chr17:655858-655997;chr17:654891-654942 chr17:655373-655501 369;44 K intron_retention CUFF.607 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 963;178 K intron_retention CUFF.538 chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 22;43 N alternative_donor CUFF.607 chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 120;364 N intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 64;131 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 18;76 K alternative_last_exon CUFF.550 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396540 chr17:17388614-17388897 88;60 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 6;22 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 58;378 N coord_cassette CUFF.547 chr17 - chr17:15584268-15586349 chr17:15584268-15584364;chr17:15584537-15586167;chr17:15586266-15586349 chr17:15584365-15584536;chr17:15586168-15586265 100;109 N jcn_only_AA CUFF.602 chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 10;263 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 20;48 N jcn_only_AA CUFF.601 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 3;74 N jcn_only_AA CUFF.589 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 415;21 K intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 48;1085 N coord_cassette CUFF.556 chr17 + chr17:25969375-25972886 chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886 chr17:25970551-25970646;chr17:25972340-25972375 17;178 K coord_cassette CUFF.600 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 49;464 N alternative_donor CUFF.601,CUFF.603 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 235;16 N alternative_donor CUFF.604 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 624;19 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 313;85 N intron_retention chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 chr17:66511535-66511717 108;42 N alternative_donor CUFF.597 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 420;42 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 83;829 N alternative_acceptor CUFF.540 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 131;42 N alternative_donor CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907550-61907630 chr17:61907310-61907549 chr17:61907309-61907310 chr17:61907631-61907861 49;2163 K intron_retention CUFF.585 chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 42;19 N cassette CUFF.608 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 17;728 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 36;108 N alternative_acceptor CUFF.602 chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 10;263 N mutually_exclusive CUFF.547 chr17 - chr17:15584268-15586174,chr17:15586266-15586349 chr17:15584268-15584364,chr17:15584537-15586349 chr17:15586175-15586265 chr17:15584365-15584536 369;28 N alternative_acceptor CUFF.608 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 576;72 N intron_retention chr17 + chr17:25965381-25967668 chr17:25965380-25965381;chr17:25967668-25967669 39;217 K intron_retention CUFF.538 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 75;47 K alternative_first_exon CUFF.604 chr17 - chr17:79894738-79894845,chr17:79894738-79895055,chr17:79894738-79895103,chr17:79894738-79895133,chr17:79894738-79895137;chr17:79894738-79895403 chr17:79894738-79895068 chr17:79895404-79895593 chr17:79895069-79895103 339;12 N cassette CUFF.608 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 115;1450 N jcn_only_AA CUFF.601 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 50;18 K jcn_only_AD CUFF.538 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 313;22 N jcn_only_AA CUFF.608 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 43;313 N alternative_acceptor CUFF.608 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 43;963 N cassette CUFF.600 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 6;795 K cassette CUFF.581 chr17 - chr17:47302494-47304008 chr17:47302494-47303017;chr17:47303140-47304008 chr17:47303018-47303139 506;183 N alternative_donor CUFF.584 chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 284;33 K alternative_last_exon CUFF.547 chr17 - chr17:15546131-15562115;chr17:15555261-15562115 chr17:15557749-15562115 chr17:15546035-15546130;chr17:15555162-15555260 chr17:15557658-15557748 209;80 N alternative_acceptor CUFF.537 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 1194;45 N jcn_only_AD CUFF.584 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 54;14 N cassette CUFF.604 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 38;459 N jcn_only_AA chr17 + chr17:29664899-29665019;chr17:29664899-29667522 chr17:29664899-29665042 33;30 N jcn_only_AD CUFF.597 chr17 + chr17:66509120-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 19;14 K jcn_only_AA CUFF.568 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 9;22 N alternative_acceptor CUFF.608 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 546;102 N jcn_only_AD CUFF.576,CUFF.603 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 60;16 N alternative_donor CUFF.587 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 69;43 N jcn_only_AA chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75544053-75557026 chr17:75557026-75557027 22;6 N jcn_only_AA chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 204;8 K alternative_first_exon CUFF.603 chr17 - chr17:79479387-79479631;chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79479759,chr17:79479387-79479640 chr17:79479387-79481572 chr17:79479490-79479620;chr17:79490668-79490756;chr17:79479760-79479900 chr17:79481573-79481642 268;17 K jcn_only_AD CUFF.608 chr17 + chr17:80442807-80443372 chr17:80442827-80443372 chr17:80442807-80442826 chr17:80442806-80442807 25;285 N jcn_only_AD CUFF.587 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 36;9 N jcn_only_AA CUFF.547 chr17 - chr17:15557746-15584178;chr17:15580997-15584178 chr17:15581036-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 50;298 N alternative_acceptor CUFF.607 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 1707;21 N jcn_only_AD CUFF.608 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 464;24 N jcn_only_AD CUFF.589 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 378;50 N cassette CUFF.563 chr17 + chr17:29706042-29708890 chr17:29706042-29706123;chr17:29706376-29708890 chr17:29706124-29706375 14;311 K intron_retention CUFF.537 chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 182;582 N alternative_acceptor chr17 + chr17:66508690-66511534 chr17:66508690-66509050 chr17:66509051-66511534 chr17:66511534-66511535 chr17:66511535-66511717 108;229 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 18;557 N intron_retention chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 117;84 N alternative_acceptor CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 2331;27 K intron_retention CUFF.593 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 128;100 K alternative_first_exon CUFF.579 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685606 chr17:46710876-46710928 134;17 N cassette CUFF.547 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15580997-15584178 chr17:15580889-15580996 21;190 N coord_cassette CUFF.547 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15580888;chr17:15581036-15584178 chr17:15562116-15562190;chr17:15580490-15580594;chr17:15580889-15581035 46;730 N jcn_only_AA CUFF.602 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 466;12 N cassette CUFF.580 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 25;107 K coord_cassette CUFF.574 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 95;102 K alternative_acceptor CUFF.584 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 1198;97 N cassette CUFF.544 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 9;336 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 50;115 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 9;550 K intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 202;23 K intron_retention CUFF.537 chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 80;115 N alternative_donor chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 47;270 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 100;490 K intron_retention CUFF.580 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 39;35 K intron_retention CUFF.603 chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 16;13 N alternative_donor CUFF.593 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 chr17:61907493-61907549 81;1042 K alternative_last_exon CUFF.546 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491704-15492541 19;156 K intron_retention CUFF.593 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 chr17:61908687-61908785;chr17:61908866-61908976 400;14 N alternative_donor CUFF.587 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 66;46 N jcn_only_AD chr17 + chr17:61904875-61905497 chr17:61905284-61905497 117;75 N cassette CUFF.537 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 457;824 N intron_retention chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 115;50 N jcn_only_AD CUFF.538 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 12;78 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 14;84 N jcn_only_AD CUFF.589 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 17;425 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 7;36 N alternative_donor CUFF.597 chr17 + chr17:66509112-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 195;209 N cassette CUFF.604 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 36;495 K cassette CUFF.596 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 10;81 K coord_cassette CUFF.600 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 126;638 N jcn_only_AA CUFF.537 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 360;45 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 537;357 K intron_retention CUFF.607 chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 263;518 N alternative_donor chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 29;614 N alternative_acceptor CUFF.544 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 311;53 N jcn_only_AA CUFF.601 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 50;18 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 83;45 N alternative_acceptor chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 39;375 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 33;16 K alternative_first_exon CUFF.602 chr17 - chr17:79354385-79355676;chr17:79354385-79358928 chr17:79354385-79358745 chr17:79358929-79359160 chr17:79358746-79358747 552;10 N coord_cassette CUFF.547 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 6;427 N jcn_only_AD CUFF.540 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 9;37 N alternative_donor CUFF.597 chr17 + chr17:66509120-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 217;187 N intron_retention CUFF.603 chr17 - chr17:79478653-79478788 chr17:79478652-79478653;chr17:79478788-79478789 16;19 N intron_retention CUFF.607 chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 269;380 N jcn_only_AD CUFF.597 chr17 + chr17:66509112-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 22;11 N alternative_acceptor CUFF.607 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 858;870 K intron_retention CUFF.546 chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 8;108 K intron_retention CUFF.552 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 88;43 K cassette CUFF.556 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 21;432 K intron_retention CUFF.547 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 465;120 N jcn_only_AA CUFF.589 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 399;37 K intron_retention CUFF.607 chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 23;571 K cassette CUFF.600 chr17 - chr17:77001564-77005745 chr17:77001564-77004144;chr17:77004254-77005745 chr17:77004145-77004253 141;53 N jcn_only_AA CUFF.547 chr17 - chr17:15581036-15584178;chr17:15580997-15584178 chr17:15557746-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 318;30 N jcn_only_AD CUFF.584 chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 62;6 N intron_retention chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 240;130 N jcn_only_AD chr17 + chr17:61905570-61907211 chr17:61906924-61907211 19;243 N jcn_only_AD CUFF.608 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 563;19 N jcn_only_AD CUFF.587 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 32;13 N alternative_acceptor CUFF.601 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 54;69 N alternative_acceptor CUFF.602 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 392;86 N jcn_only_AD CUFF.538 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 65;22 N intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 chr17:61907493-61907549 239;744 K intron_retention CUFF.607 chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 99;165 K alternative_donor CUFF.538 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 313;380 N jcn_only_AA chr17 + chr17:29687722-29701030 chr17:29687722-29694242 35;6 N alternative_acceptor CUFF.537 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 420;819 K intron_retention CUFF.601 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 32;77 N jcn_only_AA CUFF.547 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 465;22 K alternative_first_exon CUFF.603 chr17 - chr17:79479387-79479631;chr17:79479387-79490667;chr17:79479387-79481572;chr17:79479387-79479759,chr17:79479387-79479640 chr17:79479387-79479489 chr17:79490668-79490756;chr17:79481573-79481642;chr17:79479760-79479900 chr17:79479490-79479620 259;26 K alternative_last_exon CUFF.547 chr17 - chr17:15546131-15562115;chr17:15557749-15562115 chr17:15555261-15562115 chr17:15546035-15546130;chr17:15557658-15557748 chr17:15555162-15555260 109;180 N cassette CUFF.540 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 39;159 K jcn_only_AA CUFF.580,CUFF.597 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 14;27 K intron_retention CUFF.556 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 78;20 N jcn_only_AD CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907550-61907630 chr17:61907310-61907549 chr17:61907309-61907310 chr17:61907631-61907861 49;1090 N alternative_acceptor CUFF.602 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 98;380 K intron_retention CUFF.584 chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 1198;41 N jcn_only_AA CUFF.576 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 60;14 K intron_retention CUFF.574 chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 51;47 K cassette CUFF.574 chr17 - chr17:40738910-40744073 chr17:40738910-40739851;chr17:40739883-40744073 chr17:40739852-40739882 54;176 N jcn_only_AA CUFF.547 chr17 - chr17:15557746-15584178;chr17:15581036-15584178 chr17:15580997-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 328;20 N alternative_donor CUFF.536,CUFF.607 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 386;98 N jcn_only_AA CUFF.607 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 220;242 N alternative_acceptor CUFF.537 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 1067;172 K alternative_last_exon CUFF.547 chr17 - chr17:15557749-15562115;chr17:15555261-15562115 chr17:15546131-15562115 chr17:15557658-15557748;chr17:15555162-15555260 chr17:15546035-15546130 260;29 N jcn_only_AD chr17 + chr17:29687722-29701030 chr17:29694297-29701030 35;6 N cassette CUFF.556 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 27;188 N alternative_acceptor CUFF.589 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 399;37 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 chr17:61907631-61907861 38;2007 K alternative_acceptor CUFF.554 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 138;61 N alternative_acceptor CUFF.537 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 851;367 N alternative_acceptor CUFF.547 chr17 - chr17:15557746-15584178;chr17:15581036-15584178 chr17:15580997-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 410;20 N alternative_first_exon CUFF.537 chr17 - chr17:79355741-79358928 chr17:79355741-79358745 chr17:79358929-79359160 chr17:79358746-79358747 20;263 K alternative_first_exon CUFF.579 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46710928;chr17:46685591-46685606 chr17:46687881-46688379 32;119 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 chr17:66511128-66511260 11;54 N jcn_only_AA CUFF.601 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 36;32 N cassette CUFF.540 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 61;222 N cassette CUFF.548 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 22;78 K alternative_last_exon CUFF.544 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353682-6354789 chr17:6353559-6353612 213;115 K intron_retention CUFF.608 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 474;126 N alternative_acceptor CUFF.601 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 87;36 K alternative_last_exon CUFF.593,CUFF.597 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66547225-66547306 chr17:66526418-66529573 21;1380 K alternative_first_exon CUFF.608 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436676-80436794 chr17:80438420-80438420 609;13 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 14;163 N jcn_only_AA CUFF.538 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 28;16 K alternative_donor CUFF.579,CUFF.607 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 99;679 N alternative_first_exon CUFF.593 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61908031-61908295 chr17:61908396-61908586 49;3954 K intron_retention CUFF.603 chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 142;79 N alternative_acceptor CUFF.593 chr17 + chr17:61904884-61907492 chr17:61904884-61904979 chr17:61904980-61907492 chr17:61907492-61907493 chr17:61907493-61907549 81;1793 K cassette CUFF.556 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 42;318 N alternative_acceptor chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75544053-75557026 chr17:75557026-75557027 22;27 N alternative_acceptor CUFF.597 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 504;19 N jcn_only_AA CUFF.607 chr17 - chr17:79994890-79995506;chr17:79995418-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 263;199 N jcn_only_AA chr17 + chr17:61905570-61907211 chr17:61905570-61906853 19;221 N jcn_only_AD CUFF.559 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 72;15 K alternative_donor CUFF.603 chr17 - chr17:79479387-79479759 chr17:79479387-79479640 chr17:79479641-79479759 chr17:79479759-79479760 142;107 N jcn_only_AA CUFF.540 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 168;3 N alternative_acceptor CUFF.538 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 81;36 N mutually_exclusive CUFF.604 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 18;23 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 58;378 N alternative_donor CUFF.604 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 633;10 K intron_retention CUFF.607 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 678;251 N jcn_only_AD chr17 + chr17:29677337-29683477 chr17:29679433-29683477 37;29 N alternative_acceptor CUFF.537 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 1195;44 K intron_retention CUFF.556 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 139;46 N alternative_acceptor CUFF.537 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 750;468 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 199;337 N alternative_acceptor CUFF.537 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 314;44 K cassette CUFF.589 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 84;841 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 14;1065 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 75;95 N jcn_only_AD CUFF.589 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 320;34 N cassette CUFF.574 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 10;60 N alternative_acceptor CUFF.556,CUFF.597 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 420;46 K intron_retention CUFF.589 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 239;77 K jcn_only_AA CUFF.589 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 171;250 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 9;21 N alternative_acceptor CUFF.537 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 1135;83 N jcn_only_AD CUFF.589 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 273;81 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 174;38 K intron_retention CUFF.589 chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 81;196 K cassette CUFF.559 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 10;93 N jcn_only_AA CUFF.604 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 81;433 N alternative_donor CUFF.544 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 301;16 K intron_retention chr17 + chr17:25965381-25967597 chr17:25965380-25965381;chr17:25967597-25967598 166;15 K intron_retention CUFF.607 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 1052;289 K cassette CUFF.575 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 37;297 N alternative_acceptor CUFF.607 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 604;130 N cassette CUFF.608 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442807-80443372 chr17:80442689-80442806 17;417 N alternative_donor CUFF.589 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 1589;27 N alternative_donor CUFF.538 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 12;98 N jcn_only_AD CUFF.604 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 381;18 N cassette CUFF.608 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 210;949 N jcn_only_AA CUFF.602 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 392;86 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 196;16 N alternative_donor CUFF.608 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 464;90 K alternative_first_exon CUFF.608 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416394-80417867;chr17:80417325-80417867 chr17:80416707-80417867 chr17:80416056-80416393;chr17:80417227-80417324 chr17:80416539-80416706 421;819 K jcn_only_AA CUFF.584 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 1198;46 N cassette CUFF.538 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 6;165 N cassette CUFF.547 chr17 - chr17:15584268-15586349 chr17:15584268-15586174;chr17:15586266-15586349 chr17:15586175-15586265 100;369 N alternative_acceptor CUFF.601 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 105;18 N cassette CUFF.570 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 50;29 N intron_retention CUFF.604 chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 55;131 N coord_cassette CUFF.604 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 29;714 N cassette CUFF.547 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 6;141 N jcn_only_AA CUFF.559 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 72;7 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 179;33 K alternative_donor CUFF.537,CUFF.571 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 182;864 N jcn_only_AD CUFF.559 chr17 + chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29645582 chr17:29592357-29592358 11;40 N jcn_only_AA CUFF.537 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 391;14 N jcn_only_AD CUFF.589 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 436;6 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 28;71 N jcn_only_AD CUFF.601,CUFF.603 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 235;16 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 100;986 N jcn_only_AA chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 27;474 N alternative_donor CUFF.584,CUFF.607 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 36;19 N alternative_donor CUFF.540 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 9;341 N alternative_acceptor CUFF.537 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 1080;159 K coord_cassette CUFF.574 chr17 - chr17:40738156-40761103 chr17:40738156-40739851;chr17:40739883-40744073;chr17:40744181-40761103 chr17:40739852-40739882;chr17:40744074-40744180 51;206 N alternative_donor CUFF.608 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 563;23 N jcn_only_AA CUFF.537 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 310;182 N alternative_donor CUFF.589 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 812;34 N jcn_only_AD CUFF.597 chr17 + chr17:66509112-66511127;chr17:66509120-66511127 chr17:66508284-66511127 chr17:66508284-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 25;8 N alternative_acceptor chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 28;448 N alternative_donor CUFF.592,CUFF.601 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 32;480 N coord_cassette CUFF.600 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 6;260 N jcn_only_AA chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 39;166 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 chr17:66511535-66511717 12;62 K intron_retention CUFF.593 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 chr17:61907359-61907549;chr17:61907631-61907861 1090;11 N intron_retention CUFF.604 chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 8;141 K alternative_first_exon CUFF.580 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985731-46986182 chr17:46990196-46990327 35;86 N jcn_only_AA CUFF.607 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 441;21 N intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 221;46 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 14;25 K alternative_last_exon CUFF.546 chr17 - chr17:15498205-15499827;chr17:15492542-15499827 chr17:15498141-15499827 chr17:15491704-15492541 chr17:15498062-15498140 191;39 K alternative_acceptor CUFF.568 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 9;22 N jcn_only_AD chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 28;371 N alternative_acceptor CUFF.601 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 3;305 K intron_retention CUFF.603 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 147;142 K alternative_first_exon CUFF.608 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416394-80417867;chr17:80416707-80417867 chr17:80417325-80417867 chr17:80416056-80416393;chr17:80416539-80416706 chr17:80417227-80417324 1210;30 N jcn_only_AA chr17 + chr17:29677337-29683477 chr17:29677337-29679274 37;26 K intron_retention CUFF.607 chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 604;178 K intron_retention CUFF.577 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 20;30 N jcn_only_AA CUFF.537 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 341;64 K alternative_first_exon CUFF.546,CUFF.581 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496809 46;59 K alternative_first_exon CUFF.603 chr17 - chr17:79479387-79479631;chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79481572 chr17:79479387-79479759,chr17:79479387-79479640 chr17:79479490-79479620;chr17:79490668-79490756;chr17:79481573-79481642 chr17:79479760-79479900 82;203 N coord_cassette CUFF.547 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15580888;chr17:15580997-15584178 chr17:15562116-15562190;chr17:15580490-15580594;chr17:15580889-15580996 46;458 N cassette CUFF.596 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 23;32 N jcn_only_AA CUFF.589 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 16;13 N alternative_donor CUFF.589 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 1610;6 K alternative_first_exon CUFF.592 chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61851972-61852136 chr17:61850772-61851135 59;246 N alternative_acceptor CUFF.592 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 77;3 K intron_retention CUFF.584 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 73;17 N cassette CUFF.547 chr17 - chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15584364;chr17:15584537-15586167,chr17:15584537-15586349 chr17:15584365-15584536 481;97 N alternative_acceptor CUFF.559 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 72;7 N jcn_only_AA CUFF.537 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 314;6 N alternative_donor CUFF.589 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 378;68 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 100;202 N cassette CUFF.601 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 23;59 K cassette CUFF.548 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 43;232 N alternative_donor CUFF.587 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 89;23 N jcn_only_AD CUFF.589 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 115;239 N alternative_donor CUFF.559 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 72;334 N jcn_only_AA CUFF.540 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 15;156 N alternative_donor CUFF.538 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 65;68 K alternative_last_exon CUFF.607 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993778-79993939 171;460 N intron_retention chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 17;14 N intron_retention chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 9;450 N alternative_acceptor CUFF.589 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 415;21 N alternative_donor CUFF.544 chr17 + chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724 chr17:6348662-6348663 48;538 N alternative_acceptor chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 174;474 K intron_retention CUFF.545 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 12;17 N alternative_donor CUFF.537 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 118;848 N jcn_only_AA CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 2331;22 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 324;197 N cassette CUFF.547 chr17 - chr17:15546131-15584178;chr17:15562191-15584178 chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178 chr17:15580490-15580594 286;296 K intron_retention CUFF.597 chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 94;62 N alternative_first_exon CUFF.536 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655858-655997;chr17:655373-655501 chr17:654891-654942 404;9 N jcn_only_AA chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 28;448 N intron_retention chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 17;72 N alternative_acceptor CUFF.547 chr17 - chr17:15581036-15584178;chr17:15580997-15584178 chr17:15557746-15584178 chr17:15557746-15580996;chr17:15580997-15581035 chr17:15557745-15557746;chr17:15580996-15580997 400;30 N jcn_only_AD CUFF.604 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 389;10 N cassette CUFF.547 chr17 - chr17:15546131-15584178;chr17:15555261-15580489;chr17:15546131-15580489 chr17:15546131-15562115,chr17:15555261-15562115;chr17:15562191-15580489,chr17:15562191-15584178 chr17:15562116-15562190 94;690 N alternative_acceptor chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 269;614 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 14;720 K cassette CUFF.559 chr17 + chr17:29576138-29584704 chr17:29576138-29579955;chr17:29580019-29584704 chr17:29579956-29580018 24;76 N intron_retention CUFF.593 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 23;59 K coord_cassette CUFF.548 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 22;26 N jcn_only_AD CUFF.536,CUFF.607 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 380;57 N jcn_only_AD CUFF.589 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 431;11 N intron_retention chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 242;328 N jcn_only_AA chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 269;240 N alternative_acceptor CUFF.537 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 928;290 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 118;598 N intron_retention chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 30;156 N jcn_only_AA CUFF.608 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 485;16 K alternative_first_exon CUFF.558 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421945-29422387 chr17:29455476-29455525 94;53 N jcn_only_AD chr17 + chr17:61560051-61560820 chr17:61560535-61560820 16;29 N jcn_only_AD CUFF.593 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 chr17:61907493-61907549 81;239 N alternative_donor CUFF.589 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 33;1583 K coord_cassette CUFF.600 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 28;464 N cassette CUFF.589 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 52;964 K alternative_donor CUFF.608 chr17 + chr17:80442807-80443372 chr17:80442827-80443372 chr17:80442807-80442826 chr17:80442806-80442807 25;332 N jcn_only_AA CUFF.537 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 392;100 N jcn_only_AD chr17 + chr17:29667602-29670026 chr17:29667664-29670026 49;47 N alternative_acceptor CUFF.538 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 28;38 N intron_retention chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 33;93 N alternative_acceptor CUFF.576 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 60;37 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 16;104 K intron_retention CUFF.575 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 129;35 K alternative_first_exon CUFF.588 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554340-61554704 chr17:61554834-61555151 chr17:61555292-61555459 790;380 N alternative_donor CUFF.607 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 462;22 K coord_cassette CUFF.500 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 188;272 K cassette CUFF.514 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 31;33 K cassette CUFF.482 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 11;59 N alternative_donor CUFF.502 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 99;256 N alternative_donor CUFF.486,CUFF.528 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 77;353 N alternative_acceptor CUFF.468 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 13;159 K jcn_only_AD CUFF.499 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 75;5 K intron_retention CUFF.512 chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 8;10 N alternative_acceptor chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 12;1829 K intron_retention CUFF.505 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 28;51 N cassette CUFF.530 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77775478 chr16:77769725-77769883 46;310 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 372;23 N intron_retention CUFF.486 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 25;137 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 386;9 K intron_retention CUFF.486 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 135;44 N cassette CUFF.481 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 269;336 N intron_retention CUFF.486 chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 12;80 N jcn_only_AD CUFF.525 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 203;16 K cassette CUFF.515 chr16 + chr16:66613796-66620899 chr16:66613796-66613928;chr16:66614088-66620899 chr16:66613929-66614087 chr16:66613351-66613795;chr16:66620900-66621001 7;195 K intron_retention CUFF.499 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 65;31 N jcn_only_AA CUFF.525 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 29;128 N alternative_acceptor CUFF.486 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 327;20 N jcn_only_AA chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 106;57 N jcn_only_AD CUFF.496 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 11;108 K intron_retention CUFF.535 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 219;23 K intron_retention CUFF.535 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 205;75 K alternative_last_exon CUFF.503 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097646-25098044;chr16:25111885-25112006 chr16:25096913-25097093 245;38 N coord_cassette CUFF.530 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77769724;chr16:77769884-77770546;chr16:77770641-77775478 chr16:77759328-77759481;chr16:77769725-77769883;chr16:77770547-77770640 28;450 K intron_retention CUFF.522 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 27;60 K alternative_acceptor CUFF.533 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 11;11 N jcn_only_AD CUFF.468 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 17;29 N cassette CUFF.486 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 17;833 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 371;24 N alternative_acceptor chr16 + chr16:31374696-31382404 chr16:31374696-31381301 chr16:31381302-31382404 chr16:31382404-31382405 19;11 N coord_cassette CUFF.530 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77769724;chr16:77769884-77775478 chr16:77759328-77759481;chr16:77769725-77769883 28;330 K alternative_first_exon CUFF.495 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15188002-15188174 chr16:15187809-15187839 42;11 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 26;209 K intron_retention CUFF.502 chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 136;603 K cassette CUFF.528 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 139;345 K intron_retention CUFF.525 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 67;341 N jcn_only_AA CUFF.496 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 88;6 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 29;8 N jcn_only_AA CUFF.468 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 13;126 N alternative_acceptor CUFF.512 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 559;422 N jcn_only_AD chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 27;10 K alternative_first_exon CUFF.535 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89787864-89788253 102;311 K intron_retention CUFF.505 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 53;57 K alternative_first_exon CUFF.502 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521908 20;1311 K cassette CUFF.499 chr16 + chr16:21737980-21739561 chr16:21737980-21738432;chr16:21738481-21739561 chr16:21738433-21738480 128;10 K intron_retention CUFF.509 chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 21;54 N jcn_only_AA chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 10;24 K coord_cassette CUFF.500 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 42;391 N coord_cassette CUFF.496 chr16 + chr16:19621738-19637498 chr16:19621738-19623049;chr16:19623121-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19623050-19623120;chr16:19627436-19627513;chr16:19628008-19628130 9;825 K jcn_only_AD CUFF.522,CUFF.524 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 77;25 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 229;168 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 386;9 N alternative_first_exon chr16 - chr16:4445341-4447318;chr16:4445341-4466785;chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466786-4466962;chr16:4466460-4466665 chr16:4455492-4455568 255;327 K alternative_acceptor CUFF.486 chr16 - chr16:4458199-4462356 chr16:4458253-4462356 chr16:4458199-4458252 chr16:4458198-4458199 19;768 N jcn_only_AA CUFF.473,CUFF.481 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 chr16:602863-603041;chr16:604554-604633 46;10 K jcn_only_AA CUFF.507,CUFF.508 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 34;12 N jcn_only_AD CUFF.499 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 chr16:21756358-21760281 chr16:21756357-21756358 4;4 N jcn_only_AA CUFF.468,CUFF.496 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 91;27 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 461;24 K alternative_acceptor CUFF.524 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 24;42 K cassette CUFF.517 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 75;271 N alternative_donor 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 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 187;451 N alternative_acceptor CUFF.510 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 102;45 K intron_retention CUFF.505 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 91;15 K alternative_donor CUFF.535 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 121;145 K jcn_only_AD CUFF.516 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 38;63 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 379;16 K jcn_only_AD CUFF.528 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 254;102 K cassette CUFF.517 chr16 + chr16:67233660-67234094 chr16:67233660-67233853;chr16:67233905-67234094 chr16:67233854-67233904 7;265 N alternative_donor CUFF.496 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 11;236 N jcn_only_AD CUFF.496 chr16 + chr16:19613046-19621643 chr16:19620344-19621643 60;496 K intron_retention CUFF.479 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 146;111 K intron_retention CUFF.474 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 8;19 K intron_retention chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 190;143 N jcn_only_AA CUFF.510 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 23;16 K alternative_first_exon CUFF.499 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716222-21716358 52;80 K intron_retention CUFF.500 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 169;56 K cassette CUFF.528 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 136;155 K alternative_first_exon CUFF.510 chr16 + chr16:56227625-56309842;chr16:56269297-56309842;chr16:56260484-56309842 chr16:56226529-56309842 chr16:56269253-56269296;chr16:56260402-56260483 chr16:56226486-56226528 85;8 K intron_retention CUFF.486 chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 6;105 K alternative_first_exon CUFF.504 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523397 chr16:28518102-28518155 189;19 N alternative_donor CUFF.512 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 623;15 K cassette CUFF.509 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 8;37 N intron_retention CUFF.502 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 38;706 N alternative_first_exon CUFF.486 chr16 - chr16:4445341-4447318;chr16:4445341-4455491;chr16:4445341-4466459 chr16:4445341-4466785 chr16:4455492-4455568;chr16:4466460-4466665 chr16:4466786-4466962 470;112 N mutually_exclusive CUFF.481 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 55;561 N jcn_only_AA CUFF.501,CUFF.525 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 17;3 K jcn_only_AA CUFF.533 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 11;11 N alternative_donor CUFF.528 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 201;38 K alternative_acceptor CUFF.517 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 54;124 N cassette CUFF.495 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 9;957 K jcn_only_AD CUFF.499 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 29;4 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 8;16 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 39;83 K cassette CUFF.496 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 25;244 N jcn_only_AD chr16 + chr16:31374696-31382404 chr16:31381420-31382404 chr16:31374696-31381419 chr16:31374695-31374696 19;7 N alternative_donor CUFF.502 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 379;468 N intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 9;115 K jcn_only_AA CUFF.517 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 54;124 N cassette CUFF.495 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 4;73 K intron_retention CUFF.479 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 95;36 K alternative_donor CUFF.499 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 75;33 K jcn_only_AA CUFF.524 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 24;42 K intron_retention CUFF.502 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 99;694 N alternative_acceptor CUFF.468,CUFF.496 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 91;90 N alternative_acceptor CUFF.473,CUFF.481 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 chr16:602863-603041;chr16:604554-604633 46;188 K cassette CUFF.516 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 4;118 N cassette CUFF.530 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 40;114 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 18;20 K alternative_acceptor CUFF.516 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 53;52 N alternative_donor CUFF.496 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 18;122 K intron_retention CUFF.507 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 12;16 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 31;8 N cassette CUFF.488 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 25;1955 K intron_retention CUFF.479 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 195;70 N cassette CUFF.481 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 49;843 N jcn_only_AD CUFF.486,CUFF.528 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 77;25 N cassette CUFF.525 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 33;438 N cassette CUFF.501 chr16 + chr16:22448814-22466022 chr16:22448814-22462940;chr16:22462980-22466022 chr16:22462941-22462979 3;50 K intron_retention CUFF.486 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 177;122 K alternative_first_exon CUFF.499 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695738-21695873 8;37 K intron_retention CUFF.518 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 22;47 N jcn_only_AD CUFF.502 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 99;38 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 126;264 K cassette CUFF.481 chr16 + chr16:3115496-3115784 chr16:3115496-3115621;chr16:3115657-3115784 chr16:3115622-3115656 118;42 K jcn_only_AA CUFF.479 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 195;57 N coord_cassette CUFF.486 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 22;1925 K jcn_only_AA CUFF.502 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 426;99 N alternative_donor CUFF.499 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 chr16:21756358-21760281 chr16:21756357-21756358 4;19 K intron_retention CUFF.500 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 75;34 K alternative_acceptor CUFF.502 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1287;99 K jcn_only_AA CUFF.516 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 53;27 N cassette CUFF.486 chr16 - chr16:4466963-4475478 chr16:4466963-4470359;chr16:4470555-4475478 chr16:4470360-4470554 6;176 N coord_cassette CUFF.500 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 20;1145 N cassette CUFF.486 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 21;351 K jcn_only_AA CUFF.525 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 30;229 N coord_cassette CUFF.486 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458199-4462356 chr16:4457502-4457685;chr16:4458182-4458198 22;713 K jcn_only_AD CUFF.517 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 17;189 N cassette CUFF.525 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 36;118 N jcn_only_AA CUFF.512 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 559;73 K intron_retention chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 126;18 N jcn_only_AA CUFF.486 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 327;12 N intron_retention CUFF.468 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 27;46 K intron_retention CUFF.486 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 158;10 K jcn_only_AA CUFF.502 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 235;290 K intron_retention CUFF.518 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 29;46 N jcn_only_AD 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 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 136;259 K jcn_only_AD CUFF.486,CUFF.524 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 20;48 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 615;23 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 8;71 N jcn_only_AA CUFF.516 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 126;20 N intron_retention chr16 + chr16:31371785-31372383 chr16:31371784-31371785;chr16:31372383-31372384 7;11 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 364;31 K intron_retention CUFF.500 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 298;13 N alternative_donor CUFF.525 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 203;18 K jcn_only_AA CUFF.516 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 38;83 K cassette CUFF.479 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 76;67 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 23;94 K alternative_first_exon CUFF.496 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19612986-19613045 chr16:19619064-19619183 238;429 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 48;73 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 388;7 K jcn_only_AD CUFF.516,CUFF.524 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 41;47 N cassette CUFF.481 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 171;780 N jcn_only_AD CUFF.502 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 479;338 K jcn_only_AD CUFF.510 chr16 + chr16:56370773-56388777 chr16:56385450-56388777 12;79 N alternative_acceptor CUFF.496 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 88;34 N jcn_only_AD CUFF.528 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 201;37 K alternative_last_exon CUFF.503 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096913-25097093;chr16:25111885-25112006 chr16:25097646-25098044 142;141 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 139;8 N coord_cassette CUFF.496 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 9;777 N jcn_only_AD CUFF.501 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 22;8 N alternative_acceptor CUFF.486 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 18;803 N jcn_only_AA chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 12;311 N jcn_only_AD CUFF.502 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 799;18 K intron_retention CUFF.502 chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 38;109 N jcn_only_AD CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 378;17 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 418;77 K alternative_last_exon CUFF.529 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170028-76170263 chr16:76174260-76174301 101;71 N mutually_exclusive CUFF.496 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 24;51 N alternative_donor CUFF.516 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 5;748 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 18;19 K alternative_last_exon CUFF.517,CUFF.525 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399988-70400764 chr16:70399836-70399915 1496;18 K cassette CUFF.500 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 188;160 K alternative_donor CUFF.522,CUFF.524 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 77;41 K alternative_donor CUFF.502,CUFF.522 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 42;49 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 19;68 K jcn_only_AA CUFF.480 chr16 + chr16:2653729-2663960 chr16:2653729-2660462 66;4 N jcn_only_AA CUFF.510 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 24;15 K alternative_donor CUFF.517 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 17;189 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 10;9 N cassette CUFF.512 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 10;665 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 39;67 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 612;26 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 122;154 K cassette CUFF.500 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 77;344 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 150;851 K intron_retention CUFF.509 chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 18;14 K alternative_acceptor CUFF.525 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 30;430 N intron_retention chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 13;42 K jcn_only_AA CUFF.486 chr16 - chr16:4458199-4462356 chr16:4458253-4462356 chr16:4458199-4458252 chr16:4458198-4458199 19;768 N jcn_only_AA CUFF.499 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 4;3 N alternative_acceptor CUFF.510 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 53;94 K intron_retention CUFF.516 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 14;126 K intron_retention CUFF.491 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 31;71 N cassette CUFF.486 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 65;808 K intron_retention CUFF.525 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 62;26 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 10;70 K alternative_donor CUFF.528 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 254;139 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 604;34 N coord_cassette CUFF.481 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 10;846 K alternative_first_exon CUFF.510 chr16 + chr16:56227625-56309842;chr16:56260484-56309842;chr16:56226529-56309842 chr16:56269297-56309842 chr16:56260402-56260483;chr16:56226486-56226528 chr16:56269253-56269296 77;16 N alternative_acceptor chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 106;221 N cassette CUFF.525 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 176;159 K intron_retention CUFF.468 chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 28;52 N jcn_only_AA CUFF.486 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 18;372 N alternative_acceptor chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 10;119 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 83;142 K intron_retention CUFF.502 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 290;497 K cassette CUFF.505 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 41;165 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 39;30 K intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 30;213 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 118;111 K alternative_last_exon CUFF.490 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660302-5660675 50;203 K intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 338;24 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 41;45 K intron_retention CUFF.486 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 157;26 N jcn_only_AA chr16 + chr16:583999-597558 chr16:583999-596816 chr16:596817-597558 chr16:597558-597559 25;10 K cassette CUFF.509 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 7;48 K alternative_acceptor CUFF.502 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1098;288 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 9;70 K intron_retention CUFF.468 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 91;33 N alternative_acceptor chr16 + chr16:583999-597558 chr16:583999-596816 chr16:596817-597558 chr16:597558-597559 25;97 K alternative_last_exon CUFF.503 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097646-25098044;chr16:25096913-25097093 chr16:25111885-25112006 179;104 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 614;24 K intron_retention CUFF.496 chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 25;98 K alternative_donor CUFF.516,CUFF.524 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 41;103 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 39;75 N cassette CUFF.488 chr16 + chr16:4526489-4555484 chr16:4526489-4533637;chr16:4533756-4555484 chr16:4533638-4533755 52;1810 N cassette CUFF.525 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 8;458 N alternative_acceptor CUFF.525 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 29;132 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 323;200 N jcn_only_AD CUFF.502 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 356;461 K jcn_only_AA CUFF.502 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 389;136 N coord_cassette CUFF.530 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77770546;chr16:77770641-77775478 chr16:77769725-77769883;chr16:77770547-77770640 46;272 K alternative_first_exon CUFF.510 chr16 + chr16:56227625-56309842;chr16:56269297-56309842;chr16:56226529-56309842 chr16:56260484-56309842 chr16:56269253-56269296;chr16:56226486-56226528 chr16:56260402-56260483 68;25 K alternative_first_exon CUFF.468 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105777-105882 chr16:106274-106420 94;42 K jcn_only_AA CUFF.518 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 40;123 N intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 10;68 K intron_retention CUFF.488 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 1467;13 N alternative_acceptor CUFF.486 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 77;195 K alternative_first_exon CUFF.485,CUFF.533 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812593-87812980 chr16:87812414-87812534 124;31 K alternative_first_exon CUFF.485 chr16 - chr16:4254636-4289634 chr16:4254636-4256727 chr16:4289635-4289792 chr16:4256728-4258105 37;25 K alternative_acceptor CUFF.518 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 40;138 K cassette CUFF.500 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 24;175 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 15;530 N alternative_donor CUFF.502 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 829;18 K intron_retention CUFF.479 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 57;63 N alternative_acceptor CUFF.501,CUFF.525 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 17;3 N jcn_only_AA chr16 + chr16:31374696-31382404 chr16:31374696-31381301 chr16:31381302-31382404 chr16:31382404-31382405 19;10 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 16;73 K cassette CUFF.500 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 48;429 N jcn_only_AD CUFF.496 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 18;122 N alternative_last_exon CUFF.507 chr16 + chr16:19613046-19621643 chr16:19613046-19619499 chr16:19621644-19621859 chr16:19619500-19620036 76;452 N jcn_only_AD CUFF.512 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 559;72 N alternative_acceptor CUFF.499 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 4;18 K jcn_only_AD CUFF.502,CUFF.522 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 42;49 K alternative_donor CUFF.524 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 40;30 N alternative_acceptor CUFF.469,CUFF.496 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 18;111 N alternative_first_exon CUFF.486 chr16 - chr16:4445341-4447318;chr16:4445341-4466785;chr16:4445341-4455491 chr16:4445341-4466459 chr16:4466786-4466962;chr16:4455492-4455568 chr16:4466460-4466665 441;141 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 264;18 N coord_cassette CUFF.500 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 20;675 N mutually_exclusive CUFF.481 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 310;68 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 19;7 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 27;271 K intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 12;210 N alternative_donor chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 18;43 N alternative_donor CUFF.468 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 17;29 K jcn_only_AD CUFF.535 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 121;145 N cassette CUFF.481 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 22;648 N alternative_donor CUFF.501 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 22;25 N cassette CUFF.496 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 282;330 N jcn_only_AA CUFF.469,CUFF.496 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 18;111 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 10;75 K alternative_donor CUFF.478 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 185;25 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 15;633 K coord_cassette CUFF.528 chr16 - chr16:75576582-75589701 chr16:75576582-75579249;chr16:75579394-75579723;chr16:75579853-75589701 chr16:75579250-75579393;chr16:75579724-75579852 139;164 K intron_retention CUFF.525 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 43;22 N alternative_acceptor CUFF.516 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 126;25 N cassette CUFF.525 chr16 + chr16:70390151-70394679;chr16:70390151-70395320 chr16:70390151-70390748;chr16:70390810-70394679,chr16:70390810-70395320 chr16:70390749-70390809 69;219 K coord_cassette CUFF.505 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 19;182 N alternative_donor CUFF.502 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 486;361 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 30;48 K intron_retention CUFF.481 chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 30;178 K alternative_donor CUFF.517 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 102;99 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 8;77 K alternative_acceptor CUFF.502 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 387;999 N mutually_exclusive CUFF.481 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 55;561 N jcn_only_AD chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 18;43 K jcn_only_AD CUFF.524 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 40;30 K intron_retention CUFF.518 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 118;35 N cassette CUFF.530 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 28;271 N alternative_acceptor CUFF.496 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 16;97 K jcn_only_AD CUFF.478 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 185;25 K alternative_first_exon CUFF.486 chr16 - chr16:4463406-4464307,chr16:4463406-4465715,chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4466459 chr16:4466786-4466962 chr16:4466460-4466665 117;584 N alternative_donor chr16 + chr16:31374696-31382404 chr16:31381420-31382404 chr16:31374696-31381419 chr16:31374695-31374696 19;8 K cassette CUFF.516 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 53;22 K mutually_exclusive CUFF.517 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 21;148 K alternative_acceptor CUFF.507,CUFF.508 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 34;27 N cassette CUFF.496 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 9;101 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 161;69 K intron_retention CUFF.486 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 77;141 K intron_retention CUFF.528 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 254;67 K intron_retention CUFF.496 chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 55;43 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 629;9 K intron_retention CUFF.515 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 21;91 K intron_retention CUFF.507 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 34;21 N jcn_only_AA CUFF.496 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 16;97 K alternative_donor CUFF.499 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 29;4 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 9;47 K alternative_acceptor CUFF.479 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 195;155 K jcn_only_AD CUFF.517 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 102;99 K alternative_first_exon CUFF.479 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190777-2190950 chr16:2198793-2198979 32;97 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 600;38 N alternative_donor CUFF.512 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 559;80 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 44;111 N jcn_only_AA CUFF.486 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 77;27 K intron_retention CUFF.495 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 36;43 N alternative_donor CUFF.512 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;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;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 620;18 N cassette CUFF.492 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 30;248 N cassette CUFF.525 chr16 + chr16:70389439-70395320 chr16:70389439-70390031;chr16:70390151-70395320 chr16:70390032-70390150 33;176 N jcn_only_AD CUFF.516 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 5;190 N jcn_only_AD CUFF.459 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 429;17 N alternative_donor CUFF.426 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 26;10 N alternative_acceptor CUFF.433 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 26;16 K cassette CUFF.393 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 140;21 K cassette CUFF.397 chr15 + chr15:40558697-40564424 chr15:40558697-40559123;chr15:40559199-40564424 chr15:40559124-40559198 53;36 N alternative_donor CUFF.417 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 107;97 K intron_retention CUFF.446 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 147;54 N alternative_acceptor CUFF.467 chr15 - chr15:102226266-102241288;chr15:102236243-102241288 chr15:102239639-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 90;20 N jcn_only_AA CUFF.454 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 71;149 K alternative_acceptor CUFF.417,CUFF.460 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 12;153 N jcn_only_AD CUFF.413,CUFF.432 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 68;34 N cassette CUFF.393 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 7;148 N jcn_only_AD CUFF.388 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 32;83 N alternative_donor CUFF.439 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 35;18 N cassette CUFF.407 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 30;74 N cassette CUFF.448 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 31;531 K cassette CUFF.411 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 12;30 N alternative_acceptor CUFF.467 chr15 - chr15:102226266-102241288;chr15:102239639-102241288 chr15:102236243-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 92;18 N alternative_acceptor CUFF.417 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 2616;22 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 15;40 N jcn_only_AD CUFF.388 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 40;57 K alternative_first_exon CUFF.410 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45740542-45740999 chr15:45751211-45751248 99;16 K cassette CUFF.454 chr15 - chr15:83358206-83378345 chr15:83358206-83358514;chr15:83358687-83378345 chr15:83358515-83358686 256;260 N jcn_only_AA CUFF.417 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 189;9 N cassette CUFF.407 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 14;86 K cassette CUFF.467 chr15 - chr15:102194934-102197124 chr15:102194934-102196069;chr15:102196224-102197124 chr15:102196070-102196223 92;58 K alternative_first_exon CUFF.467 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204560 87;27 N jcn_only_AD CUFF.408,CUFF.442 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 68;109 N jcn_only_AD CUFF.439 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 35;6 N alternative_donor CUFF.439 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 93;3 K intron_retention CUFF.430 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 69;53 N alternative_donor CUFF.439 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 22;74 N cassette CUFF.432 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 13;342 K jcn_only_AD CUFF.407 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 17;19 K alternative_last_exon CUFF.438 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587661 chr15:69580747-69580903 196;109 K alternative_first_exon CUFF.417 chr15 + chr15:57511789-57523349;chr15:57490024-57523349 chr15:57506595-57523349 chr15:57489971-57490023 chr15:57506249-57506594 81;975 N alternative_acceptor chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 14;32 N cassette CUFF.408 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 10;263 N jcn_only_AA CUFF.454 chr15 - chr15:83350333-83357909 chr15:83357584-83357909 14;253 N alternative_first_exon chr15 - chr15:83350333-83357909 chr15:83350333-83357487 chr15:83357910-83357984 chr15:83357488-83357661 14;56 K jcn_only_AD CUFF.435 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 469;150 K cassette CUFF.416 chr15 - chr15:55783455-55789909 chr15:55783455-55787325;chr15:55787401-55789909 chr15:55787326-55787400 288;226 N alternative_donor CUFF.465 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 451;10 N cassette CUFF.443 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 174;201 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 4;172 N alternative_donor CUFF.460 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 52;37 N jcn_only_AD chr15 - chr15:64658275-64665896 chr15:64658275-64665354 chr15:64665355-64665896 chr15:64665896-64665897 11;38 K cassette CUFF.402 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 17;56 N alternative_acceptor CUFF.459 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 127;1427 K jcn_only_AD CUFF.391 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 7;20 N mutually_exclusive CUFF.407 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 18;25 N alternative_donor CUFF.417 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 79;70 K alternative_acceptor CUFF.398,CUFF.410 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 6;19 N cassette CUFF.393 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 8;66 K alternative_last_exon CUFF.410 chr15 + chr15:45768751-45804570;chr15:45768751-45769966 chr15:45768751-45789310 chr15:45804571-45804647;chr15:45769967-45769986 chr15:45789311-45789407 72;57 N jcn_only_AA chr15 - chr15:45470505-45492924 chr15:45491319-45492924 chr15:45470505-45491318 chr15:45470504-45470505 26;5 N jcn_only_AD CUFF.401 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 24;11 K cassette CUFF.416 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 53;717 N jcn_only_AD CUFF.393 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 121;7 N jcn_only_AD chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 17;15 N jcn_only_AD CUFF.430 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 82;15 K intron_retention CUFF.407 chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 17;145 N cassette CUFF.435 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 44;856 K intron_retention CUFF.458 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 23;25 K alternative_last_exon CUFF.412 chr15 - chr15:50793249-50821993;chr15:50793035-50821993 chr15:50805710-50821993 chr15:50793094-50793248;chr15:50792759-50793034 chr15:50805611-50805709 213;16 N jcn_only_AD CUFF.433 chr15 - chr15:67722739-67758831 chr15:67722739-67752029 3;272 K alternative_last_exon CUFF.394 chr15 + chr15:30771397-30776704 chr15:30771397-30772944 chr15:30776705-30776892 chr15:30772945-30773237 35;39 N jcn_only_AA CUFF.413 chr15 - chr15:55485032-55488550 chr15:55486558-55488550 chr15:55485032-55486557 chr15:55485031-55485032 95;17 N alternative_donor CUFF.401 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 24;15 N jcn_only_AA CUFF.443 chr15 - chr15:77577421-77578764;chr15:77577398-77578764 chr15:77474383-77578764 280;4 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 10;37 N jcn_only_AA CUFF.397 chr15 + chr15:40531337-40545378 chr15:40531337-40532799 39;26 N alternative_acceptor CUFF.412 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 186;15 N jcn_only_AD CUFF.459 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 389;57 N intron_retention chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 60;119 K intron_retention CUFF.454 chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 16;235 K jcn_only_AA CUFF.416 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 69;170 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 122;324 K alternative_acceptor CUFF.454 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 87;99 K alternative_acceptor CUFF.439,CUFF.446 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 69;14 N alternative_first_exon CUFF.397 chr15 + chr15:40545491-40555999 chr15:40549288-40555999 chr15:40545379-40545490 chr15:40549193-40549287 9;21 N jcn_only_AD CUFF.465 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 140;10 N intron_retention chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 32;109 N alternative_donor CUFF.459 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 979;29 N jcn_only_AA chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 12;8 N jcn_only_AD CUFF.465 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 140;10 K intron_retention CUFF.407 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 10;10 K alternative_last_exon CUFF.410 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45753142 31;103 N alternative_donor CUFF.412 chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 10;4 N jcn_only_AD CUFF.443,CUFF.459 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 398;48 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 10;37 K intron_retention CUFF.430 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 21;135 K cassette CUFF.454 chr15 - chr15:83333696-83334208 chr15:83333696-83333998;chr15:83334056-83334208 chr15:83333999-83334055 57;54 N alternative_donor CUFF.408 chr15 - chr15:45470505-45473304;chr15:45470505-45490969;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 388;26 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 37;15 N jcn_only_AA CUFF.439 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 27;171 N jcn_only_AD CUFF.417 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 45;97 K coord_cassette CUFF.407 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 14;183 K alternative_first_exon CUFF.388 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819657-24819891 chr15:24819901-24819960 121;20 N alternative_acceptor CUFF.413 chr15 - chr15:55485032-55488550 chr15:55486558-55488550 chr15:55485032-55486557 chr15:55485031-55485032 95;17 K intron_retention CUFF.407 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 27;80 K cassette CUFF.467 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 23;184 N jcn_only_AA CUFF.467 chr15 - chr15:102236243-102241288;chr15:102239639-102241288 chr15:102226266-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 19;72 K alternative_donor CUFF.435 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 469;735 K jcn_only_AA CUFF.391 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 6;11 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 58;91 N intron_retention chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 19;63 K jcn_only_AA CUFF.439,CUFF.446 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 69;14 N jcn_only_AA chr15 + chr15:40545491-40549043;chr15:40545491-40555999 chr15:40545491-40556004 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 19;196 N jcn_only_AA CUFF.454 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 165;55 N cassette CUFF.397 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 4;202 N jcn_only_AA CUFF.446,CUFF.464 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 84;4 N mutually_exclusive CUFF.432 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 23;34 K cassette CUFF.391 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 12;193 K alternative_donor CUFF.433 chr15 - chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 110;44 N jcn_only_AD CUFF.457 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 2;4 K alternative_last_exon CUFF.388,CUFF.410 chr15 + chr15:45768751-45769966;chr15:45768751-45789310 chr15:45768751-45804570 chr15:45769967-45769986;chr15:45789311-45789407 chr15:45804571-45804647 63;66 N jcn_only_AD CUFF.408 chr15 - chr15:45470505-45473304;chr15:45470505-45490969;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 151;26 K alternative_last_exon CUFF.448 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471295-78471322 174;14 N jcn_only_AD CUFF.460 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 52;33 N intron_retention chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 6;18 K alternative_first_exon CUFF.417 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57210797-57211104 chr15:57211332-57211426 293;84 K intron_retention CUFF.430 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 102;50 K alternative_acceptor CUFF.417,CUFF.446 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 49;381 N jcn_only_AA CUFF.394,CUFF.397 chr15 + chr15:40545491-40556004;chr15:40545491-40555999 chr15:40545491-40549043 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 204;11 K cassette CUFF.417 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 95;179 K alternative_first_exon CUFF.394 chr15 + chr15:30771397-30776704 chr15:30773111-30776704 chr15:30771206-30771396 chr15:30772945-30773110 21;18 N alternative_donor chr15 - chr15:45470505-45473304;chr15:45470505-45490969;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 341;73 N jcn_only_AD CUFF.417 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 5;200 N jcn_only_AA CUFF.412 chr15 - chr15:50822127-50830905 chr15:50824425-50830905 chr15:50822127-50824424 chr15:50822126-50822127 186;15 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 684;324 N jcn_only_AD CUFF.417 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 127;15 N alternative_donor CUFF.388 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 88;514 N alternative_donor CUFF.408 chr15 - chr15:45470505-45473304;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45490969 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 403;11 K alternative_last_exon CUFF.442 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779629-75780118 4;314 N coord_cassette CUFF.460 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 8;617 N jcn_only_AA CUFF.457 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 2;7 N intron_retention chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 7;15 K alternative_first_exon CUFF.410 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742278-45742488 chr15:45752644-45752767 113;60 K cassette CUFF.408 chr15 - chr15:45464517-45467416 chr15:45464517-45465773;chr15:45465915-45467416 chr15:45465774-45465914 127;103 K cassette CUFF.417 chr15 + chr15:57213297-57383986 chr15:57213297-57364850;chr15:57364913-57383986 chr15:57364851-57364912 35;28 N alternative_acceptor CUFF.457 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 2;10 K jcn_only_AD CUFF.433 chr15 - chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 48;25 N alternative_donor CUFF.417 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 153;51 N intron_retention chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 149;44 N jcn_only_AA CUFF.443 chr15 - chr15:77577421-77578764;chr15:77474383-77578764 chr15:77577398-77578764 258;26 N jcn_only_AD CUFF.417 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 106;14 N jcn_only_AD chr15 - chr15:84874072-84898653 chr15:84874072-84898603 6;9 K alternative_donor CUFF.435 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 52;885 K alternative_first_exon CUFF.460 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290547-91290720 chr15:91290749-91290891 34;60 N cassette CUFF.461 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 12;19 N jcn_only_AA CUFF.459 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 127;251 N alternative_donor CUFF.454,CUFF.459 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 251;16 K intron_retention CUFF.447 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 26;16 N alternative_donor CUFF.417 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 184;20 K alternative_first_exon CUFF.412 chr15 - chr15:50822127-50830905 chr15:50822127-50824208 chr15:50830906-50831048 chr15:50824209-50824269 267;18 N alternative_acceptor CUFF.397 chr15 + chr15:40545491-40549043;chr15:40545491-40556004 chr15:40545491-40555999 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 233;8 N alternative_donor CUFF.408,CUFF.442 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 110;304 K alternative_last_exon CUFF.410 chr15 + chr15:45768751-45804570;chr15:45768751-45789310 chr15:45768751-45769966 chr15:45804571-45804647;chr15:45789311-45789407 chr15:45769967-45769986 123;6 N alternative_donor CUFF.430 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 82;45 K jcn_only_AA CUFF.417,CUFF.446 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 49;280 N alternative_first_exon CUFF.397 chr15 + chr15:40545216-40545378,chr15:40544893-40545378,chr15:40544465-40545378;chr15:40531337-40545378;chr15:40532883-40545378 chr15:40509869-40545378 chr15:40531174-40531336;chr15:40532743-40532882 chr15:40509629-40509868 432;21 N alternative_first_exon CUFF.397 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40531174-40531336 16;41 N alternative_donor CUFF.417 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 168;36 K alternative_first_exon CUFF.407 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44884529-44884636 chr15:44882619-44883133 73;272 K cassette CUFF.455 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 1620;48 N alternative_donor CUFF.393 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 57;115 N jcn_only_AD CUFF.436 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 12;12 N jcn_only_AD CUFF.393 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 110;10 N coord_cassette CUFF.455 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 28;5189 N cassette CUFF.388 chr15 + chr15:24811948-24814929 chr15:24811948-24813038;chr15:24813330-24814929 chr15:24813039-24813329 15;86 N cassette CUFF.412 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 24;399 N alternative_donor CUFF.407,CUFF.448 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 37;573 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 55;153 N jcn_only_AA CUFF.388 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 251;10 N cassette CUFF.388 chr15 + chr15:24820151-24832713 chr15:24820151-24825373;chr15:24825478-24832713 chr15:24825374-24825477 26;484 K cassette CUFF.460 chr15 + chr15:91298169-91303823 chr15:91298169-91303210;chr15:91303510-91303823 chr15:91303211-91303509 5;113 N cassette CUFF.459 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 308;378 N jcn_only_AD CUFF.451 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 141;17 K alternative_last_exon CUFF.412 chr15 - chr15:50793249-50821993;chr15:50805710-50821993 chr15:50793035-50821993 chr15:50793094-50793248;chr15:50805611-50805709 chr15:50792759-50793034 48;181 K alternative_first_exon CUFF.406,CUFF.407 chr15 - chr15:42300064-42305882 chr15:42300064-42302276 chr15:42305883-42305955 chr15:42302277-42302408 3;7 N cassette CUFF.460 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 11;185 N jcn_only_AA CUFF.408 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 142;14 N alternative_donor CUFF.436 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 12;339 N jcn_only_AA CUFF.454 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 204;16 K alternative_first_exon CUFF.407,CUFF.459 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44888258-44888269 chr15:44887457-44887657 11;79 N alternative_donor CUFF.388 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 521;81 K alternative_first_exon CUFF.421 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007451 chr15:61945388-61945400 15;13 K coord_cassette CUFF.459 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 285;94 K intron_retention CUFF.439 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 19;88 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 46;200 K alternative_last_exon CUFF.391,CUFF.449 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826011 26;340 K alternative_last_exon CUFF.464 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527110 chr15:94512823-94512924 9;18 K alternative_donor CUFF.433 chr15 - chr15:66645294-66678944;chr15:66645294-66678987 chr15:66645294-66678757 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 70;84 N intron_retention chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 10;99 N jcn_only_AD CUFF.439 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 74;19 K alternative_donor CUFF.413 chr15 - chr15:55485032-55489165 chr15:55485032-55489007 chr15:55489008-55489165 chr15:55489165-55489166 21;71 N jcn_only_AD CUFF.417 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 120;22 N jcn_only_AD CUFF.439 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 90;3 K jcn_only_AA CUFF.417,CUFF.460 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 12;123 N jcn_only_AD CUFF.467 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 72;7 K alternative_acceptor CUFF.460 chr15 + chr15:91298169-91303376 chr15:91298169-91303210 chr15:91303211-91303376 chr15:91303376-91303377 9;61 K alternative_first_exon CUFF.407,CUFF.411 chr15 - chr15:47672793-47687757 chr15:47672793-47685518 chr15:47687758-47687885 chr15:47685519-47685649 14;11 N cassette CUFF.455 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 28;1748 K intron_retention CUFF.430 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 6;21 N alternative_acceptor CUFF.394,CUFF.397 chr15 + chr15:40545491-40556004;chr15:40545491-40555999 chr15:40545491-40549043 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 204;37 K intron_retention CUFF.439 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 25;75 N jcn_only_AD CUFF.417 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 134;8 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 10;9 K cassette CUFF.460 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 5;57 K intron_retention CUFF.465 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 130;22 K cassette CUFF.397 chr15 + chr15:40545491-40556981 chr15:40545491-40556004;chr15:40556121-40556981 chr15:40556005-40556120 260;420 N jcn_only_AA chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 14;15 N cassette CUFF.435 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787240;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787241-66787757 44;1133 N jcn_only_AA CUFF.433 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 26;16 N alternative_donor CUFF.413,CUFF.432 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 68;149 N alternative_donor CUFF.388 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 595;7 N jcn_only_AD CUFF.412 chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 10;4 N alternative_donor CUFF.451 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 141;123 N jcn_only_AD CUFF.388 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 64;33 N jcn_only_AD CUFF.465 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 20;130 K intron_retention CUFF.430 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 105;42 N alternative_donor CUFF.393 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 126;46 N jcn_only_AA chr15 + chr15:40509869-40545378 chr15:40509869-40532799 11;4 K intron_retention CUFF.388 chr15 + chr15:24819892-24820053 chr15:24819891-24819892;chr15:24820053-24820054 32;70 N jcn_only_AA CUFF.443 chr15 - chr15:77577398-77578764;chr15:77474383-77578764 chr15:77577421-77578764 30;254 K cassette CUFF.466 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 6;105 N jcn_only_AD CUFF.393 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 122;6 K alternative_first_exon CUFF.406,CUFF.442 chr15 - chr15:75762341-75766029 chr15:75762341-75763020 chr15:75766030-75766108 chr15:75763021-75763328 9;83 K jcn_only_AA CUFF.398,CUFF.410 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 6;19 N jcn_only_AA CUFF.417 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 180;18 N alternative_donor CUFF.415 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 65;167 K cassette CUFF.443 chr15 - chr15:77544869-77577299 chr15:77544869-77576224;chr15:77576373-77577299 chr15:77576225-77576372 40;638 K jcn_only_AD CUFF.435 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 52;162 N alternative_acceptor CUFF.408 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 142;29 K alternative_donor CUFF.407 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 17;38 K alternative_last_exon CUFF.416 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722506-55722977 48;375 N alternative_donor chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 17;40 K jcn_only_AD CUFF.413 chr15 - chr15:55485032-55489165 chr15:55485032-55489007 chr15:55489008-55489165 chr15:55489165-55489166 21;39 K jcn_only_AD CUFF.433 chr15 - chr15:66645294-66678944;chr15:66645294-66678987 chr15:66645294-66678757 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 51;22 K alternative_last_exon CUFF.459 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408831-90408925 359;52 N alternative_donor CUFF.465 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 438;23 N alternative_acceptor CUFF.459 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 9;489 N coord_cassette CUFF.448 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 45;302 K alternative_first_exon CUFF.435 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789980-66790088 chr15:66789828-66789944 417;35 N alternative_donor CUFF.443,CUFF.459 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 596;412 N jcn_only_AA CUFF.467 chr15 - chr15:102226266-102241288;chr15:102236243-102241288 chr15:102239639-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 81;10 K jcn_only_AA CUFF.454 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 87;8 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 46;200 N alternative_donor CUFF.457 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 2;4 N alternative_acceptor chr15 - chr15:45470505-45492924 chr15:45491319-45492924 chr15:45470505-45491318 chr15:45470504-45470505 26;71 K alternative_first_exon CUFF.433 chr15 - chr15:66645294-66678987,chr15:66645294-66678944,chr15:66645294-66678757 chr15:66645294-66648976 chr15:66678988-66679113 chr15:66648977-66649054 84;53 N jcn_only_AD CUFF.415 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 65;27 K jcn_only_AD CUFF.433 chr15 - chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66678987 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 47;26 K cassette CUFF.407 chr15 - chr15:44878049-44881449 chr15:44878049-44880764;chr15:44880837-44881449 chr15:44880765-44880836 81;64 N alternative_donor CUFF.393 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 161;11 N cassette CUFF.407 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 10;160 N alternative_acceptor CUFF.446,CUFF.464 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 84;6 N jcn_only_AD CUFF.407,CUFF.448 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 37;6 N jcn_only_AD CUFF.454,CUFF.459 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 251;16 K coord_cassette CUFF.412 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 79;175 K jcn_only_AA CUFF.460 chr15 + chr15:91298169-91303376 chr15:91298169-91303210 chr15:91303211-91303376 chr15:91303376-91303377 9;22 K intron_retention CUFF.465 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 10;149 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 10;9 K alternative_first_exon CUFF.395 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294216-31294233 chr15:31327773-31327859 23;40 N jcn_only_AD CUFF.439 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 22;71 N alternative_donor CUFF.467 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 72;8 N alternative_donor CUFF.417 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 106;43 K alternative_first_exon CUFF.413,CUFF.435 chr15 - chr15:55485032-55486350,chr15:55485032-55486493;chr15:55485032-55489165,chr15:55485032-55489007 chr15:55485032-55488550 chr15:55489166-55489265 chr15:55488551-55488867 80;221 K cassette CUFF.449 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 95;185 K cassette CUFF.407 chr15 - chr15:44892831-44898222 chr15:44892831-44896302;chr15:44896396-44898222 chr15:44896303-44896395 73;16 N jcn_only_AD CUFF.393 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 13;115 K intron_retention CUFF.430 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 82;53 N jcn_only_AA CUFF.397 chr15 + chr15:40545491-40549043;chr15:40545491-40556004 chr15:40545491-40555999 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 207;8 N cassette CUFF.417 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 55;254 K alternative_last_exon CUFF.412 chr15 - chr15:50793035-50821993;chr15:50805710-50821993 chr15:50793249-50821993 chr15:50792759-50793034;chr15:50805611-50805709 chr15:50793094-50793248 197;32 N alternative_acceptor CUFF.439 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 31;2607 N alternative_donor CUFF.387 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23114586-23115116 chr15:23115116-23115117 98;361 N cassette CUFF.397 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 260;232 K alternative_last_exon CUFF.443 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77450845-77451038 chr15:77470191-77470365 11;43 N jcn_only_AD CUFF.417 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 79;62 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 14;134 N alternative_donor CUFF.465 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 33;428 N alternative_donor chr15 - chr15:64658275-64665896 chr15:64658275-64665354 chr15:64665355-64665896 chr15:64665896-64665897 11;199 N cassette CUFF.459 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 456;130 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 33;11 K coord_cassette CUFF.393 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 8;200 N intron_retention chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 40;19 K cassette CUFF.417 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 35;247 N alternative_donor CUFF.459 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 765;243 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 33;11 K alternative_first_exon CUFF.446 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750746-77750838 chr15:77750867-77750900 290;19 N alternative_donor CUFF.388 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 32;254 K intron_retention CUFF.394 chr15 + chr15:30773111-30776704 chr15:30773110-30773111;chr15:30776704-30776705 11;17 K alternative_acceptor CUFF.416 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 69;268 N alternative_acceptor CUFF.417 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 2629;9 K intron_retention CUFF.454 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 94;133 N alternative_donor CUFF.393 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 110;18 N alternative_acceptor chr15 + chr15:40545491-40549043;chr15:40545491-40555999 chr15:40545491-40556004 chr15:40549044-40555999;chr15:40556000-40556004 chr15:40555999-40556000;chr15:40556004-40556005 45;196 K coord_cassette CUFF.417 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 35;250 K alternative_donor CUFF.433 chr15 - chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66678987 chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678944-66678945;chr15:66678987-66678988 128;26 K alternative_first_exon CUFF.446 chr15 + chr15:77713437-77750745,chr15:77750627-77750745;chr15:77713080-77750745 chr15:77713347-77750745 chr15:77712661-77713079 chr15:77713262-77713346 892;84 N jcn_only_AD CUFF.408 chr15 - chr15:45470505-45473304;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45490969 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 168;9 K coord_cassette CUFF.407 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 13;308 K cassette CUFF.416 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 78;216 K cassette CUFF.455 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 29;3500 N jcn_only_AD chr15 - chr15:45470505-45473304;chr15:45470505-45490969;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45479651;chr15:45479652-45490969;chr15:45490970-45492924 chr15:45479651-45479652;chr15:45490969-45490970;chr15:45492924-45492925 144;33 K intron_retention CUFF.443 chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 25;7 K intron_retention CUFF.446 chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 49;119 N jcn_only_AD CUFF.426 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 26;7 N alternative_first_exon CUFF.397 chr15 + chr15:40545216-40545378,chr15:40544893-40545378,chr15:40544465-40545378;chr15:40531337-40545378;chr15:40509869-40545378 chr15:40532883-40545378 chr15:40531174-40531336;chr15:40509629-40509868 chr15:40532743-40532882 200;253 N cassette CUFF.417 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 29;752 N coord_cassette CUFF.408 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45465773;chr15:45465915-45467416 chr15:45464345-45464516;chr15:45465774-45465914 10;130 N jcn_only_AA CUFF.467 chr15 - chr15:102226266-102241288;chr15:102239639-102241288 chr15:102236243-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 82;9 N alternative_acceptor CUFF.388 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 251;68 N alternative_acceptor chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 12;8 N alternative_acceptor chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 33;34 N jcn_only_AD CUFF.387 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23114586-23115116 chr15:23115116-23115117 98;320 N jcn_only_AA CUFF.459 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 9;314 N jcn_only_AD CUFF.388 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 90;7 N alternative_acceptor CUFF.467 chr15 - chr15:102236243-102241288;chr15:102239639-102241288 chr15:102226266-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 38;72 N alternative_donor CUFF.439 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 77;19 K intron_retention CUFF.454 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 253;9 N cassette CUFF.448 chr15 - chr15:78500445-78537610 chr15:78500445-78501486;chr15:78501592-78537610 chr15:78501487-78501591 6;65 K alternative_first_exon CUFF.393 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29346048-29347038 chr15:29362816-29363302 423;526 N alternative_first_exon CUFF.397 chr15 + chr15:40545216-40545378,chr15:40544893-40545378,chr15:40544465-40545378;chr15:40532883-40545378;chr15:40509869-40545378 chr15:40531337-40545378 chr15:40532743-40532882;chr15:40509629-40509868 chr15:40531174-40531336 393;60 N mutually_exclusive CUFF.459 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 61;326 K cassette CUFF.433 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 42;197 K cassette CUFF.351 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 26;122 K alternative_first_exon CUFF.338 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50234326-50235339 chr14:50235676-50235809 842;41 K alternative_acceptor CUFF.332,CUFF.357 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 11;525 N alternative_donor chr14 - chr14:71227900-71249939;chr14:71227900-71232158 chr14:71227900-71267383 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 262;38 N mutually_exclusive CUFF.351 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 131;247 K cassette CUFF.331 chr14 + chr14:24459569-24464240 chr14:24459569-24459983;chr14:24460162-24464240 chr14:24459984-24460161 171;21 N intron_retention chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 47;30 N cassette CUFF.348 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 12;58 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 17;25 K cassette CUFF.331 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 104;346 N jcn_only_AD CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 132;33 K alternative_acceptor CUFF.335 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 62;63 N alternative_donor CUFF.343,CUFF.351 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 104;24 K cassette CUFF.337 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 126;56 N alternative_donor CUFF.355 chr14 + chr14:76201633-76211437 chr14:76203951-76211437 chr14:76201633-76203950 chr14:76201632-76201633 29;15 K intron_retention CUFF.333 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 16;10 K cassette CUFF.355 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 42;28 N alternative_donor CUFF.332 chr14 + chr14:24568446-24568766 chr14:24568457-24568766 chr14:24568446-24568456 chr14:24568445-24568446 143;18 N coord_cassette CUFF.351 chr14 - chr14:75143456-75151156 chr14:75143456-75144881;chr14:75145033-75149998;chr14:75150237-75151156 chr14:75144882-75145032;chr14:75149999-75150236 45;189 K alternative_last_exon CUFF.361 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77935420-77935816 chr14:77934933-77935087 1112;579 N jcn_only_AD CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 152;13 K cassette CUFF.338 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 22;421 N cassette CUFF.332 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 34;257 N alternative_donor CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 104;928 K jcn_only_AD CUFF.345,CUFF.351 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 125;115 N alternative_donor CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 108;105 N alternative_donor CUFF.346 chr14 + chr14:61451522-61482621 chr14:61453876-61482621 chr14:61451522-61453875 chr14:61451521-61451522 282;98 K alternative_first_exon CUFF.382 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046021-105046340 chr14:105047863-105047962 124;7 N alternative_donor CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924326-77924612 chr14:77924325-77924326 11;1273 K alternative_first_exon CUFF.345 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031765-60031993 chr14:60031076-60031246 85;87 K jcn_only_AD CUFF.335 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 58;31 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 54;78 K cassette CUFF.331 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 58;156 N alternative_acceptor CUFF.346 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 127;9 N jcn_only_AD CUFF.373 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 79;4 K cassette CUFF.341 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 27;69 K intron_retention CUFF.333 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 11;20 N jcn_only_AA CUFF.382 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 32;53 K mutually_exclusive CUFF.332 chr14 + chr14:24563644-24566100,chr14:24566347-24567411 chr14:24563644-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 201;47 N jcn_only_AA CUFF.355 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 14;20 N alternative_acceptor chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 16;120 N alternative_acceptor CUFF.350 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 31;114 K intron_retention CUFF.338 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 160;514 N jcn_only_AA CUFF.355 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 35;20 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 164;80 N alternative_donor CUFF.373 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 437;8 N jcn_only_AA CUFF.355 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 5;32 K alternative_last_exon CUFF.355 chr14 + chr14:76201633-76203908;chr14:76201633-76211437 chr14:76201633-76210719 chr14:76211438-76211551 chr14:76210720-76211069 53;396 N cassette CUFF.332 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 74;1113 N alternative_acceptor CUFF.351 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 97;15 K cassette CUFF.381 chr14 - chr14:104251252-104263707 chr14:104251252-104260913;chr14:104261001-104263707 chr14:104260914-104261000 41;108 K alternative_donor CUFF.335 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 58;36 N jcn_only_AA CUFF.345 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 22;83 N alternative_donor CUFF.350 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 291;9 N alternative_acceptor CUFF.355 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 35;20 N alternative_donor chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 8;455 N alternative_donor CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 151;62 N alternative_acceptor CUFF.348 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 57;302 K coord_cassette CUFF.337 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50079189;chr14:50079343-50080973 chr14:50074118-50074839;chr14:50079190-50079342 51;313 N alternative_donor CUFF.346 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 120;22 K intron_retention CUFF.378 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 507;175 K alternative_last_exon CUFF.360 chr14 - chr14:77270256-77272758 chr14:77270759-77272758 chr14:77270129-77270255 chr14:77270375-77270758 5;186 N cassette CUFF.338 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 14;536 K cassette CUFF.332 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 28;2527 N jcn_only_AA chr14 + chr14:23390330-23392287 chr14:23390330-23392180 63;30 N jcn_only_AA CUFF.373 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 68;35 K alternative_last_exon CUFF.346 chr14 + chr14:61518854-61545547;chr14:61518854-61545527 chr14:61518854-61519066 chr14:61545528-61545645 chr14:61519067-61519448 43;349 N alternative_donor CUFF.346 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 30;446 N cassette CUFF.341 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 14;250 N jcn_only_AA CUFF.340,CUFF.342 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 56;12 K intron_retention CUFF.338 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 114;922 N coord_cassette CUFF.361 chr14 + chr14:77929103-77935419 chr14:77929103-77930940;chr14:77931030-77931881;chr14:77932011-77934425;chr14:77934528-77935419 chr14:77930941-77931029;chr14:77931882-77932010;chr14:77934426-77934527 15;1849 N jcn_only_AD CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 104;491 N jcn_only_AD CUFF.346 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 151;14 N cassette CUFF.381 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104263707 chr14:104251132-104251251 18;178 N jcn_only_AD chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 12;30 N alternative_donor CUFF.350 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 47;253 N jcn_only_AD CUFF.380 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 25;16 N jcn_only_AD CUFF.343 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 320;33 N jcn_only_AD CUFF.355 chr14 + chr14:76201633-76211437 chr14:76203951-76211437 chr14:76201633-76203950 chr14:76201632-76201633 29;15 N jcn_only_AD CUFF.343 chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 258;95 N alternative_first_exon chr14 - chr14:75152364-75179635 chr14:75152364-75158743 chr14:75179636-75179881 chr14:75158744-75159031 64;618 K coord_cassette CUFF.331 chr14 + chr14:24459569-24473545 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24473545 chr14:24459984-24460161;chr14:24464241-24464342 24;35 K intron_retention CUFF.332 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 749;22 N jcn_only_AA CUFF.346 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 24;47 K alternative_acceptor CUFF.348 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 9;19 K intron_retention chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 474;315 N jcn_only_AA chr14 + chr14:59377061-59475751 chr14:59377061-59415030 chr14:59415031-59475751 chr14:59475751-59475752 34;105 N alternative_acceptor CUFF.382 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 32;57 N alternative_first_exon CUFF.376 chr14 + chr14:103187422-103188523 chr14:103187715-103188523 chr14:103187199-103187421 chr14:103187657-103187714 136;12 N jcn_only_AA CUFF.351 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 97;15 N coord_cassette CUFF.341 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59010600;chr14:59010686-59014498 chr14:59006789-59006854;chr14:59010601-59010685 9;23 N cassette CUFF.351 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 45;318 N jcn_only_AD CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 60;105 N cassette CUFF.355 chr14 + chr14:76219299-76230957 chr14:76219299-76224173;chr14:76224213-76230957 chr14:76224174-76224212 24;97 K intron_retention CUFF.332 chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 427;71 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 67;78 K jcn_only_AA CUFF.332,CUFF.357 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 11;127 N jcn_only_AD CUFF.350 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 41;104 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77280650-77280764;chr14:77276432-77276597 chr14:77278648-77278971 196;43 N cassette CUFF.351 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 13;372 N jcn_only_AA chr14 + chr14:76349246-76368484 chr14:76349246-76353042 121;9 K cassette CUFF.343 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 281;111 K jcn_only_AA CUFF.361,CUFF.385 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 31;62 N jcn_only_AD CUFF.373 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 28;47 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 8;51 K intron_retention CUFF.351 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 75;22 N jcn_only_AA chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 16;120 K intron_retention CUFF.346 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 105;129 N alternative_last_exon CUFF.351 chr14 - chr14:75136830-75138110 chr14:75137575-75138110 chr14:75136650-75136829 chr14:75137361-75137574 32;171 N jcn_only_AD CUFF.343 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 128;225 N jcn_only_AD CUFF.381 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 97;35 N alternative_acceptor CUFF.355 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 14;24 N jcn_only_AD CUFF.335 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 38;18 N intron_retention chr14 + chr14:58894356-58894989 chr14:58894355-58894356;chr14:58894989-58894990 3;10 N alternative_donor CUFF.350 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 31;109 K mutually_exclusive CUFF.331 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 35;44 N alternative_donor CUFF.373 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 70;375 N cassette CUFF.328 chr14 + chr14:23392414-23395669 chr14:23392414-23393509;chr14:23393651-23395669 chr14:23393510-23393650 37;290 K coord_cassette CUFF.331 chr14 + chr14:24459569-24470071 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24470071 chr14:24459984-24460161;chr14:24464241-24464342 80;35 N jcn_only_AD CUFF.346 chr14 + chr14:61451522-61482621 chr14:61453876-61482621 chr14:61451522-61453875 chr14:61451521-61451522 282;76 N jcn_only_AA CUFF.350 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 31;114 N alternative_donor CUFF.373 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 79;4 K alternative_last_exon CUFF.377 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237472-103237910 51;254 N jcn_only_AD CUFF.332 chr14 + chr14:24568446-24568766 chr14:24568457-24568766 chr14:24568446-24568456 chr14:24568445-24568446 143;18 K intron_retention CUFF.339 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 132;15 N cassette CUFF.341 chr14 + chr14:58899176-58909423 chr14:58899176-58906787;chr14:58906879-58909423 chr14:58906788-58906878 76;70 K cassette CUFF.337 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 51;971 K cassette CUFF.337 chr14 + chr14:50069187-50074117 chr14:50069187-50070269;chr14:50070337-50074117 chr14:50070270-50070336 70;50 N jcn_only_AD CUFF.381 chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81902432-81902664 chr14:81902664-81902665 chr14:81893446-81893556 16;14 N alternative_donor CUFF.346 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 219;225 N alternative_donor CUFF.381 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 106;39 K alternative_acceptor CUFF.382 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 24;22 K alternative_first_exon CUFF.331 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24458000-24458284 163;454 N alternative_donor CUFF.355 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 57;204 N jcn_only_AA CUFF.372 chr14 - chr14:92185823-92191423 chr14:92189534-92191423 chr14:92185823-92189533 chr14:92185822-92185823 26;95 K cassette CUFF.337 chr14 + chr14:50074840-50080973 chr14:50074840-50079189;chr14:50079343-50080973 chr14:50079190-50079342 102;92 N alternative_donor CUFF.346 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 191;22 K cassette CUFF.351 chr14 - chr14:75143456-75149998 chr14:75143456-75144881;chr14:75145033-75149998 chr14:75144882-75145032 79;88 N jcn_only_AD CUFF.346 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 219;43 K intron_retention CUFF.378 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 556;152 N alternative_first_exon CUFF.378 chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204153 20;144 N alternative_donor CUFF.355 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 56;19 N cassette CUFF.341 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59014498 chr14:59006789-59006854 9;183 N cassette CUFF.367 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 8;263 N alternative_acceptor CUFF.364 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 5;165 N coord_cassette CUFF.346 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 25;975 N jcn_only_AD CUFF.381 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 127;5 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 129;86 N jcn_only_AA CUFF.364 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 5;37 K intron_retention CUFF.338 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 236;454 K alternative_acceptor CUFF.351 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 85;35 N jcn_only_AD CUFF.346 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 120;19 N alternative_acceptor chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 8;20 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77276431;chr14:77275987-77278647 chr14:77275987-77280649 chr14:77276432-77276597;chr14:77278648-77278971 chr14:77280650-77280764 176;63 N alternative_acceptor CUFF.378 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 12;1111 N jcn_only_AD CUFF.350 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 142;3 K intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 21;215 N intron_retention chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 84;89 K cassette CUFF.381 chr14 - chr14:104224089-104245081 chr14:104224089-104225527;chr14:104225643-104245081 chr14:104225528-104225642 40;45 N jcn_only_AD CUFF.360,CUFF.364 chr14 - chr14:77270256-77272758 chr14:77270256-77270717 chr14:77270718-77272758 chr14:77272758-77272759 3;24 N jcn_only_AD CUFF.381 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 118;14 N mutually_exclusive CUFF.332 chr14 + chr14:24563464-24566100,chr14:24566347-24567411 chr14:24563464-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 201;47 N jcn_only_AA CUFF.370 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 41;3 N alternative_donor CUFF.343 chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 369;197 K jcn_only_AA CUFF.335 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 62;51 K intron_retention CUFF.333 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 6;13 N alternative_acceptor CUFF.346 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 181;38 N intron_retention CUFF.378 chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 96;46 N cassette CUFF.336 chr14 + chr14:39954462-39982820 chr14:39954462-39961458;chr14:39961761-39982820 chr14:39961459-39961760 39;336 N cassette CUFF.372 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 8;153 N jcn_only_AA CUFF.346 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 181;26 N alternative_donor CUFF.343 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 341;225 N jcn_only_AD CUFF.355 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 57;19 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77280650-77280764;chr14:77278648-77278971 chr14:77276432-77276597 106;133 N alternative_acceptor CUFF.346 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 129;7 N alternative_donor CUFF.381 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 124;21 N jcn_only_AA CUFF.346 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 127;9 K alternative_first_exon CUFF.341 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894345-58894531 chr14:58894956-58895181 139;14 K intron_retention CUFF.378 chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 40;84 K jcn_only_AD CUFF.364 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81743245-81745083 9;25 N alternative_acceptor chr14 + chr14:59377061-59475751 chr14:59377061-59415030 chr14:59415031-59475751 chr14:59475751-59475752 34;105 K alternative_donor CUFF.345,CUFF.351 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 125;150 K intron_retention CUFF.331 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 40;78 K cassette CUFF.331 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 24;176 K intron_retention CUFF.378 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 397;123 N alternative_acceptor chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 16;1369 N jcn_only_AD CUFF.360 chr14 - chr14:75136830-75138110 chr14:75136830-75137464 16;85 N mutually_exclusive CUFF.338 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 42;174 K cassette CUFF.351 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 64;215 N jcn_only_AA chr14 + chr14:76249874-76259258 chr14:76249874-76259255 9;5 K alternative_first_exon CUFF.373 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92790152-92790304 3;31 N alternative_donor CUFF.381 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 138;7 N jcn_only_AD CUFF.350 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 31;109 N alternative_donor CUFF.350 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 139;8 N alternative_donor CUFF.335 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 38;45 K alternative_first_exon CUFF.350 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71227719-71227899 chr14:71219655-71219734 202;281 K cassette CUFF.345 chr14 - chr14:60010173-60018072 chr14:60010173-60011880;chr14:60012018-60018072 chr14:60011881-60012017 9;104 K coord_cassette CUFF.337 chr14 + chr14:50069187-50080973 chr14:50069187-50070269;chr14:50070337-50074117;chr14:50074840-50080973 chr14:50070270-50070336;chr14:50074118-50074839 51;259 K alternative_first_exon CUFF.351,CUFF.370 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92136158-92136316 chr14:92126181-92126202 71;3 N intron_retention CUFF.360 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 24;99 N alternative_donor CUFF.360,CUFF.364 chr14 - chr14:77270256-77272758 chr14:77270256-77270717 chr14:77270718-77272758 chr14:77272758-77272759 3;36 N alternative_donor chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 12;1330 N jcn_only_AD CUFF.350 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 139;4 N jcn_only_AA chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 8;20 N jcn_only_AD CUFF.373 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 55;20 N jcn_only_AA CUFF.378 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 12;84 N alternative_donor CUFF.381 chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81902432-81902664 chr14:81902664-81902665 chr14:81893446-81893556 16;28 K intron_retention CUFF.384 chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 101;28 K cassette CUFF.351 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 49;131 N alternative_acceptor CUFF.346 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 24;47 K coord_cassette CUFF.342 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 135;42 N jcn_only_AA chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 3;75 N alternative_acceptor CUFF.372 chr14 - chr14:92185823-92191423 chr14:92189534-92191423 chr14:92185823-92189533 chr14:92185822-92185823 26;104 N alternative_acceptor CUFF.373 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 68;125 N alternative_last_exon chr14 + chr14:103187422-103188523 chr14:103187422-103187656 chr14:103188524-103188753 chr14:103187657-103187895 155;152 K intron_retention CUFF.378 chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 12;44 K intron_retention CUFF.343 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 18;28 K alternative_first_exon CUFF.373 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874698-92874778 22;147 N cassette CUFF.346 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 14;305 N alternative_donor CUFF.343 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 422;144 K alternative_first_exon CUFF.343 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941683 73;66 N jcn_only_AD CUFF.343,CUFF.351 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 104;24 N jcn_only_AA CUFF.339 chr14 - chr14:52486897-52495439 chr14:52494063-52495439 47;6 N jcn_only_AD CUFF.346 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 30;8 K coord_cassette CUFF.337 chr14 + chr14:50069187-50080973 chr14:50069187-50070269;chr14:50070337-50074117;chr14:50074840-50079189;chr14:50079343-50080973 chr14:50070270-50070336;chr14:50074118-50074839;chr14:50079190-50079342 51;321 N alternative_acceptor CUFF.340,CUFF.342 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 56;12 N cassette CUFF.361 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 164;1380 N jcn_only_AA CUFF.351 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 104;32 N alternative_acceptor CUFF.351 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 104;32 N jcn_only_AD chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 8;17 K jcn_only_AA CUFF.351 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 85;35 N cassette CUFF.380 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 19;174 N jcn_only_AA CUFF.348 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 57;11 N alternative_acceptor CUFF.370 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 41;10 N coord_cassette CUFF.381 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104260913;chr14:104261001-104263707 chr14:104251132-104251251;chr14:104260914-104261000 18;185 N mutually_exclusive CUFF.328 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392177,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392178-23392413 31;185 K jcn_only_AA CUFF.348 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 9;19 N jcn_only_AD CUFF.373 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 67;8 N intron_retention chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 15;61 K jcn_only_AA CUFF.382 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 24;16 N jcn_only_AA CUFF.346 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 129;7 K mutually_exclusive CUFF.336 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 158;93 K cassette CUFF.341 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 100;15 N cassette CUFF.338 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 78;297 N jcn_only_AA CUFF.378 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 397;96 N alternative_donor CUFF.373 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 383;62 N jcn_only_AA CUFF.373 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 79;4 N alternative_donor CUFF.346 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 189;24 N jcn_only_AD CUFF.355 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 56;19 K coord_cassette CUFF.331 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 21;309 K intron_retention CUFF.332 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 130;46 N cassette CUFF.380 chr14 - chr14:104212891-104213269 chr14:104212891-104212988;chr14:104213198-104213269 chr14:104212989-104213197 11;1660 K coord_cassette CUFF.351 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 49;200 N alternative_acceptor chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 3;75 N cassette CUFF.350 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 132;40 N alternative_acceptor CUFF.355 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 5;253 N alternative_donor CUFF.380 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 25;39 N jcn_only_AA chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 16;831 K intron_retention CUFF.332 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 214;116 K cassette CUFF.348 chr14 - chr14:69589078-69619481 chr14:69589078-69616147;chr14:69616221-69619481 chr14:69616148-69616220 22;74 N mutually_exclusive CUFF.338 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 27;44 N cassette CUFF.348 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 13;90 N cassette CUFF.357 chr14 + chr14:76368568-76420766 chr14:76368568-76407766;chr14:76407838-76420766 chr14:76407767-76407837 19;115 N alternative_acceptor CUFF.345 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 22;87 N jcn_only_AD chr14 - chr14:71227900-71249939;chr14:71227900-71232158 chr14:71227900-71267383 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 107;38 N alternative_acceptor CUFF.373 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 79;4 N jcn_only_AD CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924326-77924612 chr14:77924325-77924326 11;518 N cassette CUFF.336 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 99;117 K intron_retention CUFF.361 chr14 + chr14:77935329-77935419 chr14:77935328-77935329;chr14:77935419-77935420 8;26 N cassette CUFF.346 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 14;393 K intron_retention CUFF.373 chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 8;26 K alternative_first_exon CUFF.364 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81893446-81893556 chr14:81884507-81884607 chr14:81864639-81864924 60;10 N alternative_donor chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 42;416 N alternative_donor CUFF.676 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 390;703 K intron_retention CUFF.699 chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 3;80 K alternative_first_exon CUFF.687 chr19 - chr19:33968997-33980901;chr19:33968997-33978155 chr19:33968997-33977808 chr19:33978156-33978312 chr19:33977809-33978012 234;340 K alternative_donor CUFF.658 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 13;86 N alternative_donor CUFF.717 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 49;197 N cassette CUFF.669 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14867049 chr19:14865766-14865939 38;365 K intron_retention CUFF.660 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 32;178 K jcn_only_AA CUFF.662 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 55;152 N alternative_acceptor chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 10;141 K cassette CUFF.663 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 43;209 K intron_retention CUFF.672 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 14;37 N alternative_acceptor CUFF.649 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 37;31 K alternative_acceptor CUFF.646 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 208;15 N jcn_only_AD CUFF.687,CUFF.691 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 101;24 K intron_retention CUFF.675 chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 28;88 N jcn_only_AA CUFF.675 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 146;76 N alternative_donor CUFF.701 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 97;30 N cassette CUFF.650 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 31;389 N jcn_only_AA CUFF.650 chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 78;36 K alternative_acceptor CUFF.695 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 17;4 K jcn_only_AA CUFF.692 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 14;19 K cassette CUFF.657 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 97;99 N alternative_acceptor CUFF.644,CUFF.675 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 656;144 K cassette CUFF.715 chr19 + chr19:52264484-52271897 chr19:52264484-52265669;chr19:52265789-52271897 chr19:52265670-52265788 88;30 K cassette CUFF.657 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 10;123 K jcn_only_AA CUFF.646 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 198;15 K intron_retention CUFF.662 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 64;105 N jcn_only_AA CUFF.716 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 6;13 K intron_retention CUFF.696 chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 30;256 K jcn_only_AA CUFF.712 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 35;250 N jcn_only_AA CUFF.675 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 168;54 K jcn_only_AD CUFF.699 chr19 + chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155 chr19:44764091-44764092 3;45 K intron_retention CUFF.670 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 19;92 K coord_cassette CUFF.712 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 18;713 K alternative_donor CUFF.691 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 192;198 N jcn_only_AA chr19 + chr19:55087577-55088931;chr19:55087577-55098476 chr19:55087577-55098667 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 88;395 K alternative_first_exon CUFF.712 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51529011 chr19:51528923-51531199 chr19:51530713-51530991;chr19:51529794-51529858;chr19:51529012-51529148 chr19:51531200-51531359 410;129 K coord_cassette CUFF.669 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 41;584 K jcn_only_AA CUFF.646,CUFF.676 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 11;122 K intron_retention CUFF.699 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 24;14 N alternative_donor CUFF.722 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 chr19:6199487-6199490 chr19:6199490-6199491 54;64 K cassette CUFF.679 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 9;31 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 42;76 K jcn_only_AA CUFF.646,CUFF.699 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 38;175 K alternative_last_exon CUFF.669 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14843205-14847056 chr19:14852856-14852898 2144;9 N alternative_acceptor CUFF.717 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 36;19 K intron_retention CUFF.706 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 33;14 N intron_retention CUFF.644 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 140;241 N alternative_acceptor chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 336;92 N jcn_only_AA CUFF.706 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 8;37 N jcn_only_AA chr19 + chr19:17448474-17448682;chr19:17448474-17448707 chr19:17448474-17448816 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 130;92 N alternative_acceptor chr19 + chr19:58963072-58964553;chr19:58963072-58963494 chr19:58963072-58965062 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 217;134 K intron_retention CUFF.691 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 448;72 N alternative_acceptor CUFF.717 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 14;680 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 33;128 K intron_retention ENSG00000269399.1 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 57;29 K intron_retention CUFF.691 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 202;82 N cassette CUFF.719 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 366;177 N intron_retention CUFF.717 chr19 + chr19:54657578-54658995 chr19:54657577-54657578;chr19:54658995-54658996 10;271 K intron_retention CUFF.675 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 1052;111 N alternative_acceptor chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 2188;55 K jcn_only_AD CUFF.646 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 139;65 K jcn_only_AA CUFF.699 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 45;3 N intron_retention chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 30;152 K intron_retention CUFF.675 chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 59;171 N jcn_only_AA chr19 - chr19:33984244-34003498 chr19:34002062-34003498 8;26 K intron_retention CUFF.706 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 200;17 K intron_retention CUFF.667 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 33;34 N jcn_only_AA CUFF.644 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 47;140 N alternative_acceptor CUFF.650 chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 954;36 K intron_retention CUFF.670 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 437;41 K alternative_donor CUFF.669,CUFF.691 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 466;227 K jcn_only_AA CUFF.699,CUFF.717 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 146;26 N cassette CUFF.674 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 6;33 K intron_retention CUFF.649 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 57;65 K intron_retention CUFF.652 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 5;203 N jcn_only_AA chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 10;47 N alternative_donor CUFF.696 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 2416;128 N coord_cassette CUFF.676 chr19 + chr19:17581517-17598268 chr19:17581517-17597371;chr19:17597767-17597982;chr19:17598145-17598268 chr19:17597372-17597766;chr19:17597983-17598144 7;456 K alternative_first_exon CUFF.669 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887538-14887739 chr19:14887216-14887265 563;70 N jcn_only_AA CUFF.683 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637275-21638406 chr19:21637274-21637275 202;27 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 19;37 K alternative_last_exon CUFF.663 chr19 - chr19:11537861-11541718 chr19:11541597-11541718 chr19:11537693-11537860 chr19:11541384-11541596 66;267 K intron_retention chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 193;92 K alternative_first_exon CUFF.680,CUFF.722 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 93;184 K alternative_last_exon CUFF.699 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44777052-44777451;chr19:44771533-44772344 chr19:44777458-44778827 516;461 N alternative_acceptor CUFF.644 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 776;24 K jcn_only_AD CUFF.688 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 10;35 K intron_retention CUFF.706 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 169;10 K alternative_first_exon CUFF.650,CUFF.704 chr19 - chr19:6047516-6049146,chr19:6047516-6072015;chr19:6047516-6110403;chr19:6047516-6057172 chr19:6047516-6148241 chr19:6110404-6110545;chr19:6057173-6057238 chr19:6148242-6148340 293;21 K jcn_only_AA CUFF.680 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 21;157 K alternative_donor CUFF.646 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 255;140 K cassette CUFF.675 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17448079-17448816 chr19:17447629-17448078 4;1261 K alternative_first_exon CUFF.670 chr19 + chr19:16191886-16192722,chr19:16187508-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16186857-16186982 chr19:16191191-16191252 202;24 K cassette CUFF.670 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 235;447 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 29;37 K intron_retention CUFF.696 chr19 - chr19:41938314-41939176 chr19:41938313-41938314;chr19:41939176-41939177 77;209 N jcn_only_AA CUFF.722 chr19 - chr19:56312543-56312937;chr19:56309671-56312937 chr19:56307617-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 27;78 N jcn_only_AD CUFF.658 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 30;9 N mutually_exclusive CUFF.650 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 113;37 K alternative_first_exon CUFF.650 chr19 - chr19:6047516-6049146,chr19:6047516-6072015;chr19:6047516-6148241;chr19:6047516-6110403 chr19:6047516-6057172 chr19:6148242-6148340;chr19:6110404-6110545 chr19:6057173-6057238 297;17 N cassette CUFF.650 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 20;674 K intron_retention CUFF.679 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 69;16 N jcn_only_AA CUFF.644 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 593;19 K intron_retention CUFF.694 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 19;51 N jcn_only_AA CUFF.717 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 51;4 N alternative_donor chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 1467;1077 K alternative_first_exon CUFF.698 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725006 5;12 K intron_retention CUFF.692 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 61;33 N jcn_only_AA chr19 + chr19:58963072-58964553;chr19:58963072-58963494 chr19:58963072-58965062 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 33;134 K alternative_last_exon CUFF.720 chr19 + chr19:55255537-55275342 chr19:55255537-55258786 chr19:55275343-55275381 chr19:55258787-55258837 15;5 K intron_retention CUFF.683 chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 37;24 K jcn_only_AD CUFF.669 chr19 - chr19:14876383-14883153 chr19:14876383-14876469 19;78 K jcn_only_AD CUFF.713,CUFF.722 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 103;404 K alternative_last_exon CUFF.670 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212219 chr19:16206074-16206212 99;14 K intron_retention CUFF.706 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 164;96 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 7;68 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 60;59 K intron_retention CUFF.714 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 33;35 K intron_retention CUFF.683 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 167;8 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 42;149 K cassette CUFF.713 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 406;269 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 301;499 K cassette CUFF.669 chr19 - chr19:14865940-14867049 chr19:14865940-14866465;chr19:14866690-14867049 chr19:14866466-14866689 88;176 N jcn_only_AD CUFF.722 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 chr19:6199487-6199490 chr19:6199490-6199491 54;64 N jcn_only_AD CUFF.649 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 31;42 N alternative_acceptor CUFF.717 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 2167;76 N cassette CUFF.676 chr19 + chr19:17611686-17615263 chr19:17611686-17612081;chr19:17612229-17615263 chr19:17612082-17612228 43;66 K alternative_last_exon CUFF.696 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41937223-41938313 chr19:41938752-41939339 785;1325 K cassette CUFF.657 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 98;273 N cassette CUFF.650 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 27;122 K alternative_acceptor CUFF.699 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 45;24 N jcn_only_AD CUFF.699 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 41;3 K intron_retention CUFF.697 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 43;194 N alternative_acceptor CUFF.716 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 6;13 N cassette CUFF.719 chr19 + chr19:55084903-55085542 chr19:55084903-55085297;chr19:55085380-55085542 chr19:55085298-55085379 24;99 N intron_retention chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 40;60 N jcn_only_AD CUFF.696 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 386;128 K intron_retention CUFF.701 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 97;50 K cassette CUFF.694 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 34;151 K alternative_first_exon CUFF.676 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598269-17598338 chr19:17599529-17599748 11;808 N alternative_first_exon CUFF.644 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438297-1438427 chr19:1438429-1438579 154;284 K alternative_donor CUFF.699 chr19 + chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155 chr19:44764091-44764092 3;104 K intron_retention chr19 - chr19:10394261-10396141 chr19:10394260-10394261;chr19:10396141-10396142 6;83 K jcn_only_AA CUFF.646 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 70;80 K alternative_donor CUFF.691 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 675;18 K intron_retention CUFF.706 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 157;23 N cassette CUFF.650 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 35;398 K cassette CUFF.711 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 134;138 N jcn_only_AA CUFF.722 chr19 - chr19:56307617-56312937;chr19:56312543-56312937 chr19:56309671-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 98;7 N jcn_only_AA chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 28;55 K intron_retention CUFF.704 chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 53;31 K alternative_acceptor CUFF.680 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 21;305 N jcn_only_AA CUFF.649 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 26;31 N alternative_donor CUFF.658 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 30;13 K alternative_donor CUFF.644 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 85;617 K intron_retention CUFF.670 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 86;77 N jcn_only_AA chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 23;32 N alternative_acceptor CUFF.724 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 343;8 K intron_retention CUFF.675 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 20;68 K jcn_only_AD CUFF.691 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 219;448 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 17;217 K jcn_only_AA CUFF.722 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 73;34 N intron_retention chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 32;48 N alternative_acceptor CUFF.704 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 381;192 K cassette CUFF.696 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 327;480 K alternative_acceptor CUFF.692 chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 14;60 K alternative_last_exon CUFF.683 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21636352-21636579 31;362 K jcn_only_AD CUFF.658 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 13;52 K alternative_last_exon CUFF.669 chr19 - chr19:14879747-14883153;chr19:14876383-14883153 chr19:14877922-14883153 chr19:14879618-14879746;chr19:14876336-14876382 chr19:14877790-14877921 276;239 K intron_retention CUFF.706 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 77;114 K intron_retention CUFF.654 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 14;16 K jcn_only_AD CUFF.724 chr19 + chr19:58963072-58965062 chr19:58963121-58965062 chr19:58963072-58963120 chr19:58963071-58963072 134;40 N alternative_acceptor CUFF.722 chr19 - chr19:56307617-56312937;chr19:56312543-56312937 chr19:56309671-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 109;7 N alternative_acceptor CUFF.712 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 148;8 N cassette CUFF.716 chr19 + chr19:52909897-52918376 chr19:52909897-52918191;chr19:52918293-52918376 chr19:52918192-52918292 6;41 N jcn_only_AA CUFF.650 chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 100;14 K jcn_only_AD CUFF.663,CUFF.696 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 88;77 K alternative_first_exon CUFF.663,CUFF.710 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546600 chr19:11545594-11545925 92;221 K alternative_first_exon CUFF.661 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11039690-11041000 chr19:11042731-11042936 461;34 K alternative_first_exon CUFF.712 chr19 - chr19:51528923-51529793;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51530712 chr19:51529794-51529858;chr19:51529012-51529148;chr19:51531200-51531359 chr19:51530713-51530991 342;197 K alternative_first_exon CUFF.719 chr19 + chr19:55098528-55098667;chr19:55087577-55098667 chr19:55089191-55098667 chr19:55087274-55087576 chr19:55089144-55089190 1267;7 K mutually_exclusive CUFF.711 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 349;38 N jcn_only_AA CUFF.704 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 381;78 K alternative_donor CUFF.646 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 154;241 N alternative_acceptor CUFF.719 chr19 + chr19:55087577-55098667;chr19:55087577-55098476 chr19:55087577-55088931 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 480;9 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 10;104 K alternative_first_exon CUFF.670 chr19 + chr19:16178773-16186856;chr19:16178549-16186856 chr19:16186520-16186856 chr19:16178344-16178548 chr19:16186472-16186519 220;59 N alternative_acceptor CUFF.663 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 83;18 K intron_retention CUFF.675 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 161;217 K alternative_first_exon CUFF.680 chr19 - chr19:20243397-20349096;chr19:20243397-20261169 chr19:20243397-20351308 chr19:20349097-20349337;chr19:20261170-20261357 chr19:20351309-20351446 229;46 N jcn_only_AA CUFF.663 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 83;6 K intron_retention CUFF.646 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 141;88 N jcn_only_AA CUFF.724 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 142;25 K cassette CUFF.701 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 3;294 K jcn_only_AD CUFF.646 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 79;125 N jcn_only_AD chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 240;274 K alternative_donor CUFF.713,CUFF.722 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 103;785 N intron_retention CUFF.675 chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 76;77 K cassette CUFF.689 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 28;115 N alternative_acceptor chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 23;32 K intron_retention CUFF.691 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 17;74 N alternative_acceptor CUFF.683 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637275-21638406 chr19:21637274-21637275 202;62 K intron_retention CUFF.675 chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 38;287 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-33991843 chr19:33984244-34001933 36;29 N alternative_acceptor CUFF.649 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 56;12 K alternative_first_exon CUFF.668 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 27;88 N jcn_only_AA CUFF.644 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 552;60 N jcn_only_AD CUFF.658,CUFF.687 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 688;79 K alternative_acceptor CUFF.712 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 35;331 N alternative_acceptor CUFF.644 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 768;32 N cassette CUFF.717 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 36;81 K intron_retention CUFF.644 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 47;242 N cassette CUFF.676 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17615263 chr19:17611521-17611685 33;131 N jcn_only_AA CUFF.649 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 35;22 N alternative_donor CUFF.646 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 202;8 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 467;52 N alternative_donor CUFF.696,CUFF.712 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 1205;1339 N jcn_only_AA CUFF.717 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 73;10 N jcn_only_AD CUFF.646 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 202;8 N jcn_only_AA chr19 - chr19:33984244-34001933 chr19:33991908-34001933 29;28 N alternative_first_exon chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314374 chr19:49314066-49314190 35;57 K intron_retention CUFF.706 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 51;15 K alternative_donor CUFF.694 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 16;49 K jcn_only_AA CUFF.706 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 33;25 N jcn_only_AD CUFF.644 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 467;46 N jcn_only_AD CUFF.716 chr19 + chr19:52909897-52918191 chr19:52917622-52918191 13;3 K intron_retention CUFF.667 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 44;27 K intron_retention CUFF.699 chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 45;80 N alternative_acceptor CUFF.649 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 43;25 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 chr19:6199487-6199490 chr19:6199490-6199491 3;14 N jcn_only_AD CUFF.717 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 49;137 K alternative_acceptor CUFF.662 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 55;188 K alternative_first_exon CUFF.706 chr19 + chr19:50305399-50306205 chr19:50305857-50306205 chr19:50305238-50305398 chr19:50305671-50305856 48;223 N cassette CUFF.650 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 152;189 N alternative_donor chr19 - chr19:6192041-6199490 chr19:6192041-6199486 chr19:6199487-6199490 chr19:6199490-6199491 3;14 K cassette CUFF.650 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 62;775 N alternative_acceptor chr19 + chr19:55087577-55088931;chr19:55087577-55098476 chr19:55087577-55098667 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 94;395 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 18;50 K intron_retention CUFF.717 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 55;293 N cassette CUFF.696 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 64;867 N intron_retention chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 6;12 K intron_retention CUFF.679 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 59;51 N jcn_only_AD CUFF.675 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 36;25 N alternative_donor CUFF.658,CUFF.687 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 688;157 K jcn_only_AD CUFF.704 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 381;69 N alternative_acceptor CUFF.717,CUFF.719 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 131;2112 N intron_retention chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 367;344 K alternative_first_exon CUFF.699 chr19 + chr19:44764092-44768466,chr19:44764156-44768466 chr19:44764362-44768466 chr19:44763977-44764091 chr19:44764226-44764361 50;76 N jcn_only_AA CUFF.717,CUFF.719 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 65;18 K alternative_acceptor CUFF.646 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 200;23 K jcn_only_AD CUFF.722 chr19 - chr19:56307617-56312937 chr19:56307617-56309594 78;38 K intron_retention CUFF.712 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 266;33 N jcn_only_AD chr19 - chr19:33984244-33991843;chr19:33984244-34001933 chr19:33984244-34003498 57;8 K cassette CUFF.705 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 184;66 N alternative_acceptor CUFF.706 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 8;434 K intron_retention CUFF.658 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 30;14 N alternative_donor CUFF.644 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 467;249 N alternative_acceptor CUFF.717 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 51;4 N jcn_only_AD CUFF.701 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 18;16 K intron_retention CUFF.679 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 58;25 K intron_retention CUFF.644 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 141;110 K alternative_first_exon CUFF.650 chr19 - chr19:6047516-6049146,chr19:6047516-6072015;chr19:6047516-6148241;chr19:6047516-6057172 chr19:6047516-6110403 chr19:6148242-6148340;chr19:6057173-6057238 chr19:6110404-6110545 98;216 N jcn_only_AA CUFF.644 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 583;29 K jcn_only_AD CUFF.694 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 16;49 N jcn_only_AD CUFF.716 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 59;50 K alternative_donor CUFF.724 chr19 + chr19:58963072-58965062 chr19:58963121-58965062 chr19:58963072-58963120 chr19:58963071-58963072 134;85 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 21;54 N alternative_donor CUFF.649 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 31;53 K intron_retention CUFF.696 chr19 - chr19:41938314-41939441 chr19:41938313-41938314;chr19:41939441-41939442 88;20 K intron_retention CUFF.662 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 46;42 K mutually_exclusive CUFF.719 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 55;395 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 145;467 N cassette CUFF.669 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 41;459 K cassette CUFF.716 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 88;121 K intron_retention CUFF.691 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 192;87 N cassette CUFF.705 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 13;384 N coord_cassette CUFF.687 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 11;2081 N alternative_donor CUFF.716 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 77;55 N alternative_donor CUFF.722 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 47;49 N jcn_only_AA CUFF.703 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 778;13 K coord_cassette CUFF.669 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14863141-14863338;chr19:14865766-14865939;chr19:14866466-14866689 41;637 K intron_retention CUFF.675 chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 92;177 N jcn_only_AA chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 9;193 K alternative_first_exon CUFF.653 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217022 16;69 N jcn_only_AA CUFF.705 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 206;18 N jcn_only_AA CUFF.719 chr19 + chr19:55087577-55098667;chr19:55087577-55098476 chr19:55087577-55088931 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 480;3 N alternative_acceptor CUFF.644 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 740;60 N jcn_only_AA CUFF.649 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 53;4 N alternative_donor CUFF.701 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254638-45258731 chr19:45254637-45254638 18;41 N jcn_only_AA chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 21;107 K intron_retention CUFF.706 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 229;55 K alternative_acceptor CUFF.646,CUFF.699 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 38;185 N intron_retention chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 81;462 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 72;3 K alternative_acceptor CUFF.699,CUFF.717 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 146;29 K alternative_first_exon CUFF.689 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139554-36139810 39;49 N jcn_only_AA CUFF.717 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 14;30 K alternative_last_exon CUFF.699 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44777458-44778827;chr19:44771533-44772344 chr19:44777052-44777451 871;106 N jcn_only_AD CUFF.716 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 62;47 K alternative_first_exon CUFF.712 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51531199 chr19:51528923-51529011 chr19:51530713-51530991;chr19:51529794-51529858;chr19:51531200-51531359 chr19:51529012-51529148 474;65 K alternative_donor CUFF.688 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 10;35 N alternative_acceptor CUFF.724 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 142;209 K intron_retention CUFF.704 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 699;41 N intron_retention CUFF.675 chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 54;88 N jcn_only_AA CUFF.644,CUFF.675 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 582;30 N alternative_acceptor CUFF.644 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 759;41 K cassette CUFF.675 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 28;510 K intron_retention CUFF.691 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 675;54 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 35;169 K intron_retention CUFF.679 chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 50;20 K jcn_only_AA CUFF.646 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 190;23 K alternative_donor CUFF.662 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 46;30 N alternative_donor CUFF.716 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 105;27 K alternative_first_exon CUFF.710 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 71;33 K intron_retention CUFF.644 chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 85;106 N jcn_only_AA CUFF.650 chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 50;64 K intron_retention CUFF.676 chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 8;112 K alternative_last_exon CUFF.699 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44777458-44778827;chr19:44777052-44777451 chr19:44771533-44772344 567;410 N alternative_acceptor CUFF.675 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 211;217 K alternative_donor CUFF.691 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 245;448 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 30;42 K intron_retention CUFF.669 chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 7;37 N jcn_only_AA CUFF.712 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 148;8 K alternative_acceptor CUFF.662 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 282;23 N alternative_acceptor CUFF.644 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 47;231 K alternative_acceptor CUFF.662 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 228;77 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 17;249 K alternative_last_exon CUFF.669 chr19 - chr19:14877922-14883153;chr19:14876383-14883153 chr19:14879747-14883153 chr19:14877790-14877921;chr19:14876336-14876382 chr19:14879618-14879746 258;257 N alternative_donor CUFF.699 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 41;10 N intron_retention chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 78;581 N alternative_acceptor CUFF.705 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 206;18 K alternative_first_exon CUFF.680 chr19 - chr19:20243397-20349096;chr19:20243397-20351308 chr19:20243397-20261169 chr19:20349097-20349337;chr19:20351309-20351446 chr19:20261170-20261357 261;14 N jcn_only_AD CUFF.701 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 97;8 N coord_cassette CUFF.650 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 20;377 K alternative_first_exon CUFF.668,CUFF.713 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538062-51538575 chr19:51538051-51538054 1603;22 K cassette CUFF.669 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 34;290 K jcn_only_AD CUFF.691 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 192;186 N intron_retention chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 9;123 K alternative_last_exon CUFF.669 chr19 - chr19:14877922-14883153;chr19:14879747-14883153 chr19:14876383-14883153 chr19:14877790-14877921;chr19:14879618-14879746 chr19:14876336-14876382 496;19 N alternative_acceptor CUFF.722 chr19 - chr19:56307617-56312937;chr19:56309671-56312937 chr19:56312543-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 85;31 N intron_retention CUFF.717 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 18;262 N alternative_acceptor CUFF.719 chr19 + chr19:55087577-55098667;chr19:55087577-55088931 chr19:55087577-55098476 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 404;85 K intron_retention CUFF.706 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 25;57 K intron_retention CUFF.667 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 51;12 K cassette CUFF.669 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 89;65 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 57;18 K alternative_first_exon CUFF.724 chr19 + chr19:58963111-58965062;chr19:58963072-58965062,chr19:58963121-58965062 chr19:58964150-58965062 chr19:58962971-58963071 chr19:58963949-58964149 192;85 K alternative_donor CUFF.645 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 32;12 N alternative_acceptor chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 9;272 K intron_retention CUFF.724 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 108;200 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 17;42 K alternative_acceptor CUFF.646 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 70;112 N intron_retention chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 25;158 K jcn_only_AA CUFF.662 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 87;123 N alternative_donor CUFF.675 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 36;32 N jcn_only_AA CUFF.717 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 36;19 N jcn_only_AA CUFF.719 chr19 + chr19:55087577-55098667;chr19:55087577-55088931 chr19:55087577-55098476 chr19:55088932-55098476;chr19:55098477-55098667 chr19:55098476-55098477;chr19:55098667-55098668 398;85 N alternative_donor CUFF.716 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 82;50 N intron_retention chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 8;54 K jcn_only_AD CUFF.691 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 650;17 K intron_retention CUFF.675 chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 349;50 K alternative_donor CUFF.646 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 381;14 N jcn_only_AD CUFF.722 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 47;14 N alternative_acceptor CUFF.703 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 778;177 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 60;198 K coord_cassette CUFF.676 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17612081;chr19:17612229-17615263 chr19:17611521-17611685;chr19:17612082-17612228 33;98 K cassette CUFF.722 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 59;125 N intron_retention chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 11;27 K jcn_only_AD CUFF.645 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 32;9 N alternative_acceptor CUFF.650 chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 358;632 K jcn_only_AA CUFF.662 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 133;77 N jcn_only_AD CUFF.716 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 97;12 K intron_retention CUFF.706 chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 5;31 N jcn_only_AA CUFF.724 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 159;8 K intron_retention CUFF.706 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 58;132 K intron_retention CUFF.691 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 186;83 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-34001933 chr19:33984244-33991843 37;28 K alternative_acceptor CUFF.662 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 100;205 K jcn_only_AD CUFF.644 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 85;554 K jcn_only_AD CUFF.663,CUFF.694 chr19 - chr19:11537861-11541718 chr19:11537861-11541518 40;126 K coord_cassette CUFF.704 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 236;1641 N jcn_only_AD CUFF.676 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 390;28 K intron_retention CUFF.646 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 49;106 K alternative_last_exon CUFF.683 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21631935-21632179 chr19:21635838-21636081 289;96 K intron_retention CUFF.713 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 380;236 N alternative_acceptor chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 21;157 K alternative_first_exon CUFF.680 chr19 - chr19:20243397-20261169;chr19:20243397-20351308 chr19:20243397-20349096 chr19:20261170-20261357;chr19:20351309-20351446 chr19:20349097-20349337 60;215 N alternative_acceptor CUFF.675 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 309;119 N cassette CUFF.687 chr19 - chr19:33882386-33892626 chr19:33882386-33886995;chr19:33887062-33892626 chr19:33886996-33887061 29;667 N coord_cassette CUFF.669 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 38;297 N jcn_only_AD CUFF.696,CUFF.712 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 402;112 K intron_retention CUFF.692 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 66;9 K intron_retention CUFF.662 chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 10;44 K alternative_first_exon CUFF.674 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594741-16594926 chr19:16594573-16594721 38;34 K alternative_last_exon CUFF.680 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243270-20243396 chr19:20339224-20339292 123;10 K intron_retention CUFF.679 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 87;19 K alternative_first_exon CUFF.712 chr19 - chr19:51528923-51530712;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51529793 chr19:51530713-51530991;chr19:51529012-51529148;chr19:51531200-51531359 chr19:51529794-51529858 391;148 N coord_cassette CUFF.650 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 141;106 K jcn_only_AA CUFF.695 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 17;4 K intron_retention CUFF.717 chr19 + chr19:54656737-54657451 chr19:54656736-54656737;chr19:54657451-54657452 49;106 N alternative_acceptor CUFF.650 chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 668;322 K intron_retention CUFF.704 chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 301;33 N jcn_only_AA CUFF.644 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 605;7 K intron_retention CUFF.644 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 554;89 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 46;52 N alternative_donor CUFF.687,CUFF.691 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 101;34 N alternative_acceptor CUFF.722 chr19 - chr19:56312543-56312937;chr19:56309671-56312937 chr19:56307617-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 38;78 K jcn_only_AD CUFF.669,CUFF.691 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 465;202 K jcn_only_AD CUFF.662 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 46;10 K intron_retention CUFF.699 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 45;67 K jcn_only_AA CUFF.662 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 200;10 K jcn_only_AD CUFF.646 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 190;14 N cassette CUFF.704 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 367;738 N jcn_only_AA CUFF.722 chr19 - chr19:56307617-56312937;chr19:56309671-56312937 chr19:56312543-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 85;20 K alternative_donor CUFF.704 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 381;755 K alternative_last_exon CUFF.631 chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391127 chr18:61378569-61378628 243;89 K cassette CUFF.611 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 26;75 N intron_retention chr18 + chr18:44336588-44336745 chr18:44336587-44336588;chr18:44336745-44336746 11;459 N alternative_donor CUFF.625 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 314;128 K jcn_only_AA CUFF.636 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 39;74 N jcn_only_AA chr18 + chr18:55711941-56057877 chr18:55711941-55833019 34;155 K alternative_first_exon CUFF.641 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441436-77441517 chr18:77455225-77455308 35;192 N jcn_only_AA CUFF.614 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 309;24 K alternative_last_exon CUFF.612 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807934-4807994 20;26 N alternative_acceptor chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 30;49 N jcn_only_AD CUFF.642 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 25;13 N jcn_only_AA CUFF.625,CUFF.642 chr18 + chr18:55833094-55912658 chr18:55833094-55895061 chr18:55895062-55912658 chr18:55912658-55912659 157;41 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 12;14 N coord_cassette CUFF.625 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 38;219 K intron_retention CUFF.621 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 316;50 N alternative_donor CUFF.642 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 25;35 K alternative_first_exon CUFF.614 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999053-11999186 chr18:12008559-12008590 464;19 K alternative_first_exon CUFF.624 chr18 - chr18:47329224-47337765,chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47340051,chr18:47329224-47339838 chr18:47329224-47339094 chr18:47340102-47340330 chr18:47339095-47339097 464;11 N jcn_only_AA CUFF.614 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 383;12 K alternative_first_exon CUFF.625 chr18 + chr18:55895121-55912658,chr18:55862966-55912658,chr18:55895140-55912658;chr18:55888990-55912658;chr18:55865102-55912658 chr18:55833094-55912658 chr18:55888948-55888989;chr18:55864988-55865101 chr18:55833020-55833093 268;157 N alternative_acceptor chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 40;20 K intron_retention CUFF.614 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 182;157 K intron_retention CUFF.632 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 22;35 N cassette CUFF.614 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 37;565 K alternative_first_exon CUFF.625 chr18 + chr18:55816802-55833019,chr18:55816792-55833019,chr18:55713251-55833019,chr18:55712848-55833019,chr18:55722109-55833019,chr18:55714743-55833019,chr18:55713021-55833019;chr18:55711941-55833019 chr18:55758860-55833019 chr18:55711599-55711940 chr18:55758623-55758859 357;270 K cassette CUFF.628 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 14;54 N jcn_only_AD CUFF.638 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 177;10 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 189;291 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 4;18 N jcn_only_AD CUFF.625 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 336;18 N cassette CUFF.625 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 158;81 N alternative_donor CUFF.625 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 3;379 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 40;193 K alternative_first_exon CUFF.625 chr18 + chr18:55895121-55912658,chr18:55862966-55912658,chr18:55895140-55912658;chr18:55833094-55912658;chr18:55865102-55912658 chr18:55888990-55912658 chr18:55833020-55833093;chr18:55864988-55865101 chr18:55888948-55888989 416;9 N alternative_acceptor CUFF.614 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 459;21 K alternative_first_exon CUFF.640 chr18 - chr18:76737430-76738785,chr18:76737430-76738462 chr18:76737430-76737554 chr18:76738786-76738843 chr18:76737555-76737692 97;27 K alternative_first_exon CUFF.611 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158383-158714 chr18:158826-159021 25;84 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 42;291 N alternative_first_exon CUFF.615 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658042-12658204 chr18:12658208-12658342 95;21 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 42;184 N cassette CUFF.641 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 chr18:77477810-77478016;chr18:77496355-77496521 6;47 K jcn_only_AD CUFF.640 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 67;30 N alternative_donor CUFF.625 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 342;71 N jcn_only_AA CUFF.621 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 42;316 K mutually_exclusive CUFF.611 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 59;17 K jcn_only_AD CUFF.624 chr18 - chr18:47329224-47340101;chr18:47329224-47339838 chr18:47329224-47340051 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 100;102 N alternative_acceptor CUFF.625,CUFF.642 chr18 + chr18:55833094-55912658 chr18:55833094-55895061 chr18:55895062-55912658 chr18:55912658-55912659 157;41 N cassette CUFF.611 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 4;59 N cassette CUFF.611 chr18 + chr18:163454-178932;chr18:163454-180235 chr18:163454-166786;chr18:166820-180235,chr18:166820-178932 chr18:166787-166819 29;32 K alternative_first_exon CUFF.625 chr18 + chr18:55895121-55912658,chr18:55862966-55912658,chr18:55895140-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55865102-55912658 chr18:55888948-55888989;chr18:55833020-55833093 chr18:55864988-55865101 263;162 N alternative_first_exon CUFF.625 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 52;540 N jcn_only_AD CUFF.625 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 342;18 N alternative_first_exon CUFF.636 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67623850-67623897;chr18:67628828-67628845 chr18:67623991-67624463 30;55 N jcn_only_AA CUFF.615 chr18 + chr18:55862966-55912658 chr18:55862966-55895061 chr18:55895062-55912658 chr18:55912658-55912659 5;9 K jcn_only_AD CUFF.616 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 8;31 N jcn_only_AD CUFF.638 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 174;13 N coord_cassette CUFF.621 chr18 - chr18:44284628-44338957 chr18:44284628-44301324;chr18:44301433-44310168;chr18:44310325-44311643;chr18:44311807-44338957 chr18:44301325-44301432;chr18:44310169-44310324;chr18:44311644-44311806 7;306 K cassette CUFF.642 chr18 + chr18:77891076-77893494 chr18:77891076-77891574;chr18:77891690-77893494 chr18:77891575-77891689 37;15 K jcn_only_AD CUFF.631 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 20;52 K alternative_donor CUFF.640 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 67;152 K cassette CUFF.641 chr18 + chr18:77489070-77513651 chr18:77489070-77496354;chr18:77496522-77513651 chr18:77496355-77496521 chr18:77488907-77489069;chr18:77513652-77514510 12;82 N alternative_first_exon CUFF.622 chr18 - chr18:44486279-44497284;chr18:44486279-44497964 chr18:44486279-44500021 chr18:44497285-44497550;chr18:44497965-44498020 chr18:44500022-44500111 137;39 N jcn_only_AA chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 30;48 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 12;203 N jcn_only_AA CUFF.633 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 15;25 N alternative_donor CUFF.638 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 233;13 K cassette CUFF.621 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 6;505 N alternative_acceptor CUFF.615 chr18 + chr18:55862966-55912658 chr18:55862966-55895061 chr18:55895062-55912658 chr18:55912658-55912659 5;9 N cassette CUFF.631 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 5;176 K alternative_first_exon CUFF.616 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728271-14728513 chr18:14796342-14796414 123;33 N jcn_only_AD CUFF.614 chr18 + chr18:11981765-11999052;chr18:11981205-11999052 chr18:11981130-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 88;49 N jcn_only_AD CUFF.625 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 448;10 N alternative_donor CUFF.625 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 448;12 N cassette CUFF.625 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 38;666 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 40;4 N jcn_only_AD CUFF.614 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 80;57 N alternative_donor CUFF.625 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 336;20 N alternative_acceptor CUFF.614 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 312;168 N coord_cassette CUFF.622 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44500021 chr18:44473394-44473494;chr18:44483490-44483596 7;54 K jcn_only_AA CUFF.635 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 72;52 N alternative_first_exon chr18 + chr18:55862966-55895061;chr18:55833094-55895061 chr18:55888990-55895061 chr18:55833020-55833093 chr18:55888948-55888989 50;36 K alternative_donor CUFF.624 chr18 - chr18:47329224-47340051;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 220;140 N coord_cassette CUFF.636 chr18 - chr18:67563282-67623990 chr18:67563282-67613969;chr18:67614007-67614596;chr18:67614769-67623990 chr18:67613970-67614006;chr18:67614597-67614768 4;91 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 3;822 K alternative_donor CUFF.642 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 26;30 N intron_retention CUFF.622 chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 29;62 K alternative_last_exon CUFF.629 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060642-61060782 chr18:61060789-61060799 91;21 N jcn_only_AD chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 23;164 N cassette CUFF.625 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 7;844 K jcn_only_AD CUFF.624 chr18 - chr18:47329224-47340051;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 138;64 K jcn_only_AD CUFF.642 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 26;25 K jcn_only_AD CUFF.624 chr18 - chr18:47329224-47340051;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 166;36 K cassette CUFF.622 chr18 - chr18:44471018-44483489 chr18:44471018-44473393;chr18:44473495-44483489 chr18:44473394-44473494 118;34 N jcn_only_AA chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 40;20 N alternative_first_exon CUFF.636 chr18 - chr18:67614769-67623849;chr18:67614769-67623990 chr18:67614769-67628827 chr18:67623850-67623897;chr18:67623991-67624463 chr18:67628828-67628845 72;13 N alternative_donor CUFF.614 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 291;167 K jcn_only_AA CUFF.616 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 8;38 N cassette CUFF.616 chr18 + chr18:14791491-14796341 chr18:14791491-14796219;chr18:14796249-14796341 chr18:14796220-14796248 28;25 K cassette CUFF.622 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 17;567 N alternative_acceptor CUFF.621 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 42;497 N cassette CUFF.622 chr18 - chr18:44483597-44486189 chr18:44483597-44484064;chr18:44484170-44486189 chr18:44484065-44484169 29;78 K cassette CUFF.629 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 56;163 K intron_retention CUFF.615 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 42;19 N alternative_donor CUFF.638 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 206;40 N alternative_acceptor CUFF.633 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 15;28 N cassette CUFF.622 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 7;149 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 40;152 K jcn_only_AA CUFF.641 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77441436-77441517 192;56 N alternative_donor CUFF.614 chr18 + chr18:11981765-11999052;chr18:11981205-11999052 chr18:11981130-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 243;49 N alternative_first_exon CUFF.636 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67628828-67628845;chr18:67623991-67624463 chr18:67623850-67623897 68;17 N cassette CUFF.621 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 25;302 K cassette CUFF.629 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 74;58 N jcn_only_AA CUFF.625,CUFF.631 chr18 + chr18:55888990-55912658 chr18:55888990-55895061 chr18:55895062-55912658 chr18:55912658-55912659 9;36 N alternative_acceptor CUFF.614 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 383;78 N alternative_donor CUFF.614 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 93;199 N coord_cassette CUFF.621 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 25;720 K alternative_first_exon CUFF.633 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417488-63417616 chr18:63418048-63418386 29;43 N jcn_only_AD CUFF.625 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 314;43 N jcn_only_AD CUFF.614 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 291;20 K alternative_acceptor CUFF.635 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 72;61 N jcn_only_AA CUFF.614 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 315;18 K alternative_donor CUFF.624 chr18 - chr18:47329224-47340101;chr18:47329224-47339838 chr18:47329224-47340051 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 204;156 N coord_cassette CUFF.636 chr18 - chr18:67563282-67623990 chr18:67563282-67611719;chr18:67611805-67613969;chr18:67614007-67614596;chr18:67614769-67623990 chr18:67611720-67611804;chr18:67613970-67614006;chr18:67614597-67614768 4;98 K cassette CUFF.622 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 20;241 K cassette CUFF.611 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 37;125 K intron_retention CUFF.622 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 87;92 K intron_retention CUFF.625 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 493;27 N jcn_only_AD CUFF.614 chr18 + chr18:11981130-11999052;chr18:11981765-11999052 chr18:11981205-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 106;31 N alternative_first_exon CUFF.622 chr18 - chr18:44486279-44497964;chr18:44486279-44500021 chr18:44486279-44497284 chr18:44497965-44498020;chr18:44500022-44500111 chr18:44497285-44497550 74;102 N alternative_donor CUFF.614 chr18 + chr18:11981130-11999052;chr18:11981765-11999052 chr18:11981205-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 248;44 K mutually_exclusive CUFF.622 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 181;56 K alternative_last_exon CUFF.622 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398150-44398410 23;103 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 3;25 N alternative_first_exon CUFF.622 chr18 - chr18:44486279-44497284;chr18:44486279-44500021 chr18:44486279-44497964 chr18:44497285-44497550;chr18:44500022-44500111 chr18:44497965-44498020 141;35 N alternative_donor chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 53;193 N jcn_only_AD CUFF.625 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 3;87 K alternative_donor CUFF.624 chr18 - chr18:47329224-47340051;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 296;64 N alternative_acceptor CUFF.625,CUFF.631 chr18 + chr18:55888990-55912658 chr18:55888990-55895061 chr18:55895062-55912658 chr18:55912658-55912659 9;36 K cassette CUFF.636 chr18 - chr18:67563282-67613969 chr18:67563282-67611719;chr18:67611805-67613969 chr18:67611720-67611804 38;45 N mutually_exclusive CUFF.641 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 chr18:77477810-77478016;chr18:77513652-77514510 31;26 K jcn_only_AD CUFF.631 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 14;102 K alternative_last_exon CUFF.633 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63476940-63477234 chr18:63470351-63471043 105;229 N jcn_only_AD CUFF.1414 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 55;4 N jcn_only_AA CUFF.1386 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 15;16 N jcn_only_AD CUFF.1375,CUFF.1403 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 15;8 K cassette CUFF.1406 chrX + chrX:114536689-114540769 chrX:114536689-114537864;chrX:114537984-114540769 chrX:114537865-114537983 106;75 K alternative_first_exon CUFF.1379,CUFF.1381 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349996-15350114 chrX:15349712-15349985 24;27 K jcn_only_AD CUFF.1387 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 103;32 K intron_retention CUFF.1381 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 24;24 N alternative_first_exon CUFF.1380 chrX + chrX:15699171-15706783;chrX:15693092-15706783;chrX:15699311-15706783 chrX:15693902-15706783 chrX:15693055-15693091;chrX:15699121-15699310 chrX:15693768-15693901 48;52 N jcn_only_AD CUFF.1414 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 56;3 K intron_retention CUFF.1379 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 40;158 K intron_retention CUFF.1383 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 8;21 K alternative_first_exon CUFF.1417 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238313-153238337;chrX:153246057-153246074 chrX:153237778-153238311 chrX:153247301-153248646 40;83 K alternative_last_exon CUFF.1402 chrX - chrX:106235661-106236459;chrX:106059017-106236459 chrX:106229431-106236459 chrX:106057101-106059016 chrX:106229213-106229430 83;17 K alternative_acceptor CUFF.1382 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 12;147 N jcn_only_AD CUFF.1381,CUFF.1402 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 49;6 K intron_retention CUFF.1388 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 30;536 K intron_retention CUFF.1378 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 63;19 K cassette CUFF.1395 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 66;49 K alternative_last_exon CUFF.1381 chrX - chrX:19936218-19947902;chrX:19935453-19947902 chrX:19941526-19947902 chrX:19930978-19935452 chrX:19941437-19941525 982;41 N alternative_donor CUFF.1404 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 198;27 K cassette CUFF.1379 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 40;30 N jcn_only_AD CUFF.1404 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 198;14 N alternative_donor CUFF.1378 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 259;42 N intron_retention chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 14;58 K alternative_last_exon CUFF.1407 chrX - chrX:119374209-119378618;chrX:119271100-119378618;chrX:119312412-119378618 chrX:119355498-119378618 chrX:119270952-119271099;chrX:119312344-119312411 chrX:119355198-119355497 62;228 K alternative_first_exon CUFF.1416 chrX - chrX:152988744-152988962,chrX:152988744-152989941;chrX:152988744-152989409;chrX:152988744-152989788,chrX:152988744-152989655 chrX:152988744-152989470 chrX:152989410-152989410;chrX:152989789-152989789 chrX:152989471-152989617 165;40 N alternative_first_exon CUFF.1380 chrX + chrX:15699171-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699311-15706783 chrX:15693055-15693091;chrX:15693768-15693901 chrX:15699121-15699310 74;26 N alternative_acceptor CUFF.1375 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 11;124 K cassette CUFF.1387 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 46;153 N alternative_donor CUFF.1398 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 54;5 N alternative_donor CUFF.1414 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 8;52 K intron_retention CUFF.1418 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 85;85 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 4;8 K intron_retention CUFF.1403 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 15;71 N intron_retention chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 11;21 N cassette CUFF.1404 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 114;196 N jcn_only_AA CUFF.1381 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 7;49 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 8;13 N alternative_first_exon CUFF.1395 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003129-78003531 chrX:78006707-78006808 49;27 K alternative_last_exon CUFF.1380 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715874 chrX:15720905-15721824 242;308 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 18;43 K jcn_only_AA CUFF.1382 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 12;85 K jcn_only_AD CUFF.1384 chrX + chrX:45129987-45184737 chrX:45184464-45184737 21;64 N jcn_only_AD CUFF.1418 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 18;53 N alternative_donor CUFF.1418 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 18;78 N jcn_only_AD CUFF.1381 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 5;6 K alternative_last_exon CUFF.1407 chrX - chrX:119374209-119378618;chrX:119355498-119378618;chrX:119312412-119378618 chrX:119271100-119378618 chrX:119355198-119355497;chrX:119312344-119312411 chrX:119270952-119271099 246;44 N alternative_acceptor CUFF.1387 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 6;5 K intron_retention CUFF.1418 chrX + chrX:153608728-153609112 chrX:153608727-153608728;chrX:153609112-153609113 96;36 N alternative_acceptor CUFF.1380 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 122;15 N jcn_only_AD CUFF.1410 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 4;8 N alternative_donor CUFF.1377 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10588330-10645504 chrX:10645504-10645505 249;63 K alternative_first_exon CUFF.1416 chrX - chrX:152988744-152988962,chrX:152988744-152989941;chrX:152988744-152989409;chrX:152988744-152989470 chrX:152988744-152989788,chrX:152988744-152989655 chrX:152989410-152989410;chrX:152989471-152989617 chrX:152989789-152989789 159;46 K alternative_first_exon CUFF.1381,CUFF.1382 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953927-19954016 chrX:19953476-19953710 43;258 N intron_retention chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 6;110 N alternative_donor CUFF.1375 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 16;34 K alternative_last_exon CUFF.1380 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721824;chrX:15713794-15713856 chrX:15715363-15715874 325;225 N alternative_acceptor CUFF.1386 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 75;315 N intron_retention chrX - chrX:119374209-119378618 chrX:119374208-119374209;chrX:119378618-119378619 5;13 N jcn_only_AD CUFF.1381 chrX - chrX:19935453-19936189;chrX:19935453-19947902 chrX:19935453-19941275 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 109;52 N jcn_only_AD CUFF.1414 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 7;52 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 4;8 K intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 22;88 N intron_retention chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 6;35 N alternative_acceptor CUFF.1386 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 323;67 N jcn_only_AA CUFF.1377 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 7;45 K alternative_first_exon CUFF.1384 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042496-45042589 chrX:45182792-45182892 18;37 N intron_retention chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 16;60 N jcn_only_AD CUFF.1378 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 259;29 K alternative_acceptor CUFF.1384 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 28;92 K alternative_first_exon CUFF.1382 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237064 78;164 K alternative_first_exon CUFF.1416 chrX - chrX:152988744-152988962,chrX:152988744-152989941;chrX:152988744-152989788,chrX:152988744-152989655;chrX:152988744-152989470 chrX:152988744-152989409 chrX:152989789-152989789;chrX:152989471-152989617 chrX:152989410-152989410 189;16 N alternative_donor CUFF.1375,CUFF.1403 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 15;56 K intron_retention CUFF.1401 chrX + chrX:103357693-103357885 chrX:103357692-103357693;chrX:103357885-103357886 59;11 N alternative_acceptor CUFF.1382 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 39;4 N alternative_acceptor CUFF.1381 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 7;181 N intron_retention chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 60;32 K intron_retention chrX - chrX:152988744-152989409 chrX:152988743-152988744;chrX:152989409-152989410 16;56 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 85;57 K intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 24;71 N alternative_donor CUFF.1381 chrX - chrX:19935453-19936189;chrX:19935453-19947902 chrX:19935453-19941275 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 118;118 N alternative_donor CUFF.1404 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 325;24 N alternative_donor CUFF.1381 chrX - chrX:19935453-19941275;chrX:19935453-19947902 chrX:19935453-19936189 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 221;15 K intron_retention CUFF.1398 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 41;13 N jcn_only_AA CUFF.1398 chrX - chrX:85219058-85302487 chrX:85282562-85302487 6;54 K alternative_acceptor CUFF.1382 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 60;17 K alternative_donor CUFF.1387 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 103;32 N jcn_only_AD CUFF.1404 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 325;7 K jcn_only_AA CUFF.1382 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 60;5 K cassette CUFF.1387 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 22;55 K cassette CUFF.1378 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 88;195 N jcn_only_AA CUFF.1382 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 39;4 N intron_retention chrX - chrX:134257303-134257418 chrX:134257302-134257303;chrX:134257418-134257419 15;251 K cassette CUFF.1400 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 7;114 K cassette CUFF.1404 chrX + chrX:107369418-107372010 chrX:107369418-107370022;chrX:107370325-107372010 chrX:107370023-107370324 64;356 K intron_retention CUFF.1381 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 16;52 K alternative_first_exon CUFF.1411 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250806-134250852 89;28 K alternative_last_exon CUFF.1380 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721824;chrX:15715363-15715874 chrX:15713794-15713856 533;17 K alternative_first_exon CUFF.1417 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153237778-153238311;chrX:153238313-153238337 chrX:153246057-153246074 chrX:153247301-153248646 98;25 K alternative_first_exon CUFF.1375 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9050620-9050776 chrX:9001893-9002186 14;55 K intron_retention CUFF.1404 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 198;20 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 100;182 N alternative_donor CUFF.1381 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 5;14 N cassette CUFF.1388 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 124;160 N alternative_first_exon CUFF.1380 chrX + chrX:15699171-15706783;chrX:15693902-15706783;chrX:15699311-15706783 chrX:15693092-15706783 chrX:15693768-15693901;chrX:15699121-15699310 chrX:15693055-15693091 81;19 N jcn_only_AA CUFF.1387 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 6;5 N alternative_donor CUFF.1381,CUFF.1402 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 49;6 N jcn_only_AD CUFF.1378 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 74;26 K mutually_exclusive CUFF.1375 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 93;9 N jcn_only_AA CUFF.1386 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 24;7 N alternative_donor CUFF.1378 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 74;26 N jcn_only_AA CUFF.1380 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 122;14 K alternative_first_exon CUFF.1375,CUFF.1382 chrX - chrX:9130946-9132333 chrX:9130946-9131117 chrX:9132334-9132709 chrX:9131118-9131233 37;5 K jcn_only_AD CUFF.1387 chrX + chrX:47035986-47040613 chrX:47039906-47040613 7;131 N jcn_only_AD CUFF.1375 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 16;14 N alternative_acceptor CUFF.1377 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 7;93 K intron_retention CUFF.1388 chrX - chrX:53569501-53570801 chrX:53569500-53569501;chrX:53570801-53570802 14;67 N jcn_only_AD chrX - chrX:19935453-19941275;chrX:19935453-19936189 chrX:19935453-19947902 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 58;103 N alternative_donor CUFF.1378 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 259;69 N cassette CUFF.1404 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 18;288 N alternative_donor chrX - chrX:19935453-19941275;chrX:19935453-19936189 chrX:19935453-19947902 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 133;103 K intron_retention CUFF.1401 chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 54;17 N jcn_only_AD CUFF.1381 chrX - chrX:19935453-19941275;chrX:19935453-19947902 chrX:19935453-19936189 chrX:19936190-19941275;chrX:19941276-19947902 chrX:19941275-19941276;chrX:19947902-19947903 155;6 K jcn_only_AA CUFF.1387 chrX + chrX:47035986-47040613 chrX:47035986-47038501 7;51 K alternative_first_exon CUFF.1382 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20285157-20285607 chrX:20258687-20258723 69;49 N intron_retention CUFF.1403 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 8;60 N alternative_donor CUFF.1410 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 4;20 N alternative_donor CUFF.1414 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 56;4 N alternative_acceptor CUFF.1386 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 382;8 N coord_cassette CUFF.1404 chrX + chrX:107369418-107374489 chrX:107369418-107370022;chrX:107370325-107372010;chrX:107372083-107374489 chrX:107370023-107370324;chrX:107372011-107372082 114;425 N alternative_first_exon CUFF.1381 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20284682-20284958 chrX:20259711-20259796 66;8 N jcn_only_AD CUFF.1378 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 259;23 K intron_retention CUFF.1412 chrX - chrX:134290954-134291240 chrX:134290953-134290954;chrX:134291240-134291241 21;62 K cassette CUFF.1395 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 17;92 K alternative_last_exon CUFF.1378 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13789150-13791149 chrX:13792076-13792743 295;684 K intron_retention CUFF.1388 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 138;63 K jcn_only_AA CUFF.1384 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 28;22 N jcn_only_AD CUFF.1398 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 54;4 K jcn_only_AD CUFF.1388,ENSG00000130224.10 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 138;14 N coord_cassette CUFF.1404 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 23;660 K alternative_donor CUFF.1416 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 22;78 K intron_retention CUFF.1418 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 87;34 N jcn_only_AA CUFF.1375 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 11;13 N jcn_only_AA CUFF.1386 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 23;8 K jcn_only_AD CUFF.1416 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 22;24 K cassette CUFF.1418 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 20;160 K alternative_first_exon CUFF.1417 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153237778-153238311;chrX:153246057-153246074 chrX:153238313-153238337 chrX:153247301-153248646 108;15 N jcn_only_AD CUFF.1382 chrX - chrX:114358566-114364717 chrX:114358566-114361405 4;2 N alternative_donor CUFF.1414 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 56;4 K alternative_last_exon CUFF.1410,CUFF.1413 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654537 chrX:133634060-133634698 9;49 K alternative_donor CUFF.1388,ENSG00000130224.10 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 138;51 K alternative_last_exon CUFF.1407 chrX - chrX:119374209-119378618;chrX:119271100-119378618;chrX:119355498-119378618 chrX:119312412-119378618 chrX:119270952-119271099;chrX:119355198-119355497 chrX:119312344-119312411 277;13 N jcn_only_AD CUFF.1377 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10588330-10645504 chrX:10645504-10645505 249;24 K cassette CUFF.1379 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 13;833 K intron_retention CUFF.1401 chrX + chrX:103358265-103359942 chrX:103358264-103358265;chrX:103359942-103359943 18;38 K mutually_exclusive CUFF.911 chr22 + chr22:47308085-47370185,chr22:47370296-47393529 chr22:47308085-47309229,chr22:47309343-47393529 chr22:47370186-47370295 chr22:47309230-47309342 309;43 K intron_retention CUFF.901 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 32;52 K cassette CUFF.909 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 54;349 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 175;92 N alternative_acceptor chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 7;65 N cassette CUFF.911 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 26;277 N alternative_acceptor chr22 + chr22:45204319-45204885 chr22:45204319-45204551 chr22:45204552-45204885 chr22:45204885-45204886 30;31 K intron_retention CUFF.888 chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 72;9 K intron_retention CUFF.884 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 74;124 N intron_retention chr22 + chr22:21057981-21058106 chr22:21057980-21057981;chr22:21058106-21058107 8;118 K jcn_only_AD CUFF.892 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 9;14 N jcn_only_AD CUFF.889 chr22 + chr22:21058172-21058255;chr22:21057981-21058255 chr22:21058040-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 120;389 K cassette CUFF.888 chr22 + chr22:20755049-20759666 chr22:20755049-20755566;chr22:20755663-20759666 chr22:20755567-20755662 10;316 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 230;725 K alternative_last_exon CUFF.894 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25915890-25916129 chr22:25856834-25857645 197;241 N jcn_only_AA CUFF.884 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 245;8 K intron_retention CUFF.894 chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 65;33 K alternative_first_exon CUFF.898 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29663998-29664338 chr22:29665568-29665651 943;5 N jcn_only_AD CUFF.909 chr22 + chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336;chr22:45173110-45182336;chr22:45148508-45182336 chr22:45181982-45182336 103;13 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 38;18 K alternative_acceptor CUFF.898 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 20;500 K intron_retention CUFF.894 chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 7;37 N alternative_donor chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 175;95 N alternative_acceptor CUFF.898 chr22 + chr22:21057981-21058255 chr22:21057981-21058106 chr22:21058107-21058255 chr22:21058255-21058256 111;169 K cassette CUFF.911 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 264;240 N mutually_exclusive CUFF.911 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 51;116 K intron_retention CUFF.889 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 25;231 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 41;28 K intron_retention CUFF.913 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 161;78 K intron_retention CUFF.901 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 67;57 N cassette CUFF.904 chr22 + chr22:37697061-37699294 chr22:37697061-37697921;chr22:37698073-37699294 chr22:37697922-37698072 16;408 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 10;36 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 26;199 K intron_retention CUFF.913 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 122;54 K alternative_first_exon CUFF.889 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21055151-21056594 chr22:21056600-21056748 1281;91 N alternative_acceptor chr22 - chr22:51016364-51017464 chr22:51017089-51017464 chr22:51016364-51017088 chr22:51016363-51016364 6;94 K cassette CUFF.889 chr22 + chr22:21056998-21057293 chr22:21056998-21057117;chr22:21057182-21057293 chr22:21057118-21057181 180;62 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 23;38 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 44;23 K intron_retention CUFF.898 chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 101;36 K intron_retention CUFF.889 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 269;230 N cassette CUFF.898 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 28;696 K alternative_donor CUFF.885 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 9;269 K jcn_only_AA CUFF.884 chr22 - chr22:18096087-18111368 chr22:18102293-18111368 11;96 N alternative_acceptor CUFF.898,CUFF.909 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 758;197 N jcn_only_AD CUFF.909 chr22 + chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336;chr22:45148508-45182336;chr22:45181982-45182336 chr22:45173110-45182336 109;7 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 44;367 K cassette CUFF.888 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 19;198 N alternative_last_exon chr22 + chr22:45244941-45258154 chr22:45244941-45255610 chr22:45258155-45258664 chr22:45255611-45255714 49;149 K alternative_first_exon CUFF.892 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700370-24700420 58;13 N alternative_donor chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 4;14 N jcn_only_AA CUFF.901 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 15;613 K intron_retention CUFF.889 chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 44;309 N jcn_only_AD chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 4;10 N jcn_only_AA CUFF.890 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 64;17 N alternative_acceptor CUFF.904 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 283;31 K alternative_first_exon CUFF.905 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705274-37705364 chr22:37705977-37706073 26;58 N jcn_only_AA chr22 - chr22:51016364-51017464 chr22:51017089-51017464 chr22:51016364-51017088 chr22:51016363-51016364 6;33 N jcn_only_AD CUFF.909 chr22 + chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336;chr22:45173110-45182336;chr22:45181982-45182336 chr22:45148508-45182336 66;50 N jcn_only_AD CUFF.913 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 122;39 N jcn_only_AA CUFF.898,CUFF.904 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 186;16 N jcn_only_AD CUFF.884 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 31;177 K cassette CUFF.888 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 7;81 N jcn_only_AD CUFF.913 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 38;41 K jcn_only_AA CUFF.893 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 18;11 N jcn_only_AA CUFF.904 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 270;12 N jcn_only_AA CUFF.898,CUFF.909 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 329;80 K cassette CUFF.888 chr22 + chr22:20749709-20754921 chr22:20749709-20753884;chr22:20753981-20754921 chr22:20753885-20753980 77;151 N alternative_acceptor CUFF.898 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 922;33 K coord_cassette CUFF.888 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20753884;chr22:20753981-20754921 chr22:20749623-20749708;chr22:20753885-20753980 19;227 N jcn_only_AA CUFF.898 chr22 + chr22:21057981-21058255 chr22:21057981-21058106 chr22:21058107-21058255 chr22:21058255-21058256 111;8 K alternative_last_exon CUFF.898,CUFF.909 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29687554-29687588 chr22:29686402-29687114 57;487 K jcn_only_AA CUFF.898 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 20;500 K jcn_only_AD CUFF.911 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 55;78 K intron_retention CUFF.898 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 216;24 N jcn_only_AA CUFF.890 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 35;10 N alternative_donor CUFF.889 chr22 + chr22:21058040-21058255;chr22:21057981-21058255 chr22:21058172-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 555;100 K alternative_donor CUFF.896 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 13;22 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 38;75 N jcn_only_AD CUFF.889 chr22 + chr22:21058040-21058255;chr22:21058172-21058255 chr22:21057981-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 398;111 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 32;55 K intron_retention CUFF.898 chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 40;19 N intron_retention chr22 - chr22:21831031-21832078 chr22:21831030-21831031;chr22:21832078-21832079 8;72 N alternative_first_exon CUFF.909 chr22 + chr22:45244941-45258154 chr22:45255715-45258154 chr22:45244812-45244940 chr22:45255557-45255714 13;194 N intron_retention chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 9;200 N jcn_only_AA chr22 + chr22:45122515-45182336 chr22:45122515-45127609 12;26 N coord_cassette CUFF.913 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 29;444 K mutually_exclusive CUFF.909 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 112;40 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 52;262 N jcn_only_AA chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 7;21 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21871613 chr22:21846384-21868422 45;57 N jcn_only_AA CUFF.898 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 376;33 K jcn_only_AD CUFF.885 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 9;111 N jcn_only_AA CUFF.890 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 37;8 K intron_retention CUFF.909 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 6;69 N alternative_acceptor CUFF.890 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 76;218 N jcn_only_AD CUFF.898 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 34;216 N jcn_only_AD chr22 + chr22:45204613-45210551 chr22:45204979-45210551 11;20 N intron_retention CUFF.913 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 39;48 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 12;57 K cassette CUFF.911 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 77;215 K intron_retention CUFF.901 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 36;21 K coord_cassette CUFF.888 chr22 + chr22:20748953-20759666 chr22:20748953-20749622;chr22:20749709-20753884;chr22:20753981-20754921;chr22:20755049-20759666 chr22:20749623-20749708;chr22:20753885-20753980;chr22:20754922-20755048 7;182 N coord_cassette CUFF.911 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 7;322 N cassette CUFF.892 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 14;9 N alternative_acceptor CUFF.893 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 10;10 N intron_retention chr22 - chr22:51016364-51017464 chr22:51016363-51016364;chr22:51017464-51017465 6;226 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 16;342 K intron_retention CUFF.913 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 87;419 N alternative_donor CUFF.889 chr22 + chr22:21058040-21058255;chr22:21058172-21058255 chr22:21057981-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 544;111 N jcn_only_AA CUFF.904 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 274;8 K jcn_only_AD CUFF.898 chr22 + chr22:29669854-29674018 chr22:29670272-29674018 248;130 K intron_retention CUFF.894 chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 65;23 N jcn_only_AA CUFF.913 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 16;87 N coord_cassette CUFF.911 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 7;317 N jcn_only_AD CUFF.909 chr22 + chr22:45162070-45182336;chr22:45122515-45182336;chr22:45173110-45182336;chr22:45148508-45182336;chr22:45181982-45182336 chr22:45131043-45182336 98;18 K alternative_acceptor CUFF.896 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 19;145 N alternative_donor CUFF.913 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 122;100 K intron_retention CUFF.913 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 217;569 N jcn_only_AD CUFF.913 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 157;214 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 9;24 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 12;157 N intron_retention chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 33;266 K cassette CUFF.911 chr22 + chr22:47158746-47188416 chr22:47158746-47184876;chr22:47184935-47188416 chr22:47184877-47184934 77;161 N mutually_exclusive CUFF.888 chr22 + chr22:20748625-20749622,chr22:20749709-20754921 chr22:20748625-20748852,chr22:20748953-20754921 chr22:20749623-20749708 chr22:20748853-20748952 61;21 N alternative_donor CUFF.889 chr22 + chr22:21058172-21058255;chr22:21057981-21058255 chr22:21058040-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 211;444 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 37;368 N intron_retention chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 29;32 N intron_retention chr22 + chr22:21057981-21058255 chr22:21057980-21057981;chr22:21058255-21058256 111;161 K coord_cassette CUFF.888 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20755566;chr22:20755663-20759666 chr22:20754922-20755048;chr22:20755567-20755662 7;342 N jcn_only_AA CUFF.898 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 4;12 N intron_retention chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 34;16 N alternative_acceptor CUFF.913 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 157;245 N jcn_only_AD CUFF.889 chr22 + chr22:21058040-21058255;chr22:21057981-21058255 chr22:21058172-21058255 chr22:21057981-21058039;chr22:21058040-21058171 chr22:21057980-21057981;chr22:21058039-21058040 500;9 K intron_retention CUFF.913 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 188;30 K alternative_first_exon CUFF.884 chr22 - chr22:18096087-18102226;chr22:18096087-18101799 chr22:18096087-18111368 chr22:18102227-18102329;chr22:18101800-18101866 chr22:18111369-18111619 274;32 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 10;110 N alternative_donor CUFF.893 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 10;8 N jcn_only_AA CUFF.890 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 18;27 N jcn_only_AA chr22 + chr22:29683124-29688125 chr22:29683124-29684594 51;202 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 29;285 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 23;256 K alternative_last_exon CUFF.898 chr22 + chr22:29669854-29670256;chr22:29669854-29674018 chr22:29669854-29670253 chr22:29674019-29674205 chr22:29670254-29670442 474;518 K jcn_only_AD CUFF.889 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 269;25 N alternative_donor CUFF.884 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 31;230 K intron_retention CUFF.889 chr22 + chr22:21058040-21058255 chr22:21058039-21058040;chr22:21058255-21058256 389;169 N intron_retention CUFF.898 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 16;58 K intron_retention CUFF.888 chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 146;22 K intron_retention CUFF.913 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 80;231 K intron_retention CUFF.885 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 9;69 N jcn_only_AD CUFF.898 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 51;80 K cassette CUFF.911 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 41;165 K alternative_acceptor CUFF.893 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 18;16 K intron_retention CUFF.890 chr22 - chr22:21831054-21832078 chr22:21831053-21831054;chr22:21832078-21832079 27;69 N alternative_acceptor CUFF.913 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 16;100 N alternative_donor CUFF.898 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 34;221 K alternative_first_exon CUFF.884 chr22 - chr22:18096087-18111368;chr22:18096087-18101799 chr22:18096087-18102226 chr22:18111369-18111619;chr22:18101800-18101866 chr22:18102227-18102329 55;251 K intron_retention CUFF.898 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 80;12 N alternative_donor CUFF.913 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 38;68 N jcn_only_AD CUFF.901 chr22 - chr22:21846384-21871613;chr22:21846384-21868422 chr22:21846384-21868418 88;14 N jcn_only_AA chr22 - chr22:21832391-21832873 chr22:21832451-21832873 43;46 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 10;109 N jcn_only_AD chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 175;16 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 113;296 K jcn_only_AD CUFF.901 chr22 - chr22:30738869-30748939 chr22:30738869-30740921 878;101 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 23;72 K alternative_donor CUFF.889 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 269;247 K cassette CUFF.911 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188565-47188701 264;296 K alternative_first_exon CUFF.884,CUFF.913 chr22 - chr22:51016364-51016977,chr22:51016364-51017464;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016815-51016866 chr22:51016513-51016571 172;4 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 139;27 N alternative_acceptor chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 50;53 K alternative_donor CUFF.892 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 9;280 K alternative_donor CUFF.911 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 55;109 N alternative_first_exon CUFF.902 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731294-31731402 21;140 K alternative_first_exon CUFF.911 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158496-47158745 chr22:47159146-47159228 70;87 N jcn_only_AD CUFF.909 chr22 + chr22:45131043-45182336;chr22:45162070-45182336;chr22:45173110-45182336;chr22:45148508-45182336;chr22:45181982-45182336 chr22:45122515-45182336 104;12 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 20;262 N alternative_acceptor CUFF.898,CUFF.904 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 186;30 K alternative_last_exon CUFF.901 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 chr22:30738587-30738868 chr22:30742301-30742508 1055;106 N intron_retention CUFF.898 chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 17;19 K cassette CUFF.889 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 222;216 N jcn_only_AA CUFF.913 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 157;202 N alternative_acceptor CUFF.904 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 293;21 K intron_retention CUFF.898 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 186;44 K jcn_only_AA CUFF.896 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 19;58 K cassette CUFF.909 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 23;426 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21868422 chr22:21846384-21871613 71;31 N alternative_acceptor CUFF.913 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 35;159 N alternative_last_exon CUFF.884 chr22 - chr22:18082862-18095577 chr22:18083948-18095577 chr22:18082793-18082861 chr22:18083459-18083947 17;397 K intron_retention CUFF.905 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 49;17 N cassette CUFF.911 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 7;341 N alternative_acceptor CUFF.890 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 228;66 N alternative_acceptor CUFF.890 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 64;18 N alternative_acceptor CUFF.884 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 245;8 N jcn_only_AD CUFF.909 chr22 + chr22:45131043-45182336;chr22:45122515-45182336;chr22:45173110-45182336;chr22:45148508-45182336;chr22:45181982-45182336 chr22:45162070-45182336 100;16 N alternative_acceptor CUFF.898 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 4;16 K intron_retention chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 11;105 N alternative_acceptor CUFF.890 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 284;10 N alternative_acceptor CUFF.901 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 15;1761 K alternative_last_exon CUFF.896 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29563032-29563064 chr22:29550326-29550724 18;36 N intron_retention chr22 - chr22:21830450-21830932 chr22:21830449-21830450;chr22:21830932-21830933 36;64 N jcn_only_AD CUFF.893 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 10;4 N jcn_only_AD chr22 - chr22:18082862-18095577 chr22:18082862-18083857 17;138 K cassette CUFF.913 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 24;278 N jcn_only_AA chr22 + chr22:45204319-45204885 chr22:45204319-45204551 chr22:45204552-45204885 chr22:45204885-45204886 30;6 K jcn_only_AD CUFF.896 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 13;22 N coord_cassette CUFF.911 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188417-47188473;chr22:47188565-47188701 7;373 N jcn_only_AA CUFF.913 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 35;159 N jcn_only_AA CUFF.893 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 10;10 N alternative_donor CUFF.913 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 157;257 N jcn_only_AA chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 50;9 K alternative_first_exon CUFF.884 chr22 - chr22:18096087-18111368;chr22:18096087-18102226 chr22:18096087-18101799 chr22:18111369-18111619;chr22:18102227-18102329 chr22:18101800-18101866 283;23 N cassette CUFF.850 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 8;66 K intron_retention CUFF.860 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 38;87 K jcn_only_AA CUFF.848,CUFF.852 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 28;20 N jcn_only_AA CUFF.856 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 27;11 N cassette CUFF.852 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 73;1084 K jcn_only_AA CUFF.862 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 12;18 K alternative_first_exon CUFF.844 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 chr20:2842261-2842350 chr20:2843071-2843580 22;174 N cassette CUFF.850 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 21;50 N coord_cassette CUFF.852 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30155442;chr20:30155610-30156922 chr20:30154013-30154098;chr20:30155443-30155609 59;214 N alternative_acceptor CUFF.863 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 23;158 K cassette CUFF.852 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 493;877 N alternative_donor CUFF.852 chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 23;32 K jcn_only_AD CUFF.851 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 chr20:30009234-30009481;chr20:30011623-30011758 81;358 N jcn_only_AA CUFF.856 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 31;49 N alternative_donor chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 43;4426 K intron_retention CUFF.844 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 43;28 N alternative_donor CUFF.860 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 11;54 K intron_retention CUFF.844 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 14;62 N jcn_only_AD CUFF.852 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 662;14 K alternative_last_exon CUFF.846 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303634-14308204 chr20:14309580-14309973 374;123 N cassette CUFF.852 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 11;1959 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 23;54 N alternative_donor CUFF.859 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 164;439 N alternative_last_exon CUFF.845 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170992-3171465 chr20:3171836-3171884 221;2871 K alternative_acceptor CUFF.860 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 38;268 K alternative_first_exon CUFF.851 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011758 chr20:30009234-30009481 18;492 K alternative_first_exon CUFF.856 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071283 57;34 K cassette CUFF.852 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156028-30156922 chr20:30155881-30156027 196;170 N jcn_only_AD CUFF.859 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 164;31 K intron_retention CUFF.860 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 221;74 N jcn_only_AA CUFF.856 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 73;7 N jcn_only_AD CUFF.852 chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 23;21 K jcn_only_AD CUFF.862 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 18;7 N alternative_acceptor chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 60;23 K alternative_first_exon CUFF.851,CUFF.856 chr20 - chr20:31115717-31120119;chr20:31115717-31172371 chr20:31115717-31123243 chr20:31172372-31172468 chr20:31123244-31123404 37;58 K jcn_only_AA CUFF.859,CUFF.863 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 4;61 K coord_cassette CUFF.844 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 25;13 N alternative_donor CUFF.846,CUFF.866 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 3;70 K alternative_last_exon CUFF.859 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33122599 chr20:33117656-33119027 300;1805 K jcn_only_AA CUFF.844 chr20 + chr20:2842351-2843710 chr20:2842351-2842450 22;28 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 828;209 N alternative_acceptor CUFF.856 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 27;12 N jcn_only_AA CUFF.856 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 31;35 N cassette CUFF.852 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 59;665 K alternative_donor CUFF.862 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 18;12 N alternative_donor CUFF.843,CUFF.862 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 17;210 N alternative_donor CUFF.860 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 235;13 N jcn_only_AD chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 43;2889 K intron_retention CUFF.860 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 220;59 K alternative_donor CUFF.859 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 166;678 N jcn_only_AD CUFF.845 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 7;6 K alternative_acceptor CUFF.862 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 12;18 N alternative_donor CUFF.845 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 7;6 K jcn_only_AD CUFF.859 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 166;127 K coord_cassette CUFF.850 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 21;99 N jcn_only_AD CUFF.860 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 235;9 N alternative_first_exon CUFF.849 chr20 + chr20:21284112-21307127 chr20:21307045-21307127 chr20:21283942-21284111 chr20:21306917-21307044 22;14 N jcn_only_AA CUFF.856 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 56;24 N jcn_only_AD CUFF.843,CUFF.862 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 17;60 N alternative_acceptor CUFF.856 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 31;222 K alternative_donor CUFF.851 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 chr20:30009234-30009481;chr20:30011623-30011758 81;365 K jcn_only_AD CUFF.852 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 591;58 N jcn_only_AD CUFF.860 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 11;9 N jcn_only_AA CUFF.863 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 23;30 K jcn_only_AA CUFF.860 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 38;220 N coord_cassette CUFF.852 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 73;1172 N cassette CUFF.852 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 59;1148 K cassette CUFF.852 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 196;260 K alternative_last_exon CUFF.856 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052581-31052920 44;250 K intron_retention CUFF.852 chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 58;144 N jcn_only_AD CUFF.846,CUFF.866 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 3;9 N jcn_only_AA chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 60;23 N alternative_donor CUFF.852 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 662;21 K alternative_first_exon CUFF.866 chr20 - chr20:61982380-61987308 chr20:61982380-61986847 chr20:61987309-61987322 chr20:61986848-61986947 4;42 K intron_retention CUFF.845 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 2871;249 K cassette CUFF.852 chr20 + chr20:30154099-30156922 chr20:30154099-30155442;chr20:30155610-30156922 chr20:30155443-30155609 196;131 K intron_retention CUFF.870 chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 3;21 N jcn_only_AD CUFF.883 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 113;103 N cassette CUFF.883 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 128;274 K jcn_only_AD CUFF.875,CUFF.880 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 130;65 N jcn_only_AA CUFF.872 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 17;4 N jcn_only_AA CUFF.883 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 110;8 K jcn_only_AA CUFF.883 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556899-47556967 237;214 K alternative_last_exon CUFF.870 chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 5;45 K intron_retention CUFF.874 chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 chr21:15984828-15984966;chr21:15985197-15985234 15;85 N jcn_only_AA chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 16;32 K alternative_first_exon CUFF.870 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646408-15646478 chr21:15651917-15651978 3;39 N jcn_only_AD CUFF.883 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 120;15 N jcn_only_AD CUFF.883 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 121;95 K cassette CUFF.875 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 110;213 N alternative_donor CUFF.883 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 156;494 K cassette CUFF.872 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 3;65 N alternative_acceptor CUFF.872 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 17;4 N alternative_acceptor chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 16;492 N jcn_only_AD CUFF.881 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 113;10 N alternative_donor CUFF.881 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 113;14 K alternative_last_exon CUFF.870 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663891-15664068 chr21:15663607-15663705 81;9 K cassette CUFF.879 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 9;278 N alternative_donor CUFF.883 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 597;53 K alternative_last_exon CUFF.874 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981803-15981889 chr21:15984828-15984966 chr21:15985197-15985234 55;48 K alternative_acceptor CUFF.883 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556899-47556967 237;233 N jcn_only_AD CUFF.872 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 17;5 K cassette CUFF.875 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 49;187 N alternative_acceptor CUFF.883 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 110;8 N alternative_first_exon chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47565331-47565492 chr21:47562023-47562031 200;6 K alternative_first_exon CUFF.880,CUFF.883 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 chr21:40969074-40969916 13;112 K alternative_last_exon CUFF.877 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39325124-39325308 chr21:39426315-39427075 chr21:39492401-39492502 42;744 N alternative_donor CUFF.872 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 17;5 N jcn_only_AD CUFF.883 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 198;18 K alternative_last_exon CUFF.880 chr21 - chr21:40977930-40981509;chr21:40969917-40981509 chr21:40978275-40981509 chr21:40969074-40969916 chr21:40977518-40978274 128;889 K alternative_first_exon CUFF.870 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646408-15646478 15;45 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 3;36 N alternative_donor CUFF.883 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 547;103 N alternative_donor CUFF.883 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 120;37 N alternative_donor CUFF.1219 chr7 - chr7:86594341-86688640;chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 65;54 N jcn_only_AA CUFF.1221 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 35;189 N cassette CUFF.1219 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 14;179 N jcn_only_AD CUFF.1219 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 35;10 N jcn_only_AD CUFF.1231,CUFF.1242 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 105;29 N alternative_acceptor chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 20;25 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 121;112 N jcn_only_AA CUFF.1183 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 140;11 K jcn_only_AA CUFF.1219 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;332 N alternative_donor chr7 + chr7:150831656-150837065 chr7:150835401-150837065 chr7:150831656-150835400 chr7:150831655-150831656 20;812 K cassette CUFF.1252 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 39;51 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 14;940 K alternative_first_exon CUFF.1228 chr7 - chr7:100818093-100823322 chr7:100818093-100822377 chr7:100823323-100823557 chr7:100822378-100822557 95;50 N alternative_donor CUFF.1234 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 677;25 K cassette CUFF.1199 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 22;68 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107255690 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 830;58 N jcn_only_AD CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 522;32 K intron_retention CUFF.1202 chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 124;40 N cassette CUFF.1194 chr7 - chr7:22357657-22396448 chr7:22357657-22395596;chr7:22396231-22396448 chr7:22395597-22396230 4;162 K coord_cassette CUFF.1254 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148988646;chr7:148988837-148989301 chr7:148987029-148987129;chr7:148988647-148988836 19;164 N jcn_only_AA chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 22;31 K intron_retention CUFF.1246 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 53;39 K alternative_first_exon CUFF.1191 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815394-16815509 19;29 N jcn_only_AD CUFF.1234 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 356;25 K alternative_last_exon CUFF.1194 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22157856-22162139 chr7:22164851-22165039 573;28 N alternative_acceptor CUFF.1259 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 47;245 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 46;86 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107269266 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 818;70 K cassette CUFF.1252 chr7 + chr7:136554166-136676933 chr7:136554166-136635749;chr7:136635828-136676933 chr7:136635750-136635827 20;13 N jcn_only_AD CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204505-107205032;chr7:107204655-107205032 chr7:107204693-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 110;8 N jcn_only_AD CUFF.1234 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 79;302 K intron_retention CUFF.1259 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 21;15 N jcn_only_AA CUFF.1186,CUFF.1214 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 32;38 N alternative_donor CUFF.1230 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 51;8 K jcn_only_AA CUFF.1188 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 25;13 N jcn_only_AD CUFF.1234 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 910;55 K alternative_first_exon CUFF.1219 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86554844-86554972;chr7:86549024-86549189 chr7:86550079-86550246 389;131 N alternative_donor CUFF.1219 chr7 - chr7:86594341-86688640;chr7:86594341-86595124 chr7:86594341-86595129 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 71;48 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 23;51 N jcn_only_AD CUFF.1234 chr7 + chr7:107224428-107236311 chr7:107234551-107236311 101;820 K intron_retention chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 820;79 K alternative_acceptor CUFF.1219 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;864 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 21;197 N alternative_donor CUFF.1242 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 139;188 K intron_retention CUFF.1186 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 15;163 K alternative_donor CUFF.1209 chr7 + chr7:73098135-73100965 chr7:73098232-73100965 chr7:73098135-73098231 chr7:73098134-73098135 167;80 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 11;312 N jcn_only_AA CUFF.1209 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 127;9 N jcn_only_AA CUFF.1195,CUFF.1257 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 4;7 K jcn_only_AA CUFF.1219 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 22;208 K alternative_donor CUFF.1199 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 33;44 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 256;24 N jcn_only_AD chr7 - chr7:86594341-86595129;chr7:86594341-86595124 chr7:86594341-86688640 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 49;17 K alternative_first_exon CUFF.1190 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604038 261;69 N alternative_acceptor CUFF.1192 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 74;158 N jcn_only_AA chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 20;15 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 8;149 K jcn_only_AD CUFF.1254 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 64;18 N jcn_only_AA CUFF.1219 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 61;5 K jcn_only_AA CUFF.1231 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 20;198 K alternative_first_exon CUFF.1219 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86554844-86554972;chr7:86550079-86550246 chr7:86549024-86549189 169;351 N jcn_only_AD CUFF.1219 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 61;10 N alternative_acceptor CUFF.1221 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 35;811 N jcn_only_AD chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 240;40 N cassette CUFF.1206 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 30;22 N alternative_last_exon chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 67;195 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 23;201 N alternative_donor CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107220812-107221203 chr7:107221023-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 753;33 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 21;229 N alternative_donor CUFF.1234 chr7 + chr7:107221091-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 284;502 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107256705 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 3178;207 N jcn_only_AD chr7 + chr7:150831656-150837065 chr7:150835401-150837065 chr7:150831656-150835400 chr7:150831655-150831656 20;12 K alternative_first_exon CUFF.1242 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202520-111202667 chr7:111202500-111202500 167;9 N alternative_last_exon chr7 + chr7:107224428-107227855;chr7:107224428-107236311 chr7:107224428-107234399 chr7:107236312-107236447 chr7:107234400-107234582 186;1397 N intron_retention CUFF.1214 chr7 + chr7:75042211-75043917 chr7:75042210-75042211;chr7:75043917-75043918 8;26 N intron_retention chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 68;77 K jcn_only_AD CUFF.1252 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 31;86 N alternative_donor CUFF.1231,CUFF.1242 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 200;127 N jcn_only_AD chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 38;15 K alternative_first_exon CUFF.1245 chr7 - chr7:117501371-117514054;chr7:117501371-117512157 chr7:117501371-117511643 chr7:117512158-117512336 chr7:117511644-117511749 31;12 N alternative_first_exon CUFF.1206 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579591-65579957 chr7:65599267-65599361 15;78 K alternative_donor CUFF.1252 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 31;114 K intron_retention chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 37;19 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 3;25 N jcn_only_AD CUFF.1230 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 46;7 N jcn_only_AA CUFF.1242 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 12;15 N coord_cassette CUFF.1206 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 40;42 N mutually_exclusive CUFF.1230 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 36;24 N jcn_only_AA CUFF.1259 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 132;14 N jcn_only_AA CUFF.1228 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 28;7 N alternative_acceptor CUFF.1195,CUFF.1257 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 4;7 N cassette CUFF.1206 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 40;95 N jcn_only_AA CUFF.1234 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 910;55 N jcn_only_AD CUFF.1249 chr7 + chr7:129008393-129019478;chr7:128991503-129019478 chr7:129015768-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 50;41 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 23;19 N cassette CUFF.1242 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 26;504 N jcn_only_AD CUFF.1247 chr7 + chr7:128850955-128851476 chr7:128851352-128851476 chr7:128850955-128851351 chr7:128850954-128850955 19;14 N cassette CUFF.1259 chr7 - chr7:156619439-156685621 chr7:156619439-156626446;chr7:156626487-156685621 chr7:156626447-156626486 32;303 K intron_retention chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 502;129 N alternative_acceptor CUFF.1214 chr7 + chr7:75042211-75044162 chr7:75042211-75043917 chr7:75043918-75044162 chr7:75044162-75044163 7;129 K coord_cassette CUFF.1254 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 31;425 N jcn_only_AA chr7 - chr7:156556490-156589082 chr7:156572427-156589082 100;53 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 122;12 N alternative_acceptor chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 25;373 K jcn_only_AD CUFF.1251 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 9;65 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107269266 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 3315;70 N cassette CUFF.1186 chr7 + chr7:6641772-6647590 chr7:6641772-6647167;chr7:6647229-6647590 chr7:6647168-6647228 98;40 N alternative_acceptor CUFF.1194 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 60;38 N jcn_only_AD CUFF.1206 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 95;39 N alternative_donor chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 35;1452 K cassette CUFF.1231 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 12;402 N jcn_only_AD CUFF.1230 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 22;31 K cassette CUFF.1245 chr7 - chr7:117424509-117431344 chr7:117424509-117426439;chr7:117426480-117431344 chr7:117426440-117426479 3;9 K alternative_first_exon CUFF.1200 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 8;263 K alternative_donor CUFF.1251 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 9;234 N intron_retention chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 62;16 N intron_retention CUFF.1209 chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 9;17 N jcn_only_AD CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204505-107205032;chr7:107204693-107205032 chr7:107204655-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 76;42 N alternative_first_exon CUFF.1234 chr7 + chr7:107220747-107224326 chr7:107221310-107224326 chr7:107220422-107220746 chr7:107221095-107221309 65;619 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107262074 chr7:107253878-107258772 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 3261;124 N cassette CUFF.1202 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 71;148 N jcn_only_AA chr7 - chr7:107576102-107577537 chr7:107576819-107577537 61;19 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 121;137 N jcn_only_AA CUFF.1203,CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107220747-107224326 chr7:107220747-107221090 561;14 K alternative_first_exon CUFF.1199 chr7 - chr7:37172840-37250990;chr7:37172840-37236705 chr7:37172840-37243713 chr7:37250991-37251122;chr7:37236706-37236877 chr7:37243714-37243905 216;33 N alternative_donor CUFF.1249 chr7 + chr7:129008393-129019478;chr7:128991503-129019478 chr7:129015768-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 172;224 N intron_retention chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 59;84 N jcn_only_AD CUFF.1221 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 10;83 N jcn_only_AA CUFF.1209 chr7 + chr7:73101426-73106925 chr7:73101426-73105245 chr7:73105246-73106925 chr7:73106925-73106926 72;70 N jcn_only_AA CUFF.1194 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 28;23 N coord_cassette CUFF.1209 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 110;246 N jcn_only_AA chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 83;89 N alternative_donor CUFF.1247 chr7 + chr7:128850955-128851476 chr7:128851352-128851476 chr7:128850955-128851351 chr7:128850954-128850955 19;22 N cassette CUFF.1209 chr7 + chr7:73108000-73111934 chr7:73108000-73108321;chr7:73108381-73111934 chr7:73108322-73108380 26;277 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 24;12 N jcn_only_AA CUFF.1259 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 43;17 N alternative_acceptor chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 22;31 K alternative_first_exon CUFF.1201 chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38971878-38972082;chr7:38969072-38969203 chr7:38948754-38948853 52;45 N cassette CUFF.1199 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 14;421 N alternative_donor CUFF.1199,CUFF.1231 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 271;32 N alternative_acceptor chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 83;182 N cassette CUFF.1247 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 24;24 N jcn_only_AD CUFF.1259 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 446;64 N jcn_only_AA CUFF.1192 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 74;15 N alternative_acceptor CUFF.1259 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 132;302 N jcn_only_AD CUFF.1249 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 173;46 N jcn_only_AA CUFF.1247 chr7 + chr7:128850955-128851476 chr7:128850955-128851223 chr7:128851224-128851476 chr7:128851476-128851477 19;7 N alternative_acceptor chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 6;41 K alternative_first_exon CUFF.1257 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150813738-150813879,chr7:150809332-150813879,chr7:150783097-150813879;chr7:150784160-150813879;chr7:150787635-150813879 chr7:150783148-150813879 chr7:150783762-150784159;chr7:150787580-150787634 chr7:150782918-150783147 563;206 N alternative_donor CUFF.1194 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 28;94 N alternative_acceptor CUFF.1247 chr7 + chr7:128850955-128851476 chr7:128850955-128851223 chr7:128851224-128851476 chr7:128851476-128851477 19;15 K coord_cassette CUFF.1209 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73108321;chr7:73108381-73111934 chr7:73107659-73107744;chr7:73107954-73107999;chr7:73108322-73108380 110;599 N cassette CUFF.1242 chr7 - chr7:110303778-110603555 chr7:110303778-110304879;chr7:110305069-110603555 chr7:110304880-110305068 26;137 K intron_retention CUFF.1254 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 64;26 N alternative_acceptor CUFF.1234 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 910;55 N cassette CUFF.1246 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 21;94 N intron_retention chr7 - chr7:73118587-73118679 chr7:73118586-73118587;chr7:73118679-73118680 3;69 K alternative_first_exon CUFF.1199 chr7 - chr7:37172840-37243713;chr7:37172840-37250990 chr7:37172840-37236705 chr7:37243714-37243905;chr7:37250991-37251122 chr7:37236706-37236877 141;108 N intron_retention chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 14;60 N alternative_donor CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107221023-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 772;14 K alternative_first_exon CUFF.1188 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222203-7222451 37;65 N alternative_donor CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 549;237 K intron_retention CUFF.1254 chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 9;157 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 7;225 N jcn_only_AD CUFF.1234 chr7 + chr7:107221091-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 52;502 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107256705 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 846;42 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 8;36 K cassette CUFF.1211 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 228;93 N coord_cassette CUFF.1221 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 8;217 N cassette CUFF.1230 chr7 - chr7:102240836-102246304 chr7:102240836-102242770;chr7:102242853-102246304 chr7:102242771-102242852 11;78 K intron_retention CUFF.1257 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 410;87 N jcn_only_AD CUFF.1206 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 96;7 K intron_retention CUFF.1221 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 25;77 K jcn_only_AA CUFF.1234,CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 303;23 K cassette CUFF.1232 chr7 + chr7:107211712-107215632 chr7:107211712-107214148;chr7:107214267-107215632 chr7:107214149-107214266 232;45 K alternative_first_exon CUFF.1231 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715282 chr7:102714693-102715079 111;301 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 315;12 K cassette CUFF.1201 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 40;234 N cassette CUFF.1202 chr7 + chr7:44247798-44250621 chr7:44247798-44250440;chr7:44250531-44250621 chr7:44250441-44250530 72;310 N alternative_acceptor CUFF.1232 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 119;1204 K alternative_donor CUFF.1254 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 64;56 N alternative_donor CUFF.1194 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 42;19 N cassette CUFF.1257 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 34;1043 K coord_cassette CUFF.1202 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250441-44250530;chr7:44250622-44250723;chr7:44251153-44251203 71;861 K intron_retention CUFF.1209 chr7 + chr7:73106977-73111934 chr7:73106976-73106977;chr7:73111934-73111935 110;32 K cassette CUFF.1231 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 115;170 K cassette CUFF.1231 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 12;429 K cassette CUFF.1199 chr7 - chr7:37053041-37136223 chr7:37053041-37072951;chr7:37073018-37136223 chr7:37072952-37073017 110;48 K intron_retention CUFF.1241 chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 34;99 N alternative_acceptor CUFF.1232 chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 8;198 N jcn_only_AD CUFF.1219 chr7 - chr7:86594341-86688640;chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 40;26 K alternative_first_exon CUFF.1257 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150813738-150813879,chr7:150809332-150813879,chr7:150783097-150813879;chr7:150784160-150813879;chr7:150783148-150813879 chr7:150787635-150813879 chr7:150783762-150784159;chr7:150782918-150783147 chr7:150787580-150787634 731;38 K cassette CUFF.1197 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 82;296 N alternative_donor CUFF.1234 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 910;55 N jcn_only_AA chr7 - chr7:156526952-156549086 chr7:156529310-156549086 216;19 N alternative_first_exon CUFF.1249 chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 chr7:129007893-129008392 chr7:129017383-129017464 143;76 N jcn_only_AD CUFF.1242 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 41;93 K jcn_only_AD CUFF.1199 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 33;8 N cassette CUFF.1199 chr7 - chr7:37256301-37262219 chr7:37256301-37257316;chr7:37257362-37262219 chr7:37257317-37257361 41;26 N alternative_donor CUFF.1206 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 41;127 N cassette CUFF.1214 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 9;167 N jcn_only_AA CUFF.1232 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 119;20 N jcn_only_AA CUFF.1257 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 332;46 N alternative_acceptor CUFF.1225 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 68;867 K alternative_first_exon CUFF.1209 chr7 + chr7:73098331-73100965,chr7:73098254-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098232-73100965 chr7:73097355-73097713 chr7:73098097-73098134 146;220 N alternative_donor CUFF.1230 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 23;36 N alternative_donor CUFF.1219 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 35;10 N jcn_only_AD CUFF.1242 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 144;9 K cassette CUFF.1195 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 10;13 N alternative_donor CUFF.1259 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 446;143 N alternative_donor CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150837204-150838984 chr7:150831656-150837203 chr7:150831655-150831656 43;908 N alternative_acceptor CUFF.1186,CUFF.1214 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 32;38 N intron_retention chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 42;132 K intron_retention CUFF.1214 chr7 + chr7:75042211-75044162 chr7:75042210-75042211;chr7:75044162-75044163 7;49 K cassette CUFF.1231 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 22;223 N jcn_only_AD CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204693-107205032;chr7:107204655-107205032 chr7:107204505-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 69;49 N jcn_only_AA chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 16;93 N jcn_only_AA chr7 + chr7:65579958-65610429 chr7:65579958-65592690 4;69 N alternative_donor CUFF.1249 chr7 + chr7:129015768-129019478;chr7:128991503-129019478 chr7:129008393-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 243;153 K cassette CUFF.1197 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 93;264 N alternative_donor CUFF.1249 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 173;172 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 21;73 K alternative_first_exon CUFF.1190,CUFF.1245 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594787-7594820 chr7:7594319-7594429 53;34 K intron_retention CUFF.1246 chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 7;29 N cassette CUFF.1209 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 170;311 N alternative_donor CUFF.1219 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 61;378 N alternative_donor CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204693-107205032;chr7:107204655-107205032 chr7:107204505-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 301;77 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 12;165 N alternative_acceptor CUFF.1194 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 28;42 K cassette CUFF.1231 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 92;43 N alternative_acceptor CUFF.1259 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 266;26 N alternative_acceptor CUFF.1228 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 28;7 N jcn_only_AA CUFF.1232 chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 8;167 N jcn_only_AA CUFF.1259 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 38;22 K cassette CUFF.1197 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 144;79 N intron_retention chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 13;145 K cassette CUFF.1201 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 81;91 N jcn_only_AD CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107221023-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 541;13 N alternative_donor chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 44;15 N jcn_only_AD CUFF.1219 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 61;19 K mutually_exclusive CUFF.1231 chr7 - chr7:102669866-102695534,chr7:102695626-102696090 chr7:102669866-102687255,chr7:102687468-102696090 chr7:102695535-102695625 chr7:102687256-102687467 43;83 N jcn_only_AD CUFF.1206 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 34;69 N alternative_donor chr7 - chr7:86594341-86595129;chr7:86594341-86595124 chr7:86594341-86688640 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 102;17 K alternative_acceptor CUFF.1219 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 22;372 K intron_retention CUFF.1259 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 25;8 N cassette CUFF.1259 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 69;685 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 24;241 N intron_retention chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 7;80 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107254098 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 568;320 N jcn_only_AD CUFF.1249 chr7 + chr7:129015768-129019478;chr7:128991503-129019478 chr7:129008393-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 60;31 N jcn_only_AA CUFF.1214 chr7 + chr7:75042211-75044162 chr7:75042211-75043917 chr7:75043918-75044162 chr7:75044162-75044163 7;8 N alternative_donor CUFF.1201 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 78;64 K alternative_first_exon CUFF.1201 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38948853;chr7:38969072-38969203 chr7:38971878-38972082 64;33 N jcn_only_AA chr7 + chr7:150384176-150389402 chr7:150384176-150386576 9;23 K cassette CUFF.1263 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 45;102 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772 chr7:107253878-107262074 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 515;373 K intron_retention CUFF.1257 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 23;79 N cassette CUFF.1186 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 22;20 K alternative_acceptor CUFF.1246 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 12;167 N alternative_donor CUFF.1234 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 400;302 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107255690 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 3050;335 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 64;216 N alternative_acceptor chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 16;2346 N jcn_only_AD CUFF.1201 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 133;58 N jcn_only_AA CUFF.1225 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 68;820 K alternative_first_exon CUFF.1204,CUFF.1219 chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86550079-86550246;chr7:86549024-86549189 chr7:86554844-86554972 482;38 K alternative_acceptor CUFF.1234,CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 303;71 N alternative_acceptor CUFF.1257 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 332;99 K alternative_first_exon CUFF.1203 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54612315-54612481 chr7:54613820-54613909 306;37 K cassette CUFF.1245 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 221;32 K mutually_exclusive CUFF.1242 chr7 - chr7:110303778-110526648,chr7:110526752-110603555 chr7:110303778-110304879,chr7:110305069-110603555 chr7:110526649-110526751 chr7:110304880-110305068 504;137 K intron_retention CUFF.1209 chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 192;36 N jcn_only_AA CUFF.1226 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 13;49 N jcn_only_AA chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 6;41 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 26;110 N intron_retention chr7 + chr7:73111847-73111934 chr7:73111846-73111847;chr7:73111934-73111935 15;14 N alternative_donor CUFF.1234 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 327;375 K cassette CUFF.1216 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 26;37 N intron_retention chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 6;151 N alternative_acceptor CUFF.1209 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 213;12 N jcn_only_AA chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 25;272 N alternative_acceptor CUFF.1242 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 12;214 N alternative_donor CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204505-107205032;chr7:107204655-107205032 chr7:107204693-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 274;104 N intron_retention chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 6;158 N alternative_acceptor CUFF.1259 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 271;21 K alternative_first_exon CUFF.1199 chr7 - chr7:37172840-37243713;chr7:37172840-37236705 chr7:37172840-37250990 chr7:37243714-37243905;chr7:37236706-37236877 chr7:37250991-37251122 141;108 N jcn_only_AD CUFF.1201 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 78;14 N jcn_only_AD CUFF.1249 chr7 + chr7:129015768-129019478;chr7:129008393-129019478 chr7:128991503-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 72;19 N jcn_only_AA CUFF.1209 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 119;17 N coord_cassette CUFF.1202 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845 chr7:44250441-44250530;chr7:44250622-44250723 71;290 N cassette CUFF.1201 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 6;302 N alternative_acceptor CUFF.1209 chr7 + chr7:73101426-73106925 chr7:73101426-73105245 chr7:73105246-73106925 chr7:73106925-73106926 72;86 N jcn_only_AD CUFF.1232 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 119;13 N jcn_only_AA CUFF.1219 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 35;9 K intron_retention CUFF.1245 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 199;22 N jcn_only_AA chr7 + chr7:107220747-107221090;chr7:107220747-107224326 chr7:107220747-107221203 73;502 K intron_retention chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 14;72 K intron_retention CUFF.1232 chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 19;50 K cassette CUFF.1254 chr7 + chr7:148987130-148989301 chr7:148987130-148988646;chr7:148988837-148989301 chr7:148988647-148988836 46;133 N intron_retention chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 25;128 N intron_retention chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 49;173 K alternative_last_exon CUFF.1192 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152673-19152763 31;46 K intron_retention CUFF.1224 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 5;18 K intron_retention CUFF.1214 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 28;128 N jcn_only_AD CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150837204-150838984 chr7:150831656-150837203 chr7:150831655-150831656 43;62 N intron_retention CUFF.1202 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 21;97 K alternative_last_exon CUFF.1186,CUFF.1203 chr7 + chr7:54617864-54621559,chr7:54617864-54636823;chr7:54617864-54636701 chr7:54617864-54618445 chr7:54636702-54638765 chr7:54618446-54620224 589;1163 N cassette CUFF.1230 chr7 - chr7:102242853-102249207 chr7:102242853-102246304;chr7:102246435-102249207 chr7:102246305-102246434 20;221 N jcn_only_AA CUFF.1194 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 60;6 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 6;32 K intron_retention CUFF.1202 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 186;64 K intron_retention CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 303;98 K cassette CUFF.1226 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 3;83 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 23;257 N alternative_acceptor CUFF.1219 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 61;5 K jcn_only_AD CUFF.1209 chr7 + chr7:73098135-73100965 chr7:73098232-73100965 chr7:73098135-73098231 chr7:73098134-73098135 167;53 N jcn_only_AA CUFF.1234 chr7 + chr7:107220747-107221090;chr7:107220747-107221203 chr7:107220747-107224326 516;59 N alternative_donor CUFF.1232 chr7 + chr7:107204192-107205032;chr7:107204505-107205032;chr7:107204693-107205032 chr7:107204655-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 200;178 N cassette CUFF.1221 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 17;15 N alternative_donor CUFF.1231,CUFF.1245 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 21;29 N alternative_acceptor CUFF.1183 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 140;57 K alternative_first_exon CUFF.1199 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37052904-37053040 chr7:37024520-37024715 229;195 N alternative_acceptor CUFF.1226 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 13;54 K jcn_only_AA CUFF.1246 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 37;7 N cassette CUFF.1201 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 12;124 K alternative_first_exon CUFF.1190,CUFF.1204 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 73;21 N intron_retention chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 35;108 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107258772 chr7:107253878-107262074 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 2566;819 N jcn_only_AA CUFF.1259 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 39;21 K alternative_last_exon CUFF.1181 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197568 50;223 K alternative_last_exon CUFF.1257 chr7 + chr7:150831656-150833312,chr7:150831656-150835229,chr7:150831656-150837065;chr7:150831656-150838984 chr7:150831656-150834816 chr7:150838985-150839139 chr7:150834817-150835186 336;687 K jcn_only_AA CUFF.1246 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 12;47 K alternative_first_exon CUFF.1199,CUFF.1231 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102603980-102604112 chr7:102573768-102573865 247;63 K cassette CUFF.1241 chr7 - chr7:107642179-107643293 chr7:107642179-107642571;chr7:107642830-107643293 chr7:107642572-107642829 70;121 N jcn_only_AD CUFF.1194 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22234188-22259484 chr7:22259484-22259485 42;3 N alternative_donor CUFF.1206 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 141;27 N jcn_only_AD CUFF.1234 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107220812-107221203 chr7:107221023-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 547;7 N jcn_only_AD CUFF.1231,CUFF.1245 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 21;10 K alternative_first_exon CUFF.1257 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150813738-150813879,chr7:150809332-150813879,chr7:150783097-150813879;chr7:150787635-150813879;chr7:150783148-150813879 chr7:150784160-150813879 chr7:150787580-150787634;chr7:150782918-150783147 chr7:150783762-150784159 487;282 N jcn_only_AD CUFF.1231 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 153;6 N alternative_donor CUFF.1232 chr7 + chr7:107204505-107205032;chr7:107204693-107205032;chr7:107204655-107205032 chr7:107204192-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 359;19 K alternative_first_exon CUFF.1224 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158087-92158238 chr7:92158251-92158497 40;131 K coord_cassette CUFF.1252 chr7 + chr7:136554166-136699566 chr7:136554166-136635749;chr7:136635828-136676933;chr7:136677012-136699566 chr7:136635750-136635827;chr7:136676934-136677011 39;22 N cassette CUFF.1202 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 64;543 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 12;125 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 115;110 N intron_retention CUFF.1202 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 72;66 N jcn_only_AD CUFF.1219 chr7 - chr7:86594341-86688640;chr7:86594341-86595124 chr7:86594341-86595129 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 43;23 N jcn_only_AA CUFF.1257 chr7 + chr7:150817233-150820880 chr7:150817233-150819811 chr7:150819812-150820880 chr7:150820880-150820881 87;135 N alternative_acceptor CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107258772;chr7:107253878-107262074 chr7:107253878-107254098 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 1555;1830 N alternative_acceptor CUFF.1209 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 122;103 K alternative_acceptor CUFF.1246 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 37;18 N alternative_donor CUFF.1232 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 119;13 N alternative_last_exon CUFF.1257 chr7 + chr7:150817233-150820880,chr7:150817233-150819811 chr7:150817233-150817606 chr7:150820881-150820973 chr7:150817607-150818117 222;1836 K intron_retention CUFF.1254 chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 16;60 N jcn_only_AD chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 35;10 N jcn_only_AA CUFF.1242 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 144;13 K coord_cassette CUFF.1186 chr7 + chr7:6641772-6647590 chr7:6641772-6642294;chr7:6642384-6647167;chr7:6647229-6647590 chr7:6642295-6642383;chr7:6647168-6647228 98;27 N coord_cassette CUFF.1202 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 71;619 N intron_retention chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 16;289 N alternative_donor CUFF.1206 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 154;14 N alternative_donor CUFF.1249 chr7 + chr7:129015768-129019478;chr7:129008393-129019478 chr7:128991503-129019478 chr7:128991503-129008392;chr7:129008393-129015767 chr7:128991502-128991503;chr7:129008392-129008393 377;19 N cassette CUFF.1245 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 8;73 N cassette CUFF.1230 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 29;51 K alternative_last_exon CUFF.1188,CUFF.1225 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640425 chr7:93629609-93629684 chr7:93621349-93621478 18;23 N jcn_only_AD CUFF.1199,CUFF.1231 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 271;19 N alternative_acceptor CUFF.1242 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 144;46 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 14;30 K alternative_first_exon CUFF.1201 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38948853;chr7:38971878-38972082 chr7:38969072-38969203 78;19 K cassette CUFF.1231 chr7 - chr7:102462651-102495223 chr7:102462651-102462829;chr7:102462888-102495223 chr7:102462830-102462887 115;31 N jcn_only_AD CUFF.1194 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 28;6 N alternative_donor CUFF.1206 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 95;83 N alternative_donor CUFF.1231 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 153;7 K alternative_first_exon CUFF.1181 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:192969-193804 chr7:195197-195327 135;35 N jcn_only_AA CUFF.1213 chr7 - chr7:74981241-74984789 chr7:74982903-74984789 10;6 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 32;181 N jcn_only_AD CUFF.1232 chr7 + chr7:107204505-107205032;chr7:107204693-107205032;chr7:107204655-107205032 chr7:107204192-107205032 chr7:107204192-107204504;chr7:107204505-107204654;chr7:107204655-107204692 chr7:107204191-107204192;chr7:107204504-107204505;chr7:107204654-107204655 99;19 K alternative_first_exon CUFF.1257 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815561-150815719 chr7:150816250-150816341 636;280 N coord_cassette CUFF.1214 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 23;30 K alternative_first_exon CUFF.1252 chr7 + chr7:136553740-136554007 chr7:136553865-136554007,chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553821-136553864 482;117 N intron_retention CUFF.1209 chr7 + chr7:73108381-73110735 chr7:73108380-73108381;chr7:73110735-73110736 17;15 K cassette CUFF.1254 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 19;77 K intron_retention CUFF.1209 chr7 + chr7:73108381-73111934 chr7:73108380-73108381;chr7:73111934-73111935 110;13 N alternative_donor CUFF.1242 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 144;9 N alternative_donor CUFF.1201 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 133;133 K cassette CUFF.1231 chr7 - chr7:102669866-102696090 chr7:102669866-102687255;chr7:102687468-102696090 chr7:102687256-102687467 92;83 N alternative_acceptor CUFF.1257 chr7 + chr7:150817233-150820880 chr7:150817233-150819811 chr7:150819812-150820880 chr7:150820880-150820881 87;2388 N jcn_only_AD CUFF.1206 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 76;27 N jcn_only_AA CUFF.1234 chr7 + chr7:107253878-107256705;chr7:107253878-107255690;chr7:107253878-107269266;chr7:107253878-107254098;chr7:107253878-107262074 chr7:107253878-107258772 chr7:107254099-107255690;chr7:107255691-107256705;chr7:107256706-107258772;chr7:107258773-107262074;chr7:107262075-107269266 chr7:107255690-107255691;chr7:107256705-107256706;chr7:107258772-107258773;chr7:107262074-107262075;chr7:107269266-107269267 863;25 N cassette CUFF.1199 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 12;80 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 17;21 N alternative_acceptor CUFF.1219 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 35;9 N jcn_only_AD CUFF.1234 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 327;54 N coord_cassette CUFF.1142 chr6 - chr6:35477090-35479424 chr6:35477090-35477410;chr6:35477528-35477603;chr6:35477706-35478637;chr6:35478788-35479424 chr6:35477411-35477527;chr6:35477604-35477705;chr6:35478638-35478787 49;719 N alternative_acceptor CUFF.1149 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 30;703 N alternative_acceptor CUFF.1131 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 17;53 K intron_retention CUFF.1133 chr6 + chr6:31936867-31937056 chr6:31936866-31936867;chr6:31937056-31937057 221;48 N alternative_donor CUFF.1133 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 127;113 N jcn_only_AD CUFF.1127 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 7;48 K jcn_only_AA CUFF.1164 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 372;47 K intron_retention CUFF.1149 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 292;21 N coord_cassette CUFF.1164 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 14;275 K alternative_first_exon CUFF.1140 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240405-33240503 chr6:33243382-33243434 215;20 K alternative_acceptor CUFF.1135 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 150;626 N alternative_donor CUFF.1163 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 9;75 K cassette CUFF.1162 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 14;122 N jcn_only_AD CUFF.1163 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 30;59 N alternative_acceptor CUFF.1149 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 1295;102 K intron_retention CUFF.1135 chr6 - chr6:31939459-31939705 chr6:31939458-31939459;chr6:31939705-31939706 66;657 N jcn_only_AA CUFF.1165 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 50;33 N coord_cassette CUFF.1155 chr6 + chr6:90326377-90331640 chr6:90326377-90326592;chr6:90326676-90327672;chr6:90327751-90331640 chr6:90326593-90326675;chr6:90327673-90327750 73;240 N alternative_acceptor CUFF.1149 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 571;826 K mutually_exclusive CUFF.1165 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 44;71 N jcn_only_AA CUFF.1135 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 156;34 N jcn_only_AD CUFF.1125,CUFF.1142 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 55;28 K alternative_first_exon CUFF.1173 chr6 - chr6:151757690-151766442;chr6:151757690-151773150 chr6:151757690-151765600 chr6:151766443-151766998;chr6:151773151-151773273 chr6:151765601-151765823 197;33 N jcn_only_AA CUFF.1137,CUFF.1140 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 215;9 N alternative_acceptor CUFF.1165 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 50;104 N jcn_only_AA CUFF.1149 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 296;185 N alternative_donor CUFF.1119 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 39;146 K intron_retention CUFF.1176 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 7;8 N alternative_first_exon CUFF.1155 chr6 + chr6:90143095-90305634 chr6:90276816-90305634 chr6:90142889-90143094 chr6:90276553-90276815 90;1561 K intron_retention CUFF.1149 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 460;1077 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 51;17 N coord_cassette CUFF.1161 chr6 - chr6:114281183-114292020 chr6:114281183-114283530;chr6:114283559-114289797;chr6:114289861-114292020 chr6:114283531-114283558;chr6:114289798-114289860 221;228 N jcn_only_AA CUFF.1149 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 379;102 K intron_retention CUFF.1133 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 127;49 K alternative_first_exon CUFF.1158 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303156-111303332 chr6:111303498-111303706 120;16 K alternative_last_exon CUFF.1159 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112382194-112382491 chr6:112375826-112376096 379;288 K intron_retention CUFF.1140 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 120;406 N intron_retention chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 29;228 N intron_retention chr6 - chr6:31939359-31939705 chr6:31939358-31939359;chr6:31939705-31939706 34;743 K alternative_acceptor CUFF.1150,CUFF.1159 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 24;214 N mutually_exclusive CUFF.1165 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 44;75 K intron_retention CUFF.1123 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 19;125 N alternative_last_exon CUFF.1164 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128319865-128320049 chr6:128321126-128321475 55;360 K intron_retention CUFF.1159 chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 38;126 K alternative_acceptor CUFF.1137 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 95;109 N jcn_only_AA CUFF.1135 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 159;31 K jcn_only_AA CUFF.1135 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 55;275 K alternative_first_exon CUFF.1169 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665189-144665440 17;57 K intron_retention CUFF.1135 chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 20;351 N alternative_donor chr6 - chr6:41491964-41513737;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 715;29 K alternative_first_exon CUFF.1125,CUFF.1146 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486455;chr6:13472213-13472330 chr6:13486870-13486957 109;21 N cassette CUFF.1164 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 47;151 K intron_retention CUFF.1165 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 179;19 N jcn_only_AA CUFF.1149 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 476;5 N cassette CUFF.1165 chr6 - chr6:133050119-133055391 chr6:133050119-133052513;chr6:133052667-133055391 chr6:133052514-133052666 37;138 N alternative_donor CUFF.1125,CUFF.1142 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 55;137 N cassette CUFF.1154 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 5;35 N alternative_acceptor CUFF.1140 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 283;22 N alternative_donor CUFF.1164 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 77;90 K alternative_first_exon CUFF.1170 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898235-144898424 chr6:144904528-144904736 chr6:144999542-144999714 17;43 N jcn_only_AD CUFF.1164 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 89;2 N alternative_donor CUFF.1127 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 7;48 N alternative_donor chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 42;49 N jcn_only_AD CUFF.1155 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 165;106 K intron_retention CUFF.1135 chr6 - chr6:31938925-31939096 chr6:31938924-31938925;chr6:31939096-31939097 275;473 N jcn_only_AA CUFF.1149 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 338;143 K jcn_only_AA CUFF.1178 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 22;145 K cassette CUFF.1170 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 chr6:145142018-145142154;chr6:145148747-145148812 62;148 K jcn_only_AD CUFF.1150 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 35;14 N jcn_only_AD CUFF.1137 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 256;29 K alternative_first_exon CUFF.1155 chr6 + chr6:90272618-90276552,chr6:90272643-90276552,chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193060-90193277 chr6:90218804-90218968 442;372 N jcn_only_AD CUFF.1159 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 98;6 K intron_retention CUFF.1165 chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 25;36 K jcn_only_AD CUFF.1159 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 36;38 N alternative_donor CUFF.1164 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 89;2 N jcn_only_AD CUFF.1137 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 49;236 N jcn_only_AD chr6 - chr6:41491964-41513826;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513737 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 134;204 N alternative_donor CUFF.1153,CUFF.1164 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 51;40 N jcn_only_AD CUFF.1163 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 9;64 K cassette CUFF.1175 chr6 + chr6:161455482-161469647 chr6:161455482-161469277;chr6:161469324-161469647 chr6:161469278-161469323 16;25 N alternative_donor chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41516115 chr6:41491964-41515198 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 615;129 N alternative_acceptor CUFF.1137,CUFF.1155 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 165;80 N mutually_exclusive CUFF.1161 chr6 - chr6:114281183-114289797,chr6:114289861-114292020 chr6:114281183-114283530,chr6:114283559-114292020 chr6:114289798-114289860 chr6:114283531-114283558 120;51 K intron_retention CUFF.1159 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 172;12 K cassette CUFF.1159 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 221;65 N alternative_acceptor CUFF.1164 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 123;22 K alternative_acceptor CUFF.1122 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 132;2738 N cassette CUFF.1165 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 56;213 N alternative_donor CUFF.1170 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 chr6:145124172-145124283;chr6:145118960-145119126 146;12 K cassette CUFF.1150 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 14;250 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 5;45 K jcn_only_AD CUFF.1175 chr6 + chr6:161529892-161530786 chr6:161530074-161530786 chr6:161529892-161530073 chr6:161529891-161529892 chr6:161530787-161530946;chr6:161529775-161529891 149;29 N cassette CUFF.1155 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 18;692 K cassette CUFF.1175 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 chr6:161518112-161518208;chr6:161522924-161523024 54;328 K intron_retention CUFF.1149 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 627;95 N jcn_only_AD CUFF.1137 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 265;20 K alternative_first_exon CUFF.1173 chr6 - chr6:151757690-151765600;chr6:151757690-151766442 chr6:151757690-151773150 chr6:151765601-151765823;chr6:151766443-151766998 chr6:151773151-151773273 200;30 N jcn_only_AD CUFF.1155 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 122;72 K alternative_acceptor CUFF.1165 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 179;38 K intron_retention CUFF.1135 chr6 - chr6:31938917-31939096 chr6:31938916-31938917;chr6:31939096-31939097 55;471 K intron_retention CUFF.1135 chr6 - chr6:31938925-31939705 chr6:31938924-31938925;chr6:31939705-31939706 31;558 N cassette CUFF.1149 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 18;2296 N cassette CUFF.1158 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 14;154 N intron_retention chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 15;208 N jcn_only_AD CUFF.1133 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 127;77 N jcn_only_AA CUFF.1135 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 131;59 K alternative_last_exon CUFF.1160 chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112668494-112668609 chr6:112666241-112666522 71;321 N alternative_acceptor CUFF.1137,CUFF.1140 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 215;65 N alternative_acceptor CUFF.1175 chr6 + chr6:161529892-161530786 chr6:161529892-161529982 chr6:161529983-161530786 chr6:161530786-161530787 chr6:161529775-161529891;chr6:161530787-161530946 149;12 N alternative_donor CUFF.1175 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 chr6:161518112-161518208;chr6:161514805-161514871 10;86 N mutually_exclusive CUFF.1165 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 61;71 K alternative_acceptor CUFF.1158 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 20;72 N alternative_donor CUFF.1163 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 64;59 N cassette CUFF.1158 chr6 + chr6:111306342-111312949 chr6:111306342-111310230;chr6:111310269-111312949 chr6:111310231-111310268 14;102 K intron_retention chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 1656;40 N alternative_donor CUFF.1120 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 10;66 N jcn_only_AD chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 11;25 K intron_retention CUFF.1149 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 1618;42 K jcn_only_AA CUFF.1175 chr6 + chr6:161413116-161491639 chr6:161413116-161455290 11;3 K intron_retention CUFF.1150 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 89;78 K intron_retention CUFF.1119 chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 143;100 N jcn_only_AD CUFF.1175 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 chr6:161518112-161518208;chr6:161514805-161514871 10;86 K mutually_exclusive CUFF.1164 chr6 - chr6:128718834-128812876,chr6:128812995-128841403 chr6:128718834-128730438,chr6:128730478-128841403 chr6:128812877-128812994 chr6:128730439-128730477 39;51 N jcn_only_AA CUFF.1120 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 10;6 N jcn_only_AA CUFF.1140 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 283;11 N jcn_only_AD CUFF.1164 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 77;67 K intron_retention CUFF.1165 chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 29;19 N alternative_acceptor CUFF.1133 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 191;52 N intron_retention chr6 - chr6:31939503-31939705 chr6:31939502-31939503;chr6:31939705-31939706 59;590 N jcn_only_AA CUFF.1149 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 30;460 N mutually_exclusive CUFF.1165 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 61;75 K alternative_donor CUFF.1173 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 26;47 K intron_retention CUFF.1165 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 28;34 K intron_retention CUFF.1133 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 192;44 K cassette CUFF.1139 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 45;313 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 83;19 N cassette CUFF.1178 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 6;84 K alternative_first_exon CUFF.1123 chr6 - chr6:5109726-5132951,chr6:5109726-5144371;chr6:5109726-5260880 chr6:5109726-5113304 chr6:5260881-5261247 chr6:5113305-5113651 36;140 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 5;98 K intron_retention CUFF.1137 chr6 + chr6:32122182-32122363 chr6:32122181-32122182;chr6:32122363-32122364 236;12 K jcn_only_AA CUFF.1162 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 20;45 N alternative_acceptor CUFF.1120 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 10;101 N jcn_only_AD chr6 - chr6:41491964-41513737;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 327;11 K intron_retention CUFF.1140 chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 20;47 K alternative_first_exon CUFF.1125 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486455;chr6:13486870-13486957 chr6:13472213-13472330 85;45 N jcn_only_AD chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41515198 chr6:41491964-41516115 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 330;8 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 54;119 N cassette CUFF.1163 chr6 + chr6:126329892-126332398 chr6:126329892-126330480;chr6:126330581-126332398 chr6:126330481-126330580 5;56 K cassette CUFF.1119 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 32;273 N jcn_only_AD chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41516115 chr6:41491964-41515198 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 223;115 N jcn_only_AD chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 42;49 K alternative_acceptor CUFF.1163 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 63;59 N alternative_donor CUFF.1163 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 98;25 N cassette CUFF.1165 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 75;229 N alternative_acceptor CUFF.1149 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 1656;113 N cassette CUFF.1161 chr6 - chr6:114281183-114292020;chr6:114281183-114289797 chr6:114281183-114283530;chr6:114283559-114289797,chr6:114283559-114292020 chr6:114283531-114283558 281;284 N alternative_acceptor CUFF.1164 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 49;35 N coord_cassette CUFF.1150 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 49;182 K cassette CUFF.1137 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 142;494 N alternative_donor CUFF.1133 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 54;218 K cassette CUFF.1163 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 225;81 K alternative_first_exon CUFF.1153 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75993936-75993962 chr6:75982180-75982611 5;35 N alternative_donor chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41515198 chr6:41491964-41516115 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 736;8 K alternative_last_exon CUFF.1164 chr6 - chr6:128330411-128385902,chr6:128384671-128385902;chr6:128330414-128385902 chr6:128383570-128385902 chr6:128330275-128330413 chr6:128383474-128383569 194;107 K alternative_donor CUFF.1159 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 36;87 K jcn_only_AD CUFF.1173 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 26;20 K alternative_first_exon CUFF.1135 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31939871 chr6:31939097-31939462 78;1494 N intron_retention CUFF.1140 chr6 + chr6:33239900-33240363 chr6:33239899-33239900;chr6:33240363-33240364 11;14 K cassette CUFF.1119 chr6 + chr6:292561-345853 chr6:292561-311879;chr6:311915-345853 chr6:311880-311914 40;81 K intron_retention CUFF.1133 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 56;12 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 28;201 K alternative_last_exon CUFF.1123 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5102813-5109725 chr6:5216851-5216971 437;128 K cassette CUFF.1137 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 25;27 N cassette CUFF.1119 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 58;255 K alternative_first_exon CUFF.1173 chr6 - chr6:151757690-151765600;chr6:151757690-151773150 chr6:151757690-151766442 chr6:151765601-151765823;chr6:151773151-151773273 chr6:151766443-151766998 63;167 N coord_cassette CUFF.1161 chr6 - chr6:114281183-114291643 chr6:114281183-114283530;chr6:114283559-114289797;chr6:114289861-114291643 chr6:114283531-114283558;chr6:114289798-114289860 71;303 N alternative_donor chr6 - chr6:41491964-41513826;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513737 chr6:41513738-41513826;chr6:41513827-41515198;chr6:41515199-41516115 chr6:41513826-41513827;chr6:41515198-41515199;chr6:41516115-41516116 166;578 N jcn_only_AD CUFF.1171 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 chr6:150206810-150217375 chr6:150206809-150206810 45;42 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 17;80 N jcn_only_AA CUFF.1149 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 1656;34 N jcn_only_AD chr6 - chr6:114281183-114291418 chr6:114281183-114289493 61;43 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 28;80 K cassette CUFF.1164 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 80;206 N jcn_only_AA CUFF.1131 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 17;19 N jcn_only_AD CUFF.1133 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 54;140 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 16;24 K intron_retention CUFF.1146 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 5;31 N alternative_acceptor CUFF.1149 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 1249;148 N jcn_only_AD CUFF.1170 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 chr6:145124172-145124283;chr6:145118960-145119126 146;7 K cassette CUFF.1175 chr6 + chr6:161471012-161491639 chr6:161471012-161488230;chr6:161488329-161491639 chr6:161488231-161488328 36;6 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 30;1071 N alternative_first_exon CUFF.1127 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109688-28109807 chr6:28109990-28110041 16;20 N jcn_only_AA CUFF.1137,CUFF.1155 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 165;37 N cassette CUFF.1165 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 75;269 K jcn_only_AA CUFF.1150,CUFF.1159 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 24;23 K intron_retention CUFF.1135 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 434;328 N jcn_only_AA CUFF.1173 chr6 - chr6:151757690-151773150 chr6:151766961-151773150 chr6:151757690-151766960 chr6:151757689-151757690 23;4 K jcn_only_AA CUFF.1158 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 20;72 N jcn_only_AD CUFF.1119 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 39;18 K intron_retention CUFF.1119 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 249;88 K alternative_acceptor CUFF.1135 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 55;525 K intron_retention CUFF.1140 chr6 + chr6:33239900-33240404 chr6:33239899-33239900;chr6:33240404-33240405 283;16 N cassette CUFF.1155 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 85;238 K alternative_first_exon CUFF.1141 chr6 + chr6:34452922-34494019;chr6:34434048-34494019 chr6:34482846-34494019 chr6:34433916-34434047 chr6:34482765-34482845 73;58 N alternative_acceptor CUFF.1149 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 1347;50 N jcn_only_AA CUFF.1133 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 191;31 K alternative_first_exon CUFF.1119 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292039-292560 6;347 N alternative_acceptor CUFF.1149 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 1126;271 N alternative_donor CUFF.1163 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 84;39 K jcn_only_AA CUFF.1122 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 132;1305 K intron_retention CUFF.1137 chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 20;21 K cassette CUFF.1163 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 12;258 N alternative_acceptor CUFF.1148 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462632-41491963 chr6:41462631-41462632 56;741 K cassette CUFF.1155 chr6 + chr6:90326377-90327672 chr6:90326377-90326592;chr6:90326676-90327672 chr6:90326593-90326675 103;172 N jcn_only_AD CUFF.1120 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 10;51 N alternative_donor CUFF.1137 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 579;47 K coord_cassette CUFF.1163 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126330480;chr6:126330581-126332398 chr6:126329803-126329891;chr6:126330481-126330580 134;82 K intron_retention CUFF.1170 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 chr6:145157437-145157677;chr6:145160309-145160420 85;135 K alternative_first_exon CUFF.1139 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812617-32812647;chr6:32811913-32812051 chr6:32821896-32822066 56;133 K jcn_only_AA CUFF.1165 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 179;29 N cassette CUFF.1164 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 14;218 N cassette CUFF.1119 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 74;111 K alternative_acceptor CUFF.1137 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 15;279 K cassette CUFF.1164 chr6 - chr6:128718834-128841403 chr6:128718834-128812876;chr6:128812995-128841403 chr6:128812877-128812994 44;39 K intron_retention CUFF.1135 chr6 - chr6:31937802-31937885 chr6:31937801-31937802;chr6:31937885-31937886 655;16 K intron_retention CUFF.1155 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 131;37 N cassette CUFF.1164 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 27;981 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 16;20 N jcn_only_AD CUFF.1163 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 73;16 K jcn_only_AA CUFF.1135 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 150;195 K alternative_first_exon CUFF.1135,CUFF.1153 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994684 chr6:75977357-75977464 157;23 N cassette CUFF.1165 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 56;258 N jcn_only_AA CUFF.1164 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 123;9 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 5;77 K intron_retention CUFF.1135 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 195;588 N alternative_donor CUFF.1159 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 98;14 N alternative_donor CUFF.1137 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 597;29 N jcn_only_AA CUFF.1149 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 435;46 K alternative_first_exon CUFF.1175 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443154-161443259 9;46 N jcn_only_AA CUFF.1164 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 49;35 K cassette CUFF.1137 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122172-32122363 chr6:32121776-32122171 142;560 N intron_retention CUFF.1175 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 chr6:161529775-161529891;chr6:161529983-161530073 12;50 K alternative_first_exon CUFF.1125 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472330;chr6:13486870-13486957 chr6:13486243-13486455 66;64 K alternative_first_exon CUFF.1139 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812617-32812647;chr6:32821896-32822066 chr6:32811913-32812051 150;39 N jcn_only_AA chr6 + chr6:31783609-31784103 chr6:31783609-31783839 3;7 N alternative_donor CUFF.1137 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 76;550 N alternative_donor CUFF.1155 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 122;146 N coord_cassette CUFF.1119 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 40;295 K intron_retention CUFF.1133 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 140;95 K jcn_only_AA CUFF.1137 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 95;109 K alternative_acceptor CUFF.1178 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 22;145 K alternative_acceptor CUFF.1162 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 20;161 K intron_retention CUFF.1165 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 156;53 K intron_retention CUFF.1130 chr6 - chr6:30711974-30712085 chr6:30711973-30711974;chr6:30712085-30712086 28;24 K coord_cassette CUFF.1119 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311915-345853 chr6:304628-304661;chr6:311880-311914 40;295 K intron_retention CUFF.1159 chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 36;115 N jcn_only_AD CUFF.1164 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 86;43 K cassette CUFF.1164 chr6 - chr6:128718834-128841403 chr6:128718834-128730438;chr6:128730478-128841403 chr6:128730439-128730477 44;51 N jcn_only_AA CUFF.1148 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462632-41491963 chr6:41462631-41462632 56;11 N alternative_acceptor CUFF.1173 chr6 - chr6:151757690-151773150 chr6:151766961-151773150 chr6:151757690-151766960 chr6:151757689-151757690 23;162 N alternative_donor chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 11;33 N jcn_only_AD CUFF.1153,CUFF.1164 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 51;40 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 83;31 N cassette CUFF.1155 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 23;1015 N cassette CUFF.1127 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 5;38 N cassette CUFF.1133 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 7;99 N coord_cassette CUFF.1165 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 37;225 K alternative_first_exon CUFF.1160 chr6 + chr6:112604370-112627530,chr6:112604395-112627530;chr6:112558118-112627530 chr6:112604730-112627530 chr6:112557930-112558117 chr6:112604636-112604729 66;54 N intron_retention chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 36;111 N cassette CUFF.1163 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 134;37 N intron_retention chr6 + chr6:31939052-31939645 chr6:31939051-31939052;chr6:31939645-31939646 9;482 K alternative_first_exon CUFF.1139 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821896-32822066;chr6:32811913-32812051 chr6:32812617-32812647 172;17 K intron_retention CUFF.1133 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 31;28 N cassette CUFF.1161 chr6 - chr6:114281183-114292020;chr6:114281183-114291643;chr6:114283559-114292020 chr6:114281183-114289797,chr6:114283559-114289797;chr6:114289861-114291643,chr6:114289861-114292020 chr6:114289798-114289860 317;329 N alternative_donor CUFF.1155 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 165;126 K alternative_last_exon CUFF.1123 chr6 - chr6:5138974-5216850,chr6:5144497-5216850;chr6:5113652-5216850 chr6:5187215-5216850 chr6:5113305-5113651 chr6:5186843-5187214 158;136 K cassette CUFF.1137 chr6 + chr6:32125498-32130344 chr6:32125498-32125616;chr6:32125702-32130344 chr6:32125617-32125701 28;391 K alternative_first_exon CUFF.1154 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88065848-88066221 chr6:88068803-88068919 80;20 K intron_retention CUFF.1135 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 150;724 N cassette CUFF.1155 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 73;234 N jcn_only_AA CUFF.1175 chr6 + chr6:161529892-161530786 chr6:161529892-161529982 chr6:161529983-161530786 chr6:161530786-161530787 chr6:161529775-161529891;chr6:161530787-161530946 149;12 N cassette CUFF.1160 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 12;702 K intron_retention CUFF.1140 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 303;90 K jcn_only_AA CUFF.1137 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 15;3 N jcn_only_AD CUFF.1163 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 75;14 K jcn_only_AA CUFF.1163 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 63;59 N alternative_donor CUFF.1164 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 86;46 N jcn_only_AA CUFF.1135 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 124;66 K intron_retention CUFF.1140 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 350;14 K cassette CUFF.1155 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 3;346 K jcn_only_AA CUFF.1131 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 41;98 K cassette CUFF.1162 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 38;45 N coord_cassette CUFF.1165 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 37;206 K alternative_donor CUFF.1175 chr6 + chr6:161529892-161530786 chr6:161530074-161530786 chr6:161529892-161530073 chr6:161529891-161529892 chr6:161530787-161530946;chr6:161529775-161529891 149;79 N alternative_donor CUFF.1171 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 chr6:150206810-150217375 chr6:150206809-150206810 45;61 N cassette CUFF.1146 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 23;40 N jcn_only_AD CUFF.1133 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 5;83 K intron_retention CUFF.1135 chr6 - chr6:31937981-31938119 chr6:31937980-31937981;chr6:31938119-31938120 653;13 K cassette CUFF.1137 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 272;537 N intron_retention chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 77;21 K cassette CUFF.1103 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 4;96 N alternative_donor CUFF.1115 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 10;38 N alternative_donor CUFF.1097 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 17;49 N alternative_donor chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 6;131 N alternative_donor CUFF.1084 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 79;152 K intron_retention CUFF.1108 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 41;48 N alternative_acceptor CUFF.1117 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 61;7 K cassette CUFF.1102 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 25;253 N intron_retention chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 34;1123 K intron_retention CUFF.1107 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 351;47 N jcn_only_AA CUFF.1072 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 91;6 N jcn_only_AA chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 16;34 N cassette CUFF.1110 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 3;152 N alternative_donor CUFF.1088 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 6;75 K jcn_only_AA CUFF.1071 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 56;55 K intron_retention CUFF.1108 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 28;49 K alternative_last_exon CUFF.1068 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184417 chr5:36181920-36182619 113;779 N cassette CUFF.1117 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 1604;156 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 339;48 K alternative_acceptor CUFF.1065 chr5 - chr5:471939-472793 chr5:472081-472793 chr5:471939-472080 chr5:471938-471939 39;281 K mutually_exclusive CUFF.1093 chr5 - chr5:127302621-127412638,chr5:127412786-127418426 chr5:127302621-127396835,chr5:127396937-127418426 chr5:127412639-127412785 chr5:127396836-127396936 36;37 N jcn_only_AA CUFF.1088 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 3;7 N cassette CUFF.1068 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 163;228 K cassette CUFF.1114 chr5 - chr5:162516353-162852808 chr5:162516353-162683856;chr5:162683994-162852808 chr5:162683857-162683993 141;187 N jcn_only_AA CUFF.1072,CUFF.1081 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 21;52 K intron_retention CUFF.1103 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 91;87 K alternative_last_exon CUFF.1084 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902744-64902994 151;116 K cassette CUFF.1078 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 340;189 N mutually_exclusive CUFF.1079 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 419;428 N jcn_only_AD chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 8;92 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 7;2446 N jcn_only_AA CUFF.1103 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 34;17 N jcn_only_AA CUFF.1083 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 123;5 K cassette CUFF.1078 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 51;58 K cassette CUFF.1080 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 21;28 K alternative_first_exon CUFF.1102 chr5 + chr5:137515023-137515348;chr5:137514540-137515348 chr5:137514892-137515348 chr5:137514408-137514539 chr5:137514763-137514891 15;114 K intron_retention CUFF.1117 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 66;121 K cassette CUFF.1079 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 178;460 K alternative_last_exon CUFF.1114 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683091-162683276 13;44 N alternative_donor CUFF.1103 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 111;69 K intron_retention CUFF.1067 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 13;8 N mutually_exclusive CUFF.1093 chr5 - chr5:127302621-127412638,chr5:127412786-127417664 chr5:127302621-127396835,chr5:127396937-127417664 chr5:127412639-127412785 chr5:127396836-127396936 36;37 K alternative_first_exon CUFF.1067 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2752869 chr5:2751279-2751776 81;123 N jcn_only_AA CUFF.1093 chr5 - chr5:127396337-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 28;62 K coord_cassette CUFF.1113 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 53;1396 N jcn_only_AD CUFF.1083 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 123;7 K jcn_only_AA CUFF.1074,CUFF.1081 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 46;210 N alternative_acceptor CUFF.1103 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 24;32 N alternative_donor CUFF.1083,CUFF.1110 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 144;54 K alternative_acceptor CUFF.1071 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 56;55 N jcn_only_AA CUFF.1076 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 28;19 N alternative_donor CUFF.1095 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 3;32 K jcn_only_AA CUFF.1088 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 15;114 N alternative_acceptor CUFF.1072 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 91;18 K alternative_acceptor CUFF.1103 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 7;25 K alternative_donor CUFF.1084 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 14;308 K intron_retention chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 36;95 K jcn_only_AA CUFF.1080 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 45;19 K intron_retention chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 102;53 N alternative_donor CUFF.1080,CUFF.1112 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 18;15 K intron_retention CUFF.1099 chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 5;123 N alternative_acceptor CUFF.1097 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 17;37 K intron_retention CUFF.1113 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 405;84 N jcn_only_AD CUFF.1088 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 6;57 N cassette CUFF.1113 chr5 - chr5:149782189-149785821;chr5:149782189-149784242 chr5:149782189-149782683;chr5:149782876-149785821,chr5:149782876-149784242 chr5:149782684-149782875 95;346 K intron_retention CUFF.1109 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 71;43 K jcn_only_AA CUFF.1065 chr5 - chr5:471939-472793 chr5:472081-472793 chr5:471939-472080 chr5:471938-471939 39;122 K alternative_last_exon CUFF.1103 chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 52;511 N jcn_only_AA CUFF.1091 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 61;122 N jcn_only_AA CUFF.1110 chr5 - chr5:141041357-141044488 chr5:141041823-141044488 chr5:141041357-141041822 chr5:141041356-141041357 26;25 N alternative_acceptor CUFF.1091 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 61;173 K cassette CUFF.1083 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 32;267 N jcn_only_AA CUFF.1074,CUFF.1103 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 91;7 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 47;25 N alternative_acceptor CUFF.1088 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 3;134 N alternative_donor ENSG00000112996.5 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 38;49 K cassette CUFF.1093 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 103;86 N jcn_only_AD ENSG00000112996.5 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809666-44810094 chr5:44809665-44809666 38;13 N jcn_only_AD CUFF.1083 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 23;12 K intron_retention CUFF.1081 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 44;83 K alternative_first_exon CUFF.1110 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050892-141050967 chr5:141050832-141050879 15;11 K intron_retention CUFF.1110 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 25;40 K alternative_last_exon CUFF.1091 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411236 chr5:121362637-121364314 90;328 K alternative_last_exon CUFF.1114 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465209-162465479 25;61 K alternative_acceptor CUFF.1107 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 188;318 K alternative_last_exon CUFF.1097 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656656 40;171 N jcn_only_AD CUFF.1084 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 79;5 N jcn_only_AA CUFF.1117 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 61;7 N jcn_only_AA CUFF.1103 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 23;28 N alternative_first_exon CUFF.1095 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795958-128796175 chr5:128796795-128797450 20;25 N alternative_donor CUFF.1083 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 123;7 K jcn_only_AA CUFF.1103 chr5 + chr5:139866646-139884405 chr5:139866646-139876104 17;7 K alternative_acceptor CUFF.1088 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 15;114 N jcn_only_AD chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 6;102 N jcn_only_AD CUFF.1097 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 17;28 K jcn_only_AA CUFF.1078 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 86;198 N jcn_only_AD CUFF.1103 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 111;56 N jcn_only_AD chr5 - chr5:127338515-127359826 chr5:127338515-127339335 67;37 N alternative_acceptor CUFF.1072,CUFF.1081 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 21;52 N jcn_only_AA chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 45;6 N jcn_only_AD CUFF.1080,CUFF.1112 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 18;9 K intron_retention CUFF.1103 chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 7;38 N cassette CUFF.1093 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 71;125 K intron_retention CUFF.1108 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 27;50 K jcn_only_AD CUFF.1103 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 19;91 N alternative_acceptor CUFF.1103 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 39;17 K intron_retention CUFF.1117 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 25;64 K cassette CUFF.1099 chr5 + chr5:134181903-134190587 chr5:134181903-134182352;chr5:134182554-134190587 chr5:134182353-134182553 5;250 K alternative_acceptor CUFF.1080 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 45;28 N jcn_only_AA CUFF.1071 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 5;146 K intron_retention CUFF.1079 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 256;276 K jcn_only_AA CUFF.1107 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 188;318 K alternative_last_exon CUFF.1075 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 15;30 K alternative_first_exon CUFF.1074 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681954-50682460 chr5:50683324-50683583 60;810 K intron_retention CUFF.1099 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 10;124 N alternative_donor chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148758768-148783670 chr5:148783670-148783671 26;72 N jcn_only_AA CUFF.1100 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 16;27 N jcn_only_AD chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148758768-148783670 chr5:148783670-148783671 26;55 K intron_retention CUFF.1102 chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 102;17 K intron_retention CUFF.1117 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 69;137 N jcn_only_AA CUFF.1097 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81613817-81637517 chr5:81637517-81637518 4;166 N jcn_only_AA chr5 + chr5:36163859-36177066 chr5:36163859-36166620 15;96 N jcn_only_AD CUFF.1083 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 16;36 N cassette CUFF.1115 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 95;104 N alternative_donor CUFF.1084,CUFF.1110 chr5 - chr5:141041357-141044488 chr5:141041357-141041609 chr5:141041610-141044488 chr5:141044488-141044489 26;38 K cassette CUFF.1113 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 32;812 N alternative_last_exon chr5 + chr5:56531860-56542126 chr5:56531860-56532939 chr5:56542127-56542311 chr5:56532940-56533317 181;768 N coord_cassette CUFF.1113 chr5 - chr5:149782189-149785821 chr5:149782189-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 40;313 K alternative_first_exon CUFF.1083 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60194103-60194227 chr5:60187864-60187925 177;14 N intron_retention CUFF.1079 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 47;40 K alternative_last_exon CUFF.1065 chr5 - chr5:472709-472793;chr5:466642-472793 chr5:471939-472793,chr5:472081-472793 chr5:466239-466641 chr5:470612-471938 340;1961 N alternative_acceptor CUFF.1093 chr5 - chr5:127292614-127396835;chr5:127359991-127396835 chr5:127396337-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 519;400 K intron_retention CUFF.1103 chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 15;42 N alternative_first_exon CUFF.1081 chr5 + chr5:56531860-56542126 chr5:56533000-56542126 chr5:56531793-56531859 chr5:56532887-56532999 76;50 N alternative_acceptor CUFF.1110 chr5 - chr5:141041357-141044488 chr5:141041823-141044488 chr5:141041357-141041822 chr5:141041356-141041357 26;76 N jcn_only_AA CUFF.1093 chr5 - chr5:127292614-127396835;chr5:127359991-127396835 chr5:127396337-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 77;13 N alternative_donor CUFF.1083 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 23;349 K intron_retention CUFF.1113 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 188;13 K alternative_first_exon CUFF.1088 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82970344;chr5:82969369-83016607 chr5:82969369-82978143 chr5:82970345-82970619;chr5:83016608-83017432 chr5:82978144-82978404 120;36 K alternative_last_exon CUFF.1068 chr5 + chr5:36171836-36177066 chr5:36171836-36173082 chr5:36177067-36177118 chr5:36173083-36173091 82;3 N alternative_donor chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 8;99 K alternative_first_exon CUFF.1107 chr5 + chr5:140027748-140028055;chr5:140027510-140028055;chr5:140026895-140028055 chr5:140027593-140028055 chr5:140027671-140027747;chr5:140027304-140027509;chr5:140026643-140026894 chr5:140027517-140027592 530;86 N intron_retention chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 6;48 K jcn_only_AD CUFF.1099 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 10;5 K alternative_first_exon CUFF.1107 chr5 + chr5:140027593-140028055;chr5:140027510-140028055;chr5:140026895-140028055 chr5:140027748-140028055 chr5:140027517-140027592;chr5:140027304-140027509;chr5:140026643-140026894 chr5:140027671-140027747 606;10 N alternative_acceptor CUFF.1076 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 22;13 K jcn_only_AD CUFF.1084 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 14;115 K alternative_last_exon CUFF.1068,CUFF.1072 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980443 178;107 K cassette CUFF.1113 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 53;665 N cassette CUFF.1117 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 44;135 N jcn_only_AD CUFF.1115 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 10;27 N cassette CUFF.1093 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 111;107 K alternative_first_exon CUFF.1107 chr5 + chr5:140027593-140028055;chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055 chr5:140027517-140027592;chr5:140027671-140027747;chr5:140026643-140026894 chr5:140027304-140027509 132;484 K alternative_first_exon CUFF.1083 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214435 198;100 K alternative_first_exon CUFF.1088 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82970344;chr5:82969369-82978143 chr5:82969369-83016607 chr5:82970345-82970619;chr5:82978144-82978404 chr5:83016608-83017432 151;5 N alternative_donor CUFF.1083 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 16;11775 K alternative_first_exon CUFF.1088 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82978143;chr5:82969369-83016607 chr5:82969369-82970344 chr5:82978144-82978404;chr5:83016608-83017432 chr5:82970345-82970619 58;98 K intron_retention CUFF.1084 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 143;71 N jcn_only_AA CUFF.1076 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 22;13 N jcn_only_AD CUFF.1070 chr5 - chr5:37309370-37310653 chr5:37309370-37309505 chr5:37309506-37310653 chr5:37310653-37310654 26;6 N jcn_only_AD CUFF.1084,CUFF.1110 chr5 - chr5:141041357-141044488 chr5:141041357-141041609 chr5:141041610-141044488 chr5:141044488-141044489 26;16 K alternative_first_exon CUFF.1097 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630136-131630702 chr5:131631059-131631314 59;370 N cassette CUFF.1084 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 7;342 N alternative_acceptor CUFF.1093 chr5 - chr5:127396337-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 857;62 K cassette CUFF.1078 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 56;111 K alternative_acceptor CUFF.1074,CUFF.1081 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 46;344 K cassette CUFF.1068 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 134;101 K alternative_last_exon CUFF.1083 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186716-60186913 chr5:60189389-60189470 315;4 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 18;52 N jcn_only_AD CUFF.1095 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 3;19 K jcn_only_AA CUFF.1103 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 7;15 K jcn_only_AA CUFF.1069 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 20;77 N jcn_only_AD CUFF.1083,CUFF.1110 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 144;4 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 106;151 N jcn_only_AA CUFF.1093 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 75;15 K alternative_donor CUFF.1099 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 10;172 N alternative_donor CUFF.1070 chr5 - chr5:37309370-37310653 chr5:37309370-37309505 chr5:37309506-37310653 chr5:37310653-37310654 26;9 N alternative_acceptor CUFF.1100 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 16;166 K intron_retention CUFF.1115 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 81;69 N cassette CUFF.1081 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 5;105 N alternative_acceptor CUFF.1093 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127292614-127359990;chr5:127359991-127396336 chr5:127292613-127292614;chr5:127359990-127359991 462;457 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 7;1257 K alternative_first_exon CUFF.1107 chr5 + chr5:140027593-140028055;chr5:140027748-140028055;chr5:140027510-140028055 chr5:140026895-140028055 chr5:140027517-140027592;chr5:140027671-140027747;chr5:140027304-140027509 chr5:140026643-140026894 580;36 K cassette CUFF.1084 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 122;65 N intron_retention CUFF.1110 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 16;14 N intron_retention chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 6;13 N intron_retention chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 16;1111 K coord_cassette CUFF.1093 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 54;58 K cassette CUFF.1083 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 61;170 N jcn_only_AA CUFF.1097 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 17;16 N alternative_acceptor CUFF.1071 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 5;824 K cassette CUFF.1083 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 90;326 N alternative_acceptor CUFF.1083 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 123;5 K intron_retention CUFF.1113 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 105;142 N alternative_acceptor CUFF.1076 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 28;34 K coord_cassette CUFF.1113 chr5 - chr5:149782876-149785821 chr5:149782876-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 52;317 N intron_retention CUFF.1103 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 7;71 N alternative_acceptor chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 49;7 N alternative_acceptor CUFF.1097 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81613817-81637517 chr5:81637517-81637518 4;890 N alternative_acceptor chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 16;335 K cassette CUFF.1107 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 231;204 N alternative_acceptor CUFF.1074,CUFF.1103 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 91;42 K alternative_first_exon CUFF.1095 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019813-129019966 chr5:129023814-129023907 11;217 K jcn_only_AA CUFF.1044 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 20;13 N cassette CUFF.1045 chr4 - chr4:83819216-83821229;chr4:83816928-83821229 chr4:83816928-83820865,chr4:83819216-83820865;chr4:83820891-83821229 chr4:83820866-83820890 87;3255 N alternative_acceptor CUFF.1013 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 888;49 K alternative_donor CUFF.1051 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 77;294 K alternative_last_exon CUFF.1058 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143621-153143911 69;122 N alternative_donor CUFF.1054 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 169;179 N cassette CUFF.1051 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379233-120381337 chr4:120379126-120379232 269;186 N alternative_acceptor chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 53;91 N alternative_acceptor CUFF.1023 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 10;143 K cassette CUFF.1014 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 14;294 N alternative_acceptor CUFF.1054 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 173;233 N alternative_acceptor CUFF.1060 chr4 - chr4:162463846-162508606 chr4:162473730-162508606 chr4:162463846-162473729 chr4:162463845-162463846 167;67 K intron_retention CUFF.1013 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 30;73 K alternative_donor CUFF.1015 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 92;196 K alternative_first_exon CUFF.1021 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821679-13821895 10;18 N alternative_donor CUFF.1018 chr4 + chr4:6911233-6925099;chr4:6912329-6925099 chr4:6911679-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 189;4 N jcn_only_AA CUFF.1022 chr4 + chr4:20555592-20568884 chr4:20555592-20555930 chr4:20555931-20568884 chr4:20568884-20568885 269;38 N alternative_acceptor chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 12;181 K alternative_first_exon CUFF.1041 chr4 - chr4:77987559-77995942;chr4:77987559-77996624 chr4:77987559-77996251 chr4:77996625-77997173 chr4:77996252-77996291 525;24 K cassette CUFF.1029 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 4;128 K intron_retention CUFF.1031 chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 20;312 N jcn_only_AA CUFF.1023 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 10;4 N jcn_only_AD CUFF.1018 chr4 + chr4:6911233-6925099;chr4:6911679-6925099 chr4:6912329-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 141;17 N alternative_donor CUFF.1047 chr4 - chr4:152080505-152095821 chr4:152080505-152086740 chr4:152086741-152095821 chr4:152095821-152095822 5;168 K alternative_last_exon CUFF.1056 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240604-142241054 chr4:142242288-142242535 chr4:142244576-142244772 45;131 K cassette CUFF.1013 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 39;569 N jcn_only_AA CUFF.1051 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 19;48 N intron_retention chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 11;75 N jcn_only_AA CUFF.1013 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 216;39 N jcn_only_AD CUFF.1047 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 275;18 N jcn_only_AA CUFF.1060 chr4 - chr4:162463846-162508606 chr4:162473730-162508606 chr4:162463846-162473729 chr4:162463845-162463846 167;67 K cassette CUFF.1013 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951277-3952865 chr4:3951175-3951276 151;165 K alternative_first_exon CUFF.1015 chr4 - chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6383503;chr4:6382822-6536997;chr4:6382822-6415629 chr4:6382822-6473886 chr4:6383504-6383826;chr4:6536998-6537104;chr4:6415630-6415758 chr4:6473887-6474182 509;40 K alternative_first_exon CUFF.1015 chr4 - chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6383503;chr4:6382822-6536997;chr4:6382822-6473886 chr4:6382822-6415629 chr4:6383504-6383826;chr4:6536998-6537104;chr4:6473887-6474182 chr4:6415630-6415758 446;103 K alternative_acceptor CUFF.1006 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 78;8 N jcn_only_AA chr4 - chr4:69071816-69083623 chr4:69078196-69083623 5;44 K jcn_only_AD CUFF.1063 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 16;72 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 90;400 N cassette CUFF.1045 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83821229,chr4:83819216-83820865 chr4:83819142-83819215 13;2874 N alternative_acceptor CUFF.1047 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 326;92 N jcn_only_AA CUFF.1047 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 262;25 N alternative_acceptor CUFF.1022 chr4 + chr4:20555592-20568884 chr4:20555592-20555930 chr4:20555931-20568884 chr4:20568884-20568885 269;38 N alternative_donor CUFF.1051 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 19;43 K jcn_only_AA CUFF.1029 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 37;78 N alternative_donor CUFF.1015 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 90;2430 K intron_retention CUFF.1010 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 179;564 N jcn_only_AD chr4 + chr4:6969152-6995910 chr4:6989077-6995910 118;5 K jcn_only_AA CUFF.1010 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 8;93 N alternative_donor chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 12;19 N alternative_donor CUFF.1047 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 340;44 K intron_retention CUFF.1010 chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 202;150 K intron_retention CUFF.1051 chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 63;107 N jcn_only_AD CUFF.1018 chr4 + chr4:6911233-6925099;chr4:6912329-6925099 chr4:6911679-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 154;4 K intron_retention CUFF.1010 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 178;102 K intron_retention CUFF.1029 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 134;31 N jcn_only_AD CUFF.1015 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 90;2068 N alternative_acceptor CUFF.1041 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 16;164 K jcn_only_AD CUFF.1028 chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 6;38 K jcn_only_AD CUFF.1051 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 77;294 N coord_cassette CUFF.1038 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189922-77192720;chr4:77192922-77230296 chr4:77189813-77189921;chr4:77192721-77192921 10;121 K cassette CUFF.1051 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 269;186 K jcn_only_AD CUFF.1054 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 35;88 N cassette CUFF.1036 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 6;29 K cassette CUFF.1009 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 31;182 N jcn_only_AA CUFF.1035 chr4 - chr4:70465113-70512647 chr4:70501541-70512647 chr4:70465113-70501540 chr4:70465112-70465113 25;16 N jcn_only_AA CUFF.1022 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 13;6 K intron_retention CUFF.1013 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 156;77 N jcn_only_AA CUFF.1041 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 16;76 N coord_cassette CUFF.1045 chr4 - chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83820865;chr4:83820891-83821229 chr4:83819142-83819215;chr4:83820866-83820890 9;4432 N jcn_only_AA CUFF.1057 chr4 - chr4:152080505-152095821;chr4:152086849-152095821 chr4:152091944-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 24;44 K alternative_first_exon CUFF.1043 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81105033-81105209 chr4:81106485-81106672 27;124 K alternative_last_exon CUFF.1021 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 9;121 K intron_retention CUFF.1033 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 5;69 N alternative_donor CUFF.1051 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 19;85 K alternative_first_exon CUFF.1035,CUFF.1050 chr4 - chr4:70465113-70501408;chr4:70465113-70512647 chr4:70465113-70469259 chr4:70512648-70513418 chr4:70469260-70469324 280;20 N alternative_donor CUFF.1018 chr4 + chr4:6911233-6925099;chr4:6911679-6925099 chr4:6912329-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 141;52 N jcn_only_AA chr4 - chr4:99428880-99578690 chr4:99496057-99578690 chr4:99428880-99496056 chr4:99428879-99428880 12;84 N jcn_only_AD CUFF.1057 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 146;7 N jcn_only_AD CUFF.1018 chr4 + chr4:6912329-6925099;chr4:6911679-6925099 chr4:6911233-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 21;137 K coord_cassette CUFF.1030 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 132;502 N jcn_only_AD CUFF.1047 chr4 - chr4:152080505-152095821 chr4:152080505-152086740 chr4:152086741-152095821 chr4:152095821-152095822 5;34 N jcn_only_AD CUFF.1031 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 78;27 K jcn_only_AA CUFF.1055 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 28;59 N cassette CUFF.1004 chr4 + chr4:645878-647640 chr4:645878-646284;chr4:646343-647640 chr4:646285-646342 10;39 N coord_cassette CUFF.1043 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 15;194 N jcn_only_AA CUFF.1022,CUFF.1031 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 78;27 K cassette CUFF.1013 chr4 - chr4:3954901-3957050 chr4:3954901-3956686;chr4:3956761-3957050 chr4:3956687-3956760 281;167 K cassette CUFF.1010 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 134;347 N alternative_acceptor CUFF.1027 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 5;13 N coord_cassette CUFF.1045 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83819141;chr4:83819216-83821229 chr4:83816845-83816927;chr4:83819142-83819215 52;174 N jcn_only_AA CUFF.1051 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 132;269 N jcn_only_AD CUFF.1041 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 chr4:74464357-74481607 chr4:74481607-74481608 5;7 N jcn_only_AD CUFF.1022 chr4 + chr4:20555592-20568884 chr4:20555964-20568884 chr4:20555592-20555963 chr4:20555591-20555592 269;40 K intron_retention CUFF.1034 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 20;82 N alternative_donor CUFF.1051 chr4 + chr4:120379233-120381337 chr4:120379326-120381337 chr4:120379233-120379325 chr4:120379232-120379233 53;49 N alternative_acceptor CUFF.1010 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 12;423 K cassette CUFF.1014 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 80;21 N alternative_acceptor CUFF.1010 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 12;649 K alternative_first_exon CUFF.1032 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57775073-57775205 chr4:57775327-57775753 94;111 N jcn_only_AA CUFF.1057 chr4 - chr4:152091944-152095821;chr4:152086849-152095821 chr4:152080505-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 63;5 N alternative_acceptor CUFF.1025 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 163;21 N cassette CUFF.1041 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 30;174 N alternative_donor CUFF.1022 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 13;5 K alternative_donor CUFF.1028 chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 6;75 N cassette CUFF.1030 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 132;297 N jcn_only_AA chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 53;19 K alternative_donor CUFF.1054 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 35;88 N jcn_only_AD chr4 - chr4:69071816-69083623 chr4:69071816-69078079 5;34 N alternative_acceptor CUFF.1013 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 199;738 N jcn_only_AD CUFF.1020,CUFF.1034 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 37;14 N alternative_donor CUFF.1015,CUFF.1060 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 178;90 K intron_retention CUFF.1010 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 134;648 K intron_retention CUFF.1015 chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 167;91 N alternative_donor CUFF.1022 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 29;678 N jcn_only_AA CUFF.1047 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 58;229 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 34;16 N alternative_acceptor CUFF.1060 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402322-162416632 chr4:162402321-162402322 205;105 K alternative_first_exon CUFF.1022 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256565-20256698 19;28 N jcn_only_AA CUFF.1010 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 12;394 K intron_retention CUFF.1010 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 127;352 N alternative_acceptor CUFF.1047 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 189;229 K jcn_only_AD CUFF.1015 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 92;173 K alternative_first_exon CUFF.1046 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419647 chr4:85417646-85418103 623;40 N alternative_acceptor CUFF.1047 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 321;97 N alternative_acceptor CUFF.1035 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 17;52 K cassette CUFF.1013 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 20;439 N alternative_acceptor CUFF.1006 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186284539-186290903 chr4:186290903-186290904 7;998 N jcn_only_AD CUFF.1022 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 29;5 K alternative_first_exon CUFF.1015 chr4 - chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6383503;chr4:6382822-6473886;chr4:6382822-6415629 chr4:6382822-6536997 chr4:6383504-6383826;chr4:6473887-6474182;chr4:6415630-6415758 chr4:6536998-6537104 509;40 N jcn_only_AA CUFF.1004 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 8;35 N alternative_acceptor chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130829789-130849722 chr4:130849722-130849723 12;41 N jcn_only_AD CUFF.1063 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 4;105 N alternative_acceptor CUFF.1051 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 132;568 N jcn_only_AA CUFF.1035 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 17;25 N jcn_only_AD CUFF.1022 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 13;5 K intron_retention CUFF.1010 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 93;346 N alternative_donor CUFF.1028,CUFF.1060 chr4 - chr4:162463846-162508606 chr4:162463846-162473639 chr4:162473640-162508606 chr4:162508606-162508607 167;53 N jcn_only_AA chr4 - chr4:152065203-152069073 chr4:152065441-152069073 44;9 N jcn_only_AA CUFF.1057 chr4 - chr4:152091944-152095821;chr4:152080505-152095821 chr4:152086849-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 49;19 K intron_retention CUFF.1047 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 229;33 K alternative_last_exon CUFF.1057 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152095822-152096826 chr4:152096836-152096847 453;9 K alternative_first_exon CUFF.1030 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502915 chr4:56502248-56502529 84;727 N cassette CUFF.1051 chr4 + chr4:120384135-120414487 chr4:120384135-120409799;chr4:120409873-120414487 chr4:120409800-120409872 17;456 N cassette CUFF.1004 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 49;160 N intron_retention chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 33;37 K alternative_last_exon CUFF.1022 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554339 313;42 K cassette CUFF.1015 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 13;769 K intron_retention CUFF.1031 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 6;295 K intron_retention CUFF.1010 chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 27;322 N alternative_acceptor CUFF.1004 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 8;35 N cassette CUFF.1030 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 52;337 N jcn_only_AA CUFF.1051 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 71;26 N alternative_donor CUFF.1031 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 78;210 N jcn_only_AD CUFF.1057 chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 148;5 N jcn_only_AA CUFF.1013 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 88;167 N alternative_donor CUFF.1057 chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 417;6 N jcn_only_AD chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 12;8 N jcn_only_AA CUFF.1047 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 254;33 N jcn_only_AA chr4 - chr4:69057243-69078079 chr4:69071816-69078079 27;34 N jcn_only_AA CUFF.1054 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 173;12 K alternative_first_exon CUFF.1031 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57301907-57302094 chr4:57302140-57302141 34;20 N intron_retention chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 8;101 K cassette CUFF.1048 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 27;170 N alternative_acceptor CUFF.1051 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 71;296 K cassette CUFF.1043 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 77;90 N jcn_only_AA CUFF.1038,CUFF.1055 chr4 + chr4:77192922-77230296 chr4:77192922-77211054 chr4:77211055-77230296 chr4:77230296-77230297 81;8 N jcn_only_AD CUFF.1051 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 19;33 N jcn_only_AD chr4 - chr4:152065203-152069073 chr4:152065203-152065371 44;11 K coord_cassette CUFF.1010 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 27;707 K jcn_only_AA CUFF.1006 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 78;8 K intron_retention CUFF.1010 chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 8;441 N jcn_only_AA CUFF.1022 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 29;5 N alternative_acceptor CUFF.1057 chr4 - chr4:152080505-152095821;chr4:152086849-152095821 chr4:152091944-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 24;177 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 33;34 N alternative_acceptor CUFF.1057 chr4 - chr4:152091944-152095821;chr4:152080505-152095821 chr4:152086849-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 182;19 N alternative_acceptor CUFF.1022 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 13;6 K alternative_first_exon CUFF.1014,CUFF.1047 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202282 chr4:6196218-6196401 110;52 K alternative_first_exon CUFF.1015 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6565287-6565409 chr4:6557261-6557429 12;39 N jcn_only_AA CUFF.1047 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 4;136 N alternative_donor chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 13;410 N jcn_only_AA CUFF.1013 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 206;49 N alternative_acceptor CUFF.1051 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 19;554 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 33;36 N alternative_donor CUFF.1018 chr4 + chr4:6912329-6925099;chr4:6911679-6925099 chr4:6911233-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 56;137 N alternative_donor chr4 - chr4:99403327-99405549;chr4:99403327-99405535 chr4:99403327-99407888 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 155;229 K alternative_acceptor CUFF.1044 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 20;24 K alternative_donor CUFF.1063 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 16;116 K alternative_first_exon CUFF.1015 chr4 - chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6473886;chr4:6382822-6415629 chr4:6382822-6383503 chr4:6536998-6537104;chr4:6473887-6474182;chr4:6415630-6415758 chr4:6383504-6383826 212;337 N jcn_only_AA CUFF.1010 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 12;379 K alternative_last_exon CUFF.1041 chr4 - chr4:77979789-77996624 chr4:77987559-77996624 chr4:77979660-77979788 chr4:77987321-77987558 90;275 K jcn_only_AA CUFF.1036 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 10;171 N jcn_only_AA CUFF.1027 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 5;13 K alternative_first_exon CUFF.1050 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133798 chr4:120116866-120116996 31;52 N alternative_last_exon CUFF.1051,CUFF.1063 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381898-120381975 chr4:120381338-120381399 63;53 K intron_retention CUFF.1056 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 chr4:142244576-142244772;chr4:142245956-142246066 64;60 N cassette CUFF.1030 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 36;489 K alternative_first_exon CUFF.1037,CUFF.1041 chr4 - chr4:77979789-77985865;chr4:77979789-77996624 chr4:77979789-77987401 chr4:77996625-77997173 chr4:77987402-77987558 388;185 K alternative_first_exon CUFF.1037 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 chr4:77116860-77117045 chr4:77097590-77097681 62;5 K cassette CUFF.1057 chr4 - chr4:152100550-152108574 chr4:152100550-152102840;chr4:152102882-152108574 chr4:152102841-152102881 44;200 N jcn_only_AA chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130829789-130849722 chr4:130849722-130849723 12;41 K cassette CUFF.1038 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 87;17 N alternative_acceptor CUFF.1057 chr4 - chr4:152091944-152095821;chr4:152086849-152095821 chr4:152080505-152095821 chr4:152080505-152086848;chr4:152086849-152091943 chr4:152080504-152080505;chr4:152086848-152086849 196;5 N mutually_exclusive CUFF.1030 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 62;91 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 2068;87 N alternative_donor CUFF.1057 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 416;7 N jcn_only_AD chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 12;141 K coord_cassette CUFF.1030 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 8;408 N jcn_only_AD chr4 + chr4:7008454-7011603 chr4:7009353-7011603 173;44 K intron_retention CUFF.1004 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 67;256 K cassette CUFF.1037 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 19;33 N coord_cassette CUFF.1023 chr4 - chr4:36014454-36047600 chr4:36014454-36017007;chr4:36017255-36017521;chr4:36017581-36020765;chr4:36020909-36047600 chr4:36017008-36017254;chr4:36017522-36017580;chr4:36020766-36020908 39;80 N jcn_only_AD chr4 + chr4:6925839-6969030 chr4:6956066-6969030 15;91 K cassette CUFF.1035 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 73;78 K cassette CUFF.1063 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 21;306 K intron_retention CUFF.1051 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 71;302 N alternative_acceptor CUFF.1035 chr4 - chr4:70465113-70512647 chr4:70501541-70512647 chr4:70465113-70501540 chr4:70465112-70465113 25;96 N alternative_donor CUFF.1022 chr4 + chr4:20555592-20568884 chr4:20555964-20568884 chr4:20555592-20555963 chr4:20555591-20555592 269;40 N jcn_only_AA CUFF.1006 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186284539-186290903 chr4:186290903-186290904 7;159 N cassette CUFF.1060 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 28;331 N alternative_donor CUFF.1020,CUFF.1034 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 37;50 N cassette CUFF.1014 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 8;292 N jcn_only_AA CUFF.1060 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402322-162416632 chr4:162402321-162402322 205;31 K intron_retention CUFF.1010 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 107;868 N cassette CUFF.1045 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83821229 chr4:83816845-83816927 52;43 K intron_retention CUFF.1048 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 103;14 N jcn_only_AD chr4 - chr4:99403327-99405549;chr4:99403327-99405535 chr4:99403327-99407888 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 64;229 N alternative_acceptor CUFF.1022 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 29;5 K cassette CUFF.1013 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 151;406 N jcn_only_AD CUFF.1054 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 169;6 N jcn_only_AA CUFF.1025 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 163;16 N alternative_acceptor CUFF.1038,CUFF.1055 chr4 + chr4:77192922-77230296 chr4:77192922-77211054 chr4:77211055-77230296 chr4:77230296-77230297 81;12 K alternative_first_exon CUFF.1063 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131150-186131409 5;176 K alternative_acceptor CUFF.1010 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 8;379 K cassette CUFF.1030 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 102;670 K alternative_first_exon CUFF.1063 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186217174-186217184 67;14 K cassette CUFF.1004 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 4;29 N coord_cassette CUFF.1013 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3951174;chr4:3951320-3952865;chr4:3952947-3954837 chr4:3949817-3949947;chr4:3951175-3951319;chr4:3952866-3952946 32;581 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 33;34 N jcn_only_AD CUFF.1051 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 19;43 N cassette CUFF.1013 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 32;146 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 16;124 N alternative_acceptor CUFF.1022,CUFF.1031 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 78;27 N alternative_donor CUFF.1041 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 chr4:74464357-74481607 chr4:74481607-74481608 5;744 K coord_cassette CUFF.1029 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 33;187 N jcn_only_AD CUFF.1051 chr4 + chr4:120379233-120381337 chr4:120379326-120381337 chr4:120379233-120379325 chr4:120379232-120379233 53;11 N jcn_only_AD CUFF.1028,CUFF.1060 chr4 - chr4:162463846-162508606 chr4:162463846-162473639 chr4:162473640-162508606 chr4:162508606-162508607 167;53 N alternative_donor CUFF.1063 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 4;149 N alternative_acceptor CUFF.1013 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 787;150 K cassette CUFF.1029 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 17;208 N coord_cassette CUFF.1013 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 32;454 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 52;30 K mutually_exclusive CUFF.1009 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 53;72 K alternative_first_exon CUFF.1047 chr4 - chr4:99428880-99481325,chr4:99428880-99495607,chr4:99428880-99578690;chr4:99428880-99579296 chr4:99428880-99578675 chr4:99579297-99579721 chr4:99578676-99578687 280;16 N alternative_acceptor CUFF.1047 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 4;166 N alternative_donor CUFF.1047 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 273;111 N jcn_only_AD CUFF.1047 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 247;46 N jcn_only_AA chr4 + chr4:7008454-7011603 chr4:7008454-7009250 173;69 N jcn_only_AD CUFF.1015,CUFF.1060 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162585968-162680562 chr4:162680562-162680563 178;59 N alternative_acceptor CUFF.973 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 147;630 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 11;687 N jcn_only_AD CUFF.936 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 36;25 N jcn_only_AA CUFF.958 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107574077-107575926 chr3:107567966-107575926 272;27 K intron_retention CUFF.915 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 32;39 K jcn_only_AA CUFF.945 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 50;19 N alternative_acceptor CUFF.996 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 141;41 K intron_retention CUFF.933 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 176;187 N jcn_only_AD CUFF.923 chr3 - chr3:141724387-141809633;chr3:141724387-141772956 chr3:141724387-141747883 93;8 K cassette CUFF.930 chr3 - chr3:33454320-33458249 chr3:33454320-33457497;chr3:33457593-33458249 chr3:33457498-33457592 31;480 K alternative_first_exon CUFF.939,CUFF.974 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730626 chr3:45729868-45730374 28;275 N jcn_only_AA chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 64;20 N jcn_only_AA CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 362;17 N cassette CUFF.977 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 39;77 N jcn_only_AD CUFF.917 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 248;17 N intron_retention chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 122;37 N intron_retention chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 10;19 N jcn_only_AA CUFF.926 chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 19;168 K alternative_last_exon CUFF.946,CUFF.979 chr3 + chr3:51747327-51749077 chr3:51747327-51747979 chr3:51749078-51750153 chr3:51747980-51749030 503;1416 N alternative_donor CUFF.991 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 127;89 N jcn_only_AD CUFF.923 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 30;29 N jcn_only_AD CUFF.987 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 398;14 K cassette CUFF.920 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 13;40 K alternative_first_exon CUFF.940 chr3 - chr3:46982556-47007473;chr3:46982556-47017842 chr3:46982556-47018126 chr3:47007474-47007521;chr3:47017843-47018060 chr3:47018127-47018333 785;501 N alternative_acceptor CUFF.940 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 228;24 N jcn_only_AA CUFF.958 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 243;250 N alternative_donor CUFF.970,CUFF.976 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 18;134 K alternative_first_exon CUFF.961 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021325-112021561 chr3:112025922-112026045 27;32 N alternative_first_exon CUFF.942 chr3 - chr3:49349088-49362134;chr3:49349088-49351303 chr3:49349088-49355741 chr3:49362135-49362196;chr3:49351304-49351558 chr3:49355742-49356182 315;77 N cassette CUFF.976 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 26;235 K alternative_first_exon CUFF.942,CUFF.987 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377917-49378220 chr3:49377357-49377560 80;105 K jcn_only_AD CUFF.954 chr3 - chr3:93646252-93692517 chr3:93646252-93692406 chr3:93692407-93692517 chr3:93692517-93692518 5;385 K intron_retention CUFF.930 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 75;135 N intron_retention chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 40;160 K alternative_donor CUFF.973 chr3 - chr3:125787090-125802935 chr3:125787090-125802896 chr3:125802897-125802935 chr3:125802935-125802936 268;289 K alternative_last_exon CUFF.969 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 52;58 N alternative_donor CUFF.926 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 182;76 K alternative_first_exon CUFF.923,CUFF.949 chr3 - chr3:71777775-71803365;chr3:71777775-71803794 chr3:71777775-71778224 chr3:71803795-71803893 chr3:71778225-71778409 44;146 N alternative_acceptor chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 25;249 N jcn_only_AA CUFF.917 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 347;32 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 45;255 N jcn_only_AA CUFF.933 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 526;12 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141747883 chr3:141724387-141772956 17;84 N alternative_first_exon CUFF.946 chr3 + chr3:51748138-51749077;chr3:51741184-51749077 chr3:51747327-51749077 chr3:51741011-51741183 chr3:51746489-51747326 33;275 N alternative_donor CUFF.970 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 235;8 N jcn_only_AD CUFF.926 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 181;11 N mutually_exclusive CUFF.983 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 9;9 N alternative_first_exon chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49362135-49362196 chr3:49355742-49356182 4;73 K alternative_first_exon CUFF.950 chr3 - chr3:73453547-73482789,chr3:73453547-73610601,chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73605851-73606171;chr3:73618302-73618625 chr3:73523606-73523851 105;66 N alternative_acceptor CUFF.923 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 225;67 N jcn_only_AD CUFF.969 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 19;11 N alternative_donor CUFF.977 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 115;47 N jcn_only_AD CUFF.931,CUFF.949 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 62;8 K intron_retention CUFF.965 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 61;111 K alternative_first_exon CUFF.976 chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127317039-127317104 chr3:127314295-127314533 13;206 N alternative_acceptor CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 582;47 N alternative_donor CUFF.996 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 141;84 N cassette CUFF.983 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 21;244 K alternative_first_exon CUFF.923,CUFF.973 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332753-27332881 chr3:27332108-27332255 281;170 N cassette CUFF.923 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 5;40 N jcn_only_AA CUFF.958 chr3 - chr3:107575172-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107574273-107575926 258;41 N cassette CUFF.983 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 86;588 N jcn_only_AD CUFF.967 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 10;58 N alternative_acceptor CUFF.996 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 115;50 K intron_retention CUFF.945 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 34;26 N jcn_only_AD CUFF.926 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 179;13 N alternative_donor CUFF.933 chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 1074;9 K alternative_last_exon CUFF.979 chr3 + chr3:133407209-133419725 chr3:133407209-133418748 chr3:133419726-133419897 chr3:133418749-133419075 369;174 N jcn_only_AA CUFF.924 chr3 - chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27409053 chr3:27394410-27394411 31;6 N jcn_only_AD CUFF.959 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 27;55 N coord_cassette CUFF.996 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 21;588 N jcn_only_AD CUFF.917 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 32;32 K cassette CUFF.930 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 53;107 K alternative_first_exon CUFF.974 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073193 14;242 N jcn_only_AD chr3 - chr3:107568819-107572719 chr3:107568819-107569143 20;22 N alternative_acceptor CUFF.954 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 5;32 N mutually_exclusive CUFF.983 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 9;9 N jcn_only_AD CUFF.977 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 117;16 N alternative_donor CUFF.958 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 318;41 N jcn_only_AA CUFF.923 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 343;7 K alternative_first_exon CUFF.987 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156271444-156271570 chr3:156269187-156269356 233;211 N jcn_only_AA CUFF.969 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 11;8 N jcn_only_AA CUFF.958 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 485;8 K mutually_exclusive CUFF.976 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 42;30 N jcn_only_AD CUFF.942 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 70;29 K alternative_last_exon CUFF.977,CUFF.979 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 35;283 K coord_cassette CUFF.964 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 54;75 K alternative_acceptor CUFF.967 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 6;134 N alternative_acceptor CUFF.923 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 343;29 N alternative_acceptor CUFF.958 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 17;370 K alternative_first_exon CUFF.987 chr3 - chr3:156271571-156272745;chr3:156271571-156272525 chr3:156271571-156271781 chr3:156272746-156272973;chr3:156272526-156272669 chr3:156271782-156271925 192;90 K intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 310;22 N alternative_donor CUFF.969 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 44;11 K cassette CUFF.942 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 27;167 N alternative_donor CUFF.979 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407209-133418467 chr3:133407208-133407209 187;16 K alternative_last_exon CUFF.983 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697362-141697524 chr3:141708278-141708356 553;34 K alternative_last_exon CUFF.977 chr3 + chr3:132948196-133022047,chr3:132948196-133097185;chr3:132948196-133109023 chr3:132948196-133098595 chr3:133109024-133109178 chr3:133098596-133099065 84;459 N alternative_donor CUFF.962 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 94;153 K alternative_first_exon CUFF.959 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476024 chr3:108475667-108475862 18;49 N alternative_acceptor CUFF.958 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 718;250 K cassette CUFF.986 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 28;154 N alternative_donor chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 157;27 N alternative_acceptor CUFF.931 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 62;144 N jcn_only_AD CUFF.969 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 22;8 N jcn_only_AD CUFF.942 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 50;27 K coord_cassette CUFF.967 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 7;247 N jcn_only_AD CUFF.933 chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 427;9 N alternative_donor CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 720;363 N jcn_only_AD CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 281;155 K jcn_only_AD CUFF.973 chr3 - chr3:125787090-125802935 chr3:125787090-125802896 chr3:125802897-125802935 chr3:125802935-125802936 268;261 N jcn_only_AA CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 359;20 N jcn_only_AD CUFF.996 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 141;14 K cassette CUFF.958 chr3 - chr3:107576050-107586157 chr3:107576050-107585498;chr3:107585601-107586157 chr3:107585499-107585600 266;177 N alternative_acceptor CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 116;513 N jcn_only_AD CUFF.977 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 120;10 N jcn_only_AD CUFF.936 chr3 - chr3:38061844-38070996;chr3:38061844-38065646 chr3:38061844-38065827 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 51;8 N cassette CUFF.973 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 139;1294 K intron_retention CUFF.946 chr3 + chr3:51747327-51747979 chr3:51747326-51747327;chr3:51747979-51747980 1114;20 K jcn_only_AD CUFF.961 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 21;33 N cassette CUFF.958 chr3 - chr3:107595034-107596159 chr3:107595034-107595281;chr3:107595379-107596159 chr3:107595282-107595378 202;377 N jcn_only_AD CUFF.979 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407209-133418467 chr3:133407208-133407209 187;3 N cassette CUFF.947 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 79;320 N intron_retention chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 14;52 N jcn_only_AA chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 41;43 N jcn_only_AD CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 336;100 N alternative_donor CUFF.970 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 239;4 N jcn_only_AD chr3 - chr3:141724387-141747883;chr3:141724387-141772956 chr3:141724387-141809633 92;9 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 30;61 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 3;100 N alternative_acceptor CUFF.931 chr3 - chr3:33617768-33623312 chr3:33618757-33623312 chr3:33617768-33618756 chr3:33617767-33617768 33;419 N mutually_exclusive CUFF.973 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 29;24 K intron_retention CUFF.985 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 23;83 K intron_retention CUFF.962 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 23;32 K coord_cassette CUFF.967 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 7;325 K cassette CUFF.976 chr3 - chr3:127299007-127313642 chr3:127299007-127310732;chr3:127310794-127313642 chr3:127310733-127310793 73;27 N cassette CUFF.947 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 32;237 N jcn_only_AD chr3 - chr3:124951499-124953143 chr3:124951499-124951952 29;40 N alternative_acceptor CUFF.933 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 526;12 N jcn_only_AA CUFF.931 chr3 - chr3:33617768-33623312 chr3:33618757-33623312 chr3:33617768-33618756 chr3:33617767-33617768 33;11 K cassette CUFF.930 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 27;231 K intron_retention CUFF.945 chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 19;40 N cassette CUFF.958 chr3 - chr3:107572902-107573976 chr3:107572902-107573500;chr3:107573542-107573976 chr3:107573501-107573541 74;94 N jcn_only_AD chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 56;43 N alternative_donor CUFF.977 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 66;96 N alternative_donor CUFF.977 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 143;19 K alternative_first_exon CUFF.940 chr3 - chr3:46982556-47017842;chr3:46982556-47018126 chr3:46982556-47007473 chr3:47017843-47018060;chr3:47018127-47018333 chr3:47007474-47007521 1249;37 N alternative_acceptor CUFF.926 chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 123;168 N jcn_only_AD CUFF.970 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 177;4 N jcn_only_AA CUFF.940 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 228;12 N alternative_donor CUFF.971 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 46;44 N jcn_only_AD chr3 - chr3:120389380-120394638 chr3:120389380-120393747 32;190 N jcn_only_AD CUFF.970,CUFF.976 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 18;47 N jcn_only_AD CUFF.931,CUFF.942 chr3 - chr3:33617768-33623312 chr3:33617768-33618693 chr3:33618694-33623312 chr3:33623312-33623313 33;19 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 275;220 N cassette CUFF.958 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 44;1245 N cassette CUFF.983 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 33;793 N alternative_donor CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 1047;36 N alternative_acceptor CUFF.947 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 116;94 N cassette CUFF.983 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 7;271 K alternative_first_exon CUFF.955 chr3 + chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634454-97634580 chr3:97642964-97643255 chr3:97652538-97652677 10;192 N alternative_last_exon CUFF.923 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203757-27204092 67;296 N jcn_only_AD ENSG00000172940.7 chr3 + chr3:38315867-38316479 chr3:38316250-38316479 21;3 K cassette CUFF.988 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 170;448 N jcn_only_AA CUFF.970 chr3 - chr3:124996654-125042231 chr3:125032501-125042231 27;4 N jcn_only_AD CUFF.931,CUFF.940 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 121;16 N alternative_donor CUFF.975 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 37;39 N alternative_donor CUFF.983 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 225;41 N alternative_acceptor CUFF.933 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 15;372 N alternative_first_exon CUFF.977 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911555-132911671 14;75 N alternative_acceptor CUFF.981 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 81;41 N alternative_donor CUFF.936 chr3 - chr3:38061844-38070996;chr3:38061844-38065646 chr3:38061844-38065827 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 161;28 N jcn_only_AA CUFF.958 chr3 - chr3:107574273-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107575172-107575926 275;24 K alternative_first_exon CUFF.940 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47007474-47007521;chr3:47018127-47018333 chr3:47017843-47018060 538;748 K cassette CUFF.990 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 94;26 K intron_retention CUFF.946 chr3 + chr3:51747327-51749077 chr3:51747326-51747327;chr3:51749077-51749078 34;44 K alternative_first_exon CUFF.923,CUFF.954 chr3 - chr3:27233734-27236027;chr3:27233734-27243000 chr3:27233734-27235551 chr3:27243001-27243071 chr3:27235552-27235685 107;24 N jcn_only_AA CUFF.975 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 62;8 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 20;202 K alternative_donor CUFF.954 chr3 - chr3:93646252-93692517 chr3:93646252-93692406 chr3:93692407-93692517 chr3:93692517-93692518 5;498 N alternative_acceptor chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 72;27 N alternative_donor CUFF.923 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 50;139 K alternative_last_exon CUFF.959 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474516-108474752 25;31 K intron_retention CUFF.973 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 12;212 K alternative_acceptor CUFF.969 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 19;42 N jcn_only_AD chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 135;50 N alternative_donor CUFF.942 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 50;45 N jcn_only_AA CUFF.933 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638227-33644081 chr3:33638226-33638227 15;176 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 41;179 N alternative_donor CUFF.977 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 120;15 N jcn_only_AD CUFF.971 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 46;19 N intron_retention chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 60;16 N alternative_donor CUFF.926 chr3 + chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283393-28295256 chr3:28283392-28283393 24;13 N alternative_donor chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 135;73 K jcn_only_AA CUFF.1001 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 29;25 K alternative_first_exon CUFF.973,CUFF.987 chr3 - chr3:156271571-156272525;chr3:156271571-156271781 chr3:156271571-156272745 chr3:156272526-156272669;chr3:156271782-156271925 chr3:156272746-156272973 160;122 K intron_retention CUFF.940 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 569;71 N alternative_acceptor CUFF.970 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 171;3 N jcn_only_AA CUFF.954 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 5;32 N alternative_first_exon CUFF.942 chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49355742-49356182;chr3:49362135-49362196 chr3:49351304-49351558 81;311 K intron_retention chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 268;31 K alternative_last_exon CUFF.967 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120351994-120352175 chr3:120352182-120352437 203;38 K intron_retention CUFF.973 chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 366;180 K intron_retention CUFF.940 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 384;37 N jcn_only_AA chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 63;21 K intron_retention CUFF.996 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 141;40 K alternative_first_exon CUFF.971 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 chr3:125639668-125639748 chr3:125642774-125642983 57;55 N alternative_last_exon CUFF.967 chr3 - chr3:120389380-120394638 chr3:120393837-120394638 chr3:120389274-120389379 chr3:120393442-120393836 36;745 N alternative_donor CUFF.987 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 379;17 N cassette CUFF.958 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 281;992 K intron_retention CUFF.936 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 62;32 N cassette CUFF.971 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 6;104 K alternative_first_exon CUFF.950 chr3 - chr3:73453547-73482789,chr3:73453547-73610601,chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73523605 chr3:73453547-73618301 chr3:73605851-73606171;chr3:73523606-73523851 chr3:73618302-73618625 156;15 N alternative_donor CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 691;392 K alternative_acceptor CUFF.1001 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 29;25 N jcn_only_AD chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 20;356 N jcn_only_AD chr3 - chr3:107574077-107574854;chr3:107574077-107574159 chr3:107574077-107575926 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 64;207 N jcn_only_AD CUFF.977 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 112;21 K alternative_first_exon CUFF.946 chr3 + chr3:51743450-51746488 chr3:51745736-51746488 chr3:51742864-51743449 chr3:51745193-51745735 411;4926 N jcn_only_AA CUFF.996 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 141;18 N alternative_acceptor CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 609;20 N alternative_donor CUFF.962 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 234;13 K intron_retention CUFF.936 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 47;34 N jcn_only_AD CUFF.962 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 23;31 N alternative_donor CUFF.969 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 20;35 K jcn_only_AA CUFF.965 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 24;197 K alternative_acceptor CUFF.930 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 23;391 K intron_retention CUFF.930 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 110;39 K alternative_first_exon CUFF.924 chr3 - chr3:27394411-27409013;chr3:27394411-27410715 chr3:27394411-27410521 chr3:27410716-27411016 chr3:27410522-27410621 85;7 N alternative_donor CUFF.950 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 113;19 N alternative_donor CUFF.931,CUFF.940 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 121;16 N alternative_acceptor chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 9;131 K intron_retention CUFF.955 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 chr3:97662070-97662414;chr3:97663678-97663807 5;49 K cassette CUFF.975 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 14;174 K intron_retention CUFF.950 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 15;200 N alternative_donor CUFF.936 chr3 - chr3:38061844-38065827;chr3:38061844-38065646 chr3:38061844-38070996 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 167;22 N cassette CUFF.976 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 19;233 N alternative_acceptor CUFF.926 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 183;108 N jcn_only_AA CUFF.967 chr3 - chr3:120396839-120400943;chr3:120394711-120400943 chr3:120396877-120400943 336;12 N alternative_donor CUFF.987 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 398;41 N alternative_acceptor CUFF.976 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 119;56 N jcn_only_AA CUFF.958 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107567966-107575926 chr3:107574077-107575926 92;207 K jcn_only_AA CUFF.981 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 17;151 N jcn_only_AA CUFF.970 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 171;3 K alternative_first_exon CUFF.950 chr3 - chr3:73453547-73482789,chr3:73453547-73610601,chr3:73453547-73651504;chr3:73453547-73618301;chr3:73453547-73523605 chr3:73453547-73605850 chr3:73618302-73618625;chr3:73523606-73523851 chr3:73605851-73606171 109;62 N cassette CUFF.942 chr3 - chr3:49348171-49362134 chr3:49348171-49348946;chr3:49349088-49362134 chr3:49348947-49349087 8;315 N jcn_only_AD CUFF.991 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 127;26 K intron_retention CUFF.930 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 96;95 N alternative_acceptor CUFF.924 chr3 - chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27409053 chr3:27394410-27394411 31;6 K intron_retention CUFF.946 chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 19;148 N cassette CUFF.971 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 3;170 N jcn_only_AD CUFF.987 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 366;10 N alternative_donor CUFF.958 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 248;111 K cassette CUFF.931 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 12;447 N jcn_only_AA CUFF.947 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 161;13 N alternative_donor chr3 - chr3:107574077-107574854;chr3:107574077-107574159 chr3:107574077-107575926 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 152;207 N jcn_only_AD CUFF.962 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 84;13 N jcn_only_AD CUFF.958 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 225;46 K intron_retention CUFF.947 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 31;341 N alternative_donor CUFF.969 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 46;9 N cassette CUFF.973 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 13;2308 N alternative_donor chr3 - chr3:156262229-156266593;chr3:156262229-156266654 chr3:156262229-156266693 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 40;356 N alternative_donor chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 99;85 N jcn_only_AD CUFF.958 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 253;18 N alternative_acceptor CUFF.947 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 193;17 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27257966 5;34 N alternative_donor CUFF.926 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 244;14 K alternative_donor CUFF.961 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 21;33 N cassette CUFF.958 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 229;1111 N jcn_only_AA CUFF.926 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 172;15 N jcn_only_AA CUFF.947 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 80;94 N jcn_only_AA CUFF.975 chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 62;13 K alternative_acceptor CUFF.965 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 24;394 N alternative_donor CUFF.942 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 112;72 N intron_retention chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 83;517 N jcn_only_AA CUFF.923 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 225;13 N mutually_exclusive CUFF.947 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 62;72 N alternative_acceptor CUFF.988 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 37;9 K alternative_first_exon CUFF.946 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741011-51741183 chr3:51741410-51741670 33;200 K intron_retention CUFF.981 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 43;63 K jcn_only_AA CUFF.1002 chr3 - chr3:196214450-196229743 chr3:196215555-196229743 12;2 N jcn_only_AD CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 297;139 N jcn_only_AA chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 28;48 N jcn_only_AA CUFF.958 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 258;235 N jcn_only_AD CUFF.970 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 175;6 N alternative_donor CUFF.926 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 90;168 K intron_retention CUFF.940 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 87;102 K alternative_first_exon CUFF.930 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 210;93 N jcn_only_AD chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 chr3:107568670-107572719;chr3:107572720-107575926 chr3:107572719-107572720;chr3:107575926-107575927 72;27 K alternative_last_exon CUFF.946,CUFF.951 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501780 617;14 K cassette CUFF.988 chr3 - chr3:165491295-165503932 chr3:165491295-165495504;chr3:165495584-165503932 chr3:165495505-165495583 207;24 N jcn_only_AD CUFF.950 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 113;13 K intron_retention CUFF.969 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 16;11 K alternative_acceptor CUFF.983 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 187;178 K intron_retention CUFF.936 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 26;47 N jcn_only_AD CUFF.936 chr3 - chr3:38061844-38065827;chr3:38061844-38065646 chr3:38061844-38070996 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 37;22 K cassette CUFF.981 chr3 - chr3:133894884-133901845 chr3:133894884-133896784;chr3:133896918-133901845 chr3:133896785-133896917 192;161 N jcn_only_AD CUFF.926 chr3 + chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283393-28295256 chr3:28283392-28283393 24;12 N alternative_donor CUFF.977 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 31;91 N cassette CUFF.942 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 12;148 K coord_cassette CUFF.958 chr3 - chr3:107595034-107596748 chr3:107595034-107595281;chr3:107595379-107596159;chr3:107596345-107596748 chr3:107595282-107595378;chr3:107596160-107596344 281;753 N jcn_only_AD CUFF.975 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 37;27 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 9;13 N alternative_donor CUFF.967 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 10;96 N coord_cassette CUFF.983 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 21;499 N jcn_only_AA CUFF.975 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 67;8 N jcn_only_AD CUFF.942,CUFF.987 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 366;10 N cassette CUFF.923 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 58;69 N alternative_donor CUFF.917 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 248;81 N jcn_only_AA CUFF.967 chr3 - chr3:120396877-120400943;chr3:120394711-120400943 chr3:120396839-120400943 340;8 N jcn_only_AA CUFF.926 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 183;4 K intron_retention CUFF.945 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 50;56 N alternative_donor CUFF.962 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 166;81 N cassette CUFF.945 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 7;220 N jcn_only_AD CUFF.977 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 31;62 K intron_retention CUFF.940 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 88;24 K cassette CUFF.967 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 132;275 K alternative_acceptor CUFF.945 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 50;49 N jcn_only_AA CUFF.958 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 17;30 N alternative_acceptor CUFF.917 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 580;49 N jcn_only_AA CUFF.988 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 37;9 N alternative_acceptor CUFF.947 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 111;99 N jcn_only_AD CUFF.977 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 37;96 N jcn_only_AD CUFF.970 chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 10;171 N jcn_only_AA CUFF.945 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 10;67 N coord_cassette CUFF.926 chr3 + chr3:28333446-28357823 chr3:28333446-28334226;chr3:28334456-28335924;chr3:28336018-28357823 chr3:28334227-28334455;chr3:28335925-28336017 5;1183 N alternative_last_exon CUFF.961,CUFF.962 chr3 + chr3:119196296-119197180;chr3:119196296-119198897 chr3:119196296-119198754 chr3:119198898-119199019 chr3:119198755-119198866 67;13 N jcn_only_AA CUFF.981 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 81;35 K jcn_only_AA CUFF.967 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 6;134 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 11;45 N alternative_acceptor chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 28;111 K alternative_first_exon CUFF.965 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119499331-119501147 chr3:119501494-119501699 233;78 N jcn_only_AA CUFF.976 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 119;28 N jcn_only_AA CUFF.942 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 41;198 N coord_cassette CUFF.983 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 42;457 N coord_cassette CUFF.958 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814 chr3:107585499-107585600;chr3:107586158-107586272 229;311 N jcn_only_AA CUFF.917 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 69;310 K intron_retention CUFF.930 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 27;98 N jcn_only_AA CUFF.973 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 147;122 N alternative_acceptor CUFF.969 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 11;73 N jcn_only_AA chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 21;54 N coord_cassette CUFF.958 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814 chr3:107585499-107585600;chr3:107586158-107586424 229;393 K intron_retention CUFF.973 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 147;50 N cassette CUFF.975 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 79;112 N cassette CUFF.931 chr3 - chr3:33602464-33612218 chr3:33602464-33612181;chr3:33612185-33612218 chr3:33612182-33612184 10;104 K intron_retention CUFF.916 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 130;11 N jcn_only_AA CUFF.976 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 37;15 N coord_cassette CUFF.976 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 6;301 N jcn_only_AA chr3 + chr3:51741184-51749077 chr3:51741184-51742863 13;23 N mutually_exclusive CUFF.931 chr3 - chr3:33602464-33612181,chr3:33612185-33612218 chr3:33602464-33605455,chr3:33605459-33612218 chr3:33612182-33612184 chr3:33605456-33605458 104;12 N alternative_first_exon CUFF.942 chr3 - chr3:49349088-49355741;chr3:49349088-49351303 chr3:49349088-49362134 chr3:49355742-49356182;chr3:49351304-49351558 chr3:49362135-49362196 388;4 N alternative_acceptor CUFF.975 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 266;8 K jcn_only_AD CUFF.973 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 12;147 N alternative_acceptor CUFF.975 chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 257;17 N jcn_only_AA CUFF.947 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 107;67 N jcn_only_AD CUFF.983 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 225;16 N intron_retention chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 29;105 K jcn_only_AA CUFF.986 chr3 - chr3:155520381-155523927 chr3:155523513-155523927 52;61 K cassette CUFF.970 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 22;143 N jcn_only_AA CUFF.931 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 62;26 K cassette CUFF.964 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 54;138 N intron_retention chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 26;118 N jcn_only_AA CUFF.996 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 115;4 N jcn_only_AD CUFF.969 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 19;11 K intron_retention CUFF.937 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 4;16 N jcn_only_AD CUFF.962 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 52;45 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838228 11;236 K jcn_only_AA CUFF.983 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 187;178 K cassette CUFF.931 chr3 - chr3:33614847-33617660 chr3:33614847-33615964;chr3:33615989-33617660 chr3:33615965-33615988 340;38 N cassette CUFF.986 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 10;302 N cassette CUFF.958 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 229;633 N jcn_only_AA CUFF.967 chr3 - chr3:120396839-120400943;chr3:120396877-120400943 chr3:120394711-120400943 20;328 N cassette CUFF.958 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 158;1114 N alternative_acceptor CUFF.958 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 936;32 N jcn_only_AD CUFF.962 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 58;39 N alternative_donor CUFF.917 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 32;61 N cassette CUFF.947 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 78;275 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 3;8 K alternative_first_exon CUFF.987 chr3 - chr3:156271571-156272745;chr3:156271571-156271781 chr3:156271571-156272525 chr3:156272746-156272973;chr3:156271782-156271925 chr3:156272526-156272669 212;70 K jcn_only_AA CUFF.969 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 19;38 N alternative_donor CUFF.931,CUFF.942 chr3 - chr3:33617768-33623312 chr3:33617768-33618693 chr3:33618694-33623312 chr3:33623312-33623313 33;19 K intron_retention CUFF.924 chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 13;17 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 32;54 K alternative_first_exon CUFF.948 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 chr3:68055621-68055887 chr3:68299942-68300061 47;78 N coord_cassette CUFF.949 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 12;797 N alternative_acceptor CUFF.975 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 62;334 N mutually_exclusive CUFF.983 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 9;9 N alternative_donor CUFF.931,CUFF.949 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 62;8 N alternative_donor CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 800;283 K intron_retention CUFF.936 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 50;47 K cassette CUFF.940 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 64;18 N cassette CUFF.942 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 81;143 N alternative_acceptor CUFF.945 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 10;77 N alternative_donor CUFF.962 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 23;58 N alternative_donor CUFF.970 chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 12;231 N cassette CUFF.973 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 28;362 N jcn_only_AD CUFF.926 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 24;168 K alternative_first_exon CUFF.969 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122785909-122786053 chr3:122786127-122786422 6;177 N alternative_acceptor CUFF.926 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 276;15 N cassette CUFF.996 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 50;345 N jcn_only_AD CUFF.933 chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 403;33 N alternative_acceptor CUFF.976 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 37;184 K alternative_first_exon CUFF.967,CUFF.987 chr3 - chr3:120394711-120400943 chr3:120394711-120396750 chr3:120400944-120401447 chr3:120396751-120396838 820;35 K alternative_donor CUFF.973 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 12;331 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 9;17 K alternative_first_exon CUFF.947 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583366-57583531 chr3:57583059-57583231 62;102 N alternative_acceptor CUFF.958 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 282;686 K intron_retention CUFF.962 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 46;21 N alternative_donor CUFF.936 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 36;32 K jcn_only_AA CUFF.930 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 23;361 K alternative_first_exon CUFF.947,CUFF.954 chr3 - chr3:93646252-93647545;chr3:93646252-93692517,chr3:93646252-93692406 chr3:93646252-93677354 chr3:93692518-93692910 chr3:93677355-93677447 512;22 K alternative_first_exon CUFF.973 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125797816,chr3:125787090-125802771;chr3:125787090-125802935,chr3:125787090-125802896 chr3:125787090-125802718 chr3:125802936-125803134 chr3:125802719-125802751 753;42 N alternative_donor CUFF.942,CUFF.987 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 373;23 K alternative_first_exon CUFF.996 chr3 + chr3:186649184-186681572,chr3:186666727-186681572,chr3:186660216-186681572;chr3:186648624-186681572 chr3:186648928-186681572 chr3:186648274-186648623 chr3:186648831-186648927 415;134 N alternative_first_exon CUFF.962 chr3 + chr3:119196296-119198754 chr3:119197322-119198754 chr3:119196160-119196295 chr3:119196896-119197321 18;5523 N alternative_acceptor chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 56;43 N alternative_acceptor chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 70;29 K cassette CUFF.996 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 918;241 K alternative_last_exon CUFF.961 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049165 85;19 K cassette CUFF.964 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 19;26 N alternative_donor CUFF.842 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 371;190 N jcn_only_AA CUFF.799 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 chr2:169787175-169787372;chr2:169783666-169783800 4;24 K alternative_first_exon CUFF.759,CUFF.772 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61765626;chr2:61761039-61764153;chr2:61761039-61763844;chr2:61761039-61763336 chr2:61761039-61764696 chr2:61764154-61764282;chr2:61763845-61763845;chr2:61763337-61763817 chr2:61764697-61765418 425;58 N alternative_donor CUFF.842 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 857;13 K alternative_first_exon CUFF.831 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094680-220094680;chr2:220094479-220094622 chr2:220094702-220094702 335;8 K alternative_acceptor CUFF.727 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 543;39 N jcn_only_AD CUFF.823 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 98;5 N jcn_only_AD chr2 - chr2:263373-263563;chr2:263373-264083 chr2:263373-264781 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 93;29 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 16;289 K alternative_acceptor CUFF.780 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 5;579 K intron_retention CUFF.774 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 51;82 K alternative_last_exon CUFF.791 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732675-166732742 chr2:166736138-166736477 34;78 N jcn_only_AA CUFF.799 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 6;6 N alternative_first_exon CUFF.813 chr2 + chr2:191300056-191300702;chr2:191298119-191300702 chr2:191273230-191300702 chr2:191299967-191300055;chr2:191298053-191298118 chr2:191273081-191273229 81;21 K intron_retention CUFF.840 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 60;54 N jcn_only_AA CUFF.731,CUFF.836 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 376;28 N alternative_acceptor CUFF.747 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 748;11 K alternative_donor CUFF.761 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 128;124 K jcn_only_AD CUFF.778 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 200;60 N alternative_donor CUFF.744 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 79;5 N jcn_only_AA CUFF.839 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 282;15 N alternative_acceptor chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 763;35 N jcn_only_AA CUFF.836 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 82;46 K alternative_first_exon CUFF.742 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194425-25194512;chr2:25194687-25194963 chr2:25194285-25194377 2713;90 N alternative_donor CUFF.842 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 26;844 N jcn_only_AD CUFF.749 chr2 + chr2:38177739-38201182;chr2:38156873-38201182 chr2:38179345-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 81;17 N alternative_donor CUFF.840 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 190;321 K alternative_acceptor CUFF.772 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 34;161 K cassette CUFF.789 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 196;1294 N jcn_only_AA CUFF.759 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 30;8 N alternative_acceptor CUFF.780,CUFF.826 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 44;8 N alternative_donor CUFF.822 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 188;6 N jcn_only_AA CUFF.767 chr2 - chr2:73228704-73247367 chr2:73228708-73247367 chr2:73228704-73228707 chr2:73228703-73228704 15;355 K jcn_only_AA CUFF.805 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 110;23 N cassette CUFF.767 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 29;144 K alternative_donor CUFF.759,CUFF.761 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 139;113 N alternative_donor CUFF.842 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 283;278 N jcn_only_AD CUFF.822 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 76;5 N alternative_donor chr2 - chr2:234273-242797;chr2:234273-243502 chr2:234273-247537 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 175;320 N alternative_acceptor chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 579;219 N alternative_acceptor chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 28;15 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 16;87 N mutually_exclusive CUFF.819 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 72;137 N jcn_only_AD CUFF.725 chr2 - chr2:234273-247537;chr2:234273-243502 chr2:234273-242797 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 355;137 K alternative_first_exon CUFF.759 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61765626;chr2:61761039-61764696;chr2:61761039-61763844;chr2:61761039-61763336 chr2:61761039-61764153 chr2:61764697-61765418;chr2:61763845-61763845;chr2:61763337-61763817 chr2:61764154-61764282 415;68 K jcn_only_AD CUFF.759,CUFF.761 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 77;20 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 5;32 N jcn_only_AA CUFF.842 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 844;14 K alternative_acceptor CUFF.826 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 15;22 N alternative_donor CUFF.730 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 60;128 K intron_retention CUFF.809 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 123;26 K intron_retention CUFF.780 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 9;67 K intron_retention CUFF.839 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 277;59 K alternative_donor CUFF.778 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 200;60 K intron_retention CUFF.822 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 185;14 K alternative_first_exon CUFF.731 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469368-3469466 chr2:3476279-3476373 211;57 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 37;83 K intron_retention CUFF.840 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 226;45 N jcn_only_AD CUFF.731 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 359;22 N jcn_only_AD chr2 - chr2:242872-244626;chr2:242872-243502 chr2:242872-247537 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 61;55 K cassette CUFF.740 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 10;36 N cassette CUFF.840 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 33;864 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 4;10 N alternative_donor CUFF.730 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 103;82 N jcn_only_AA CUFF.749 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 291;15 N jcn_only_AD CUFF.749 chr2 + chr2:38179345-38201182;chr2:38156873-38201182 chr2:38177739-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 44;54 N cassette CUFF.796 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 25;403 K cassette CUFF.836 chr2 + chr2:232026224-232029913 chr2:232026224-232028348;chr2:232028442-232029913 chr2:232028349-232028441 20;99 N jcn_only_AA CUFF.725 chr2 - chr2:242872-247537;chr2:244739-247537;chr2:243563-247537 chr2:234273-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 157;320 N alternative_donor CUFF.789 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 76;20 N alternative_donor CUFF.780 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 44;14 N alternative_donor CUFF.725 chr2 - chr2:234273-247537;chr2:234273-242797 chr2:234273-243502 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 459;36 N jcn_only_AA CUFF.725 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 50;9 K intron_retention CUFF.840 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 399;290 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 14;56 K coord_cassette CUFF.829 chr2 + chr2:219433702-219445283 chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283 chr2:219438444-219438514;chr2:219438714-219438956 250;337 K intron_retention CUFF.831 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 53;69 K intron_retention CUFF.771 chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 chr2:79362629-79362889;chr2:79363091-79363202 12;49 N cassette CUFF.810 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 8;119 N jcn_only_AD CUFF.725 chr2 - chr2:234273-247537;chr2:234273-242797 chr2:234273-243502 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 457;35 K alternative_last_exon CUFF.745 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732658 82;47 N alternative_acceptor CUFF.729 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 73;686 K alternative_donor CUFF.761 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 237;15 N jcn_only_AD CUFF.805 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 110;37 K alternative_first_exon CUFF.767 chr2 - chr2:73285726-73286222,chr2:73285726-73298168;chr2:73285726-73298732;chr2:73285726-73297588;chr2:73285726-73302708 chr2:73285726-73286136 chr2:73298733-73298942;chr2:73297589-73298458;chr2:73302709-73302841 chr2:73286137-73286301 2598;139 N alternative_acceptor CUFF.805 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 140;450 N cassette CUFF.791 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 5;47 K alternative_last_exon CUFF.796 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169713200-169713288 chr2:169712396-169712484 392;51 K coord_cassette CUFF.778 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 3;324 N jcn_only_AA CUFF.729 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 47;257 N alternative_donor CUFF.746 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31440322-31449393 chr2:31449393-31449394 42;11 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 4;37 K intron_retention CUFF.831 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 67;58 N jcn_only_AA CUFF.811 chr2 - chr2:177497854-177502189 chr2:177498469-177502189 chr2:177497854-177498468 chr2:177497853-177497854 31;13 N alternative_last_exon chr2 + chr2:191273230-191300702 chr2:191273230-191280017 chr2:191300703-191301399 chr2:191280018-191280139 57;23 N alternative_donor chr2 - chr2:242872-244626;chr2:242872-243502 chr2:242872-247537 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 64;55 K intron_retention CUFF.840 chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 37;37 K alternative_acceptor CUFF.836 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 307;74 N coord_cassette CUFF.842 chr2 + chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522;chr2:242598603-242606059 chr2:242594686-242594758;chr2:242598523-242598602 14;1035 N alternative_donor CUFF.788 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 9;7 K intron_retention CUFF.822 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 138;56 N cassette CUFF.819 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 76;218 N jcn_only_AA CUFF.784 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 15;21 K alternative_first_exon CUFF.727 chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288553-288562 chr2:288013-288296 38;49 K intron_retention CUFF.784 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 80;36 K jcn_only_AA CUFF.819 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 27;558 K intron_retention CUFF.784 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 158;33 K jcn_only_AA CUFF.727 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 543;39 N jcn_only_AD CUFF.796 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 373;8 K alternative_first_exon CUFF.778 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549372-101549463 chr2:101550525-101550622 401;107 N jcn_only_AD CUFF.842 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 24;278 N cassette CUFF.747 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 33;1164 N cassette CUFF.767 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 11;641 N alternative_donor CUFF.822 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 37;157 N alternative_acceptor CUFF.784 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 154;8 K cassette CUFF.816 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 37;36 N coord_cassette CUFF.842 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 14;794 N alternative_donor CUFF.725 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 392;370 N coord_cassette CUFF.831 chr2 + chr2:220094623-220097211 chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211 chr2:220096650-220096762;chr2:220096982-220097084 55;522 K alternative_first_exon CUFF.742 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194377;chr2:25194687-25194963 chr2:25194425-25194512 2722;81 K alternative_last_exon CUFF.819 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204259068-204259812 chr2:204306194-204306803 119;788 N jcn_only_AD CUFF.767 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 48;39 N jcn_only_AA CUFF.725 chr2 - chr2:234273-247537;chr2:244739-247537;chr2:243563-247537 chr2:242872-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 422;55 K intron_retention CUFF.754 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 114;375 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 13;48 N jcn_only_AA chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 82;224 K intron_retention CUFF.842 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 392;31 N alternative_acceptor CUFF.788 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 9;6 K alternative_first_exon CUFF.839 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241394438-241398446 chr2:241397535-241398446 chr2:241392425-241392511;chr2:241396836-241396886;chr2:241394398-241394437 chr2:241397344-241397534 144;234 N alternative_acceptor CUFF.759 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 30;1005 K intron_retention CUFF.759 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 204;29 K intron_retention CUFF.842 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 254;70 N intron_retention CUFF.840 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 7;39 K mutually_exclusive CUFF.772 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 7;34 N alternative_acceptor CUFF.799 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 chr2:169787175-169787372;chr2:169783666-169783800 4;40 N alternative_donor CUFF.747 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 314;33 K cassette CUFF.817 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 14;240 N alternative_donor chr2 - chr2:263373-263563;chr2:263373-264083 chr2:263373-264781 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 205;29 K intron_retention CUFF.826 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 15;30 N cassette CUFF.831 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981 chr2:220096650-220096762 157;425 N jcn_only_AD CUFF.840 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 270;116 K coord_cassette CUFF.759 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 15;370 K coord_cassette CUFF.819 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 37;117 K alternative_last_exon CUFF.731 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3464034-3464107 chr2:3461566-3461916 253;165 N jcn_only_AD CUFF.822 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 71;10 N alternative_donor CUFF.730 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 110;75 N jcn_only_AA CUFF.784 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 154;8 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 25;42 N cassette CUFF.767 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 107;75 K coord_cassette CUFF.735 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 5;904 N jcn_only_AD CUFF.759 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 390;27 K alternative_acceptor CUFF.780 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 19;267 N coord_cassette CUFF.789 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 7;28 K intron_retention CUFF.837 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 44;84 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 132;54 N jcn_only_AA CUFF.731 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 387;17 K intron_retention CUFF.810 chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 14;65 K intron_retention CUFF.744 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 493;51 N jcn_only_AD CUFF.842 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 857;12 N jcn_only_AD CUFF.788 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 9;6 K intron_retention CUFF.796 chr2 + chr2:169712721-169713199 chr2:169712720-169712721;chr2:169713199-169713200 35;7 N jcn_only_AA chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 71;35 N alternative_donor CUFF.730 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 157;28 N alternative_donor CUFF.823 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 128;354 N jcn_only_AD CUFF.746,CUFF.774 chr2 - chr2:31423492-31424999 chr2:31423492-31424727 chr2:31424728-31424999 chr2:31424999-31425000 50;9 N jcn_only_AD CUFF.842 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 856;13 N jcn_only_AA CUFF.747 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 293;11 N cassette CUFF.819 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 110;151 N cassette CUFF.842 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 26;829 K intron_retention CUFF.831 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 77;132 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 6;9 N alternative_donor CUFF.725 chr2 - chr2:234273-247537;chr2:234273-243502 chr2:234273-242797 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 356;139 N jcn_only_AD chr2 - chr2:11587901-11593707;chr2:11587901-11591327 chr2:11587901-11590137 158;187 N cassette CUFF.789 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 229;59 K cassette CUFF.741 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 8;179 N jcn_only_AA CUFF.744 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 17;55 K intron_retention CUFF.744 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 97;34 N jcn_only_AD CUFF.778 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 22;10 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 632;95 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 16;9 K alternative_first_exon CUFF.796 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711862-169711970 chr2:169712622-169712720 440;35 N jcn_only_AD CUFF.730 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 97;4 K alternative_last_exon CUFF.745,CUFF.829 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458831-219461803 chr2:219458251-219458568 1453;151 K intron_retention CUFF.744 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 51;46 N alternative_acceptor CUFF.730 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 54;366 N cassette CUFF.744 chr2 - chr2:27676381-27676848 chr2:27676381-27676496;chr2:27676607-27676848 chr2:27676497-27676606 107;105 N alternative_acceptor CUFF.842 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 844;24 K jcn_only_AA CUFF.735 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 22;166 K coord_cassette CUFF.735 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007227-4007505 chr2:4006842-4006985;chr2:4007154-4007226 5;519 K jcn_only_AA CUFF.772 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 34;156 K alternative_first_exon CUFF.759 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61765626;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61763844 chr2:61761039-61763336 chr2:61764697-61765418;chr2:61764154-61764282;chr2:61763845-61763845 chr2:61763337-61763817 204;279 N jcn_only_AD CUFF.822 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 78;3 N jcn_only_AD CUFF.822 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 18;63 N jcn_only_AA CUFF.725 chr2 - chr2:242872-247537;chr2:234273-247537;chr2:244739-247537 chr2:243563-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 384;93 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 24;88 K jcn_only_AA CUFF.773 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 34;41 K cassette CUFF.778 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 96;99 K jcn_only_AA CUFF.771 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 chr2:79365093-79365202;chr2:79364350-79364463 96;107 K cassette CUFF.809 chr2 - chr2:175711686-175742567 chr2:175711686-175740515;chr2:175740594-175742567 chr2:175740516-175740593 21;249 N alternative_donor CUFF.731 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 359;58 N alternative_last_exon chr2 - chr2:260898-262630;chr2:253116-262630 chr2:260703-262630 chr2:253005-253115 chr2:259420-260702 117;141 N jcn_only_AD CUFF.780 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 464;35 K alternative_first_exon CUFF.742 chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194425-25194512;chr2:25194285-25194377 chr2:25194687-25194963 171;2632 N jcn_only_AD CUFF.780 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 36;80 K intron_retention CUFF.759 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 46;44 N jcn_only_AD CUFF.842 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 25;844 K intron_retention CUFF.771 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 chr2:79365093-79365202;chr2:79365498-79365633 154;157 N alternative_donor chr2 - chr2:242872-247537;chr2:242872-243502 chr2:242872-244626 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 108;11 K alternative_last_exon CUFF.745 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27726381-27726486 chr2:27724557-27724700 54;25 N alternative_acceptor chr2 + chr2:3464108-3464417;chr2:3464108-3466628 chr2:3464108-3469367 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 81;359 N coord_cassette CUFF.730 chr2 + chr2:1168870-1215567 chr2:1168870-1204788;chr2:1204917-1206142;chr2:1206366-1215567 chr2:1204789-1204916;chr2:1206143-1206365 25;356 N alternative_first_exon CUFF.813 chr2 + chr2:191273230-191300702;chr2:191298119-191300702 chr2:191300056-191300702 chr2:191273081-191273229;chr2:191298053-191298118 chr2:191299967-191300055 45;57 K alternative_first_exon CUFF.725,CUFF.823 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031718-208031853 chr2:208030637-208030969 chr2:208030191-208030430 63;322 N intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 51;9 K intron_retention CUFF.772 chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 4;14 K cassette CUFF.747 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 620;246 N alternative_acceptor CUFF.799 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 6;39 N intron_retention CUFF.725 chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 74;26 K alternative_first_exon CUFF.831 chr2 + chr2:220094703-220094949;chr2:220094623-220094949 chr2:220094681-220094949 chr2:220094702-220094702;chr2:220094479-220094622 chr2:220094680-220094680 325;18 N intron_retention chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 51;109 N alternative_acceptor CUFF.725 chr2 - chr2:242872-247537;chr2:244739-247537;chr2:243563-247537 chr2:234273-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 851;320 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 16;132 K cassette CUFF.772 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398469-86400772 chr2:86398331-86398468 4;117 K coord_cassette CUFF.738 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 92;132 K jcn_only_AA CUFF.780 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 19;22 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 16;289 N alternative_acceptor CUFF.749 chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 461;67 K alternative_first_exon CUFF.831 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094680-220094680;chr2:220094702-220094702 chr2:220094479-220094622 26;317 K intron_retention CUFF.831 chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 132;117 K alternative_first_exon CUFF.764 chr2 - chr2:69870407-69870874;chr2:69870407-69901154;chr2:69870407-69870923 chr2:69870407-69870706 chr2:69901155-69901251;chr2:69870924-69871018 chr2:69870707-69870786 92;38 K cassette CUFF.741 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 8;102 N alternative_acceptor CUFF.749 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 498;30 K alternative_first_exon CUFF.767 chr2 - chr2:73285726-73286222,chr2:73285726-73298168;chr2:73285726-73286136;chr2:73285726-73298732;chr2:73285726-73297588 chr2:73285726-73302708 chr2:73286137-73286301;chr2:73298733-73298942;chr2:73297589-73298458 chr2:73302709-73302841 2634;103 N cassette CUFF.842 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 642;411 K intron_retention CUFF.776 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 6;50 K intron_retention CUFF.727 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 363;26 N intron_retention chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 34;9 N jcn_only_AD chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 21;4 N jcn_only_AD chr2 - chr2:242872-247537;chr2:242872-243502 chr2:242872-244626 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 106;10 K intron_retention CUFF.826 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 5;32 K cassette CUFF.731 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 293;71 N alternative_acceptor CUFF.744 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 17;130 N alternative_acceptor CUFF.747 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 697;62 N alternative_last_exon CUFF.725 chr2 - chr2:262787-263210,chr2:262751-263210;chr2:253116-263210 chr2:260703-263210 chr2:253005-253115 chr2:259420-260702 93;1588 K intron_retention CUFF.749 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 205;24 N coord_cassette CUFF.826 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 11;38 N jcn_only_AD CUFF.746 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31440322-31449393 chr2:31449393-31449394 42;5 N jcn_only_AA CUFF.809 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 22;123 N alternative_donor CUFF.842 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 857;13 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 11;66 N jcn_only_AD CUFF.842 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 293;9 N cassette CUFF.842 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 558;645 N jcn_only_AA CUFF.788 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 9;5 N cassette CUFF.780 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 8;56 N alternative_donor CUFF.824 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 22;402 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 19;774 N cassette CUFF.840 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 63;1873 N jcn_only_AA CUFF.780,CUFF.826 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 44;8 K alternative_first_exon CUFF.764 chr2 - chr2:69870407-69870874;chr2:69870407-69870923;chr2:69870407-69870706 chr2:69870407-69901154 chr2:69870924-69871018;chr2:69870707-69870786 chr2:69901155-69901251 71;59 N alternative_donor CUFF.759 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 390;370 N intron_retention CUFF.784 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 3;10 K alternative_first_exon CUFF.839 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241396887-241398446 chr2:241392425-241392511;chr2:241394398-241394437;chr2:241397344-241397534 chr2:241396836-241396886 372;6 K alternative_first_exon CUFF.774 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893659 43;148 N jcn_only_AD CUFF.727 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 3;35 K alternative_first_exon CUFF.839 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241397535-241398446 chr2:241394438-241398446 chr2:241392425-241392511;chr2:241396836-241396886;chr2:241397344-241397534 chr2:241394398-241394437 365;13 K alternative_first_exon CUFF.789 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585520-160585686 chr2:160590499-160590593 737;8 N jcn_only_AD CUFF.749 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 224;16 K intron_retention CUFF.842 chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 278;180 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 42;9 K cassette CUFF.730 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 12;111 K alternative_last_exon CUFF.807 chr2 - chr2:175234743-175243650;chr2:175216454-175243650 chr2:175223265-175243650 chr2:175216347-175216453 chr2:175222893-175223264 29;57 N alternative_donor chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 21;11 N cassette CUFF.725 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 133;130 K coord_cassette CUFF.809 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 14;308 K intron_retention CUFF.735 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 166;319 K cassette CUFF.725 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 150;736 N cassette CUFF.767 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 35;1004 N alternative_donor CUFF.822 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 168;26 N alternative_acceptor chr2 - chr2:234273-243502;chr2:242177-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 254;544 K intron_retention CUFF.744 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 26;7 N alternative_acceptor CUFF.725 chr2 - chr2:242872-247537;chr2:234273-247537;chr2:243563-247537 chr2:244739-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 1116;55 K intron_retention CUFF.784 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 5;19 K intron_retention CUFF.831 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 91;73 K alternative_first_exon CUFF.814 chr2 + chr2:191334376-191334483;chr2:191307732-191334483 chr2:191302288-191334483 chr2:191334192-191334375;chr2:191307281-191307731 chr2:191302071-191302287 422;22 N jcn_only_AD chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 80;42 N alternative_acceptor CUFF.784 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 80;166 N alternative_acceptor CUFF.725 chr2 - chr2:242872-247537;chr2:234273-247537;chr2:244739-247537 chr2:243563-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 672;499 N cassette CUFF.831 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095073-220096649 chr2:220094950-220095072 60;352 K coord_cassette CUFF.809 chr2 - chr2:175711686-175779785 chr2:175711686-175740515;chr2:175740594-175742567;chr2:175742857-175779785 chr2:175740516-175740593;chr2:175742568-175742856 131;465 K jcn_only_AD CUFF.772 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 178;72 K jcn_only_AD CUFF.761 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 82;15 K intron_retention CUFF.728 chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 39;93 K alternative_first_exon CUFF.838 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476389-237476484 chr2:237478267-237478567 29;85 N mutually_exclusive CUFF.810 chr2 - chr2:177041421-177042438,chr2:177042550-177042730 chr2:177041421-177042059,chr2:177042223-177042730 chr2:177042439-177042549 chr2:177042060-177042222 32;220 K intron_retention CUFF.796 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 392;26 N jcn_only_AA CUFF.747 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 17;13 K alternative_last_exon CUFF.776 chr2 + chr2:99232810-99234630 chr2:99232810-99232894 chr2:99234631-99234978 chr2:99232895-99232996 75;112 K jcn_only_AD CUFF.786 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 6;19 K cassette CUFF.742 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 161;1610 K intron_retention CUFF.728 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 49;131 K intron_retention CUFF.767 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 281;16 K alternative_first_exon CUFF.759 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61765626;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61763336 chr2:61761039-61763844 chr2:61764697-61765418;chr2:61764154-61764282;chr2:61763337-61763817 chr2:61763845-61763845 468;15 K intron_retention CUFF.831 chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 18;205 K mutually_exclusive CUFF.789 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 1570;430 K intron_retention CUFF.840 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 200;90 K cassette CUFF.829 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 50;148 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 19;204 N alternative_donor CUFF.730 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 48;31 N alternative_acceptor CUFF.811 chr2 - chr2:177497854-177502189 chr2:177498469-177502189 chr2:177497854-177498468 chr2:177497853-177497854 31;27 N cassette CUFF.842 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 14;1032 K cassette CUFF.772 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 4;267 N cassette CUFF.840 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 76;540 K alternative_first_exon CUFF.761,CUFF.824 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089620 51;388 N jcn_only_AD CUFF.744 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 79;5 N jcn_only_AD CUFF.747 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 314;33 K intron_retention CUFF.759 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 40;42 K alternative_first_exon CUFF.767 chr2 - chr2:73285726-73286222,chr2:73285726-73298168;chr2:73285726-73286136;chr2:73285726-73298732;chr2:73285726-73302708 chr2:73285726-73297588 chr2:73286137-73286301;chr2:73298733-73298942;chr2:73302709-73302841 chr2:73297589-73298458 762;1975 K cassette CUFF.809 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 14;174 K cassette CUFF.754 chr2 - chr2:46839484-46842075 chr2:46839484-46840832;chr2:46840925-46842075 chr2:46840833-46840924 68;391 N mutually_exclusive CUFF.767 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 56;230 N jcn_only_AA CUFF.746 chr2 - chr2:31423492-31424999 chr2:31424865-31424999 chr2:31423492-31424864 chr2:31423491-31423492 50;9 N jcn_only_AD CUFF.784 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 15;3 K alternative_acceptor CUFF.773 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 34;420 N jcn_only_AD CUFF.842 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 287;15 K mutually_exclusive CUFF.772 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 9;34 K cassette CUFF.833 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 96;17 N jcn_only_AD CUFF.823 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 32;71 N jcn_only_AD CUFF.788 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 10;2 N alternative_donor CUFF.778 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 22;26 N alternative_donor chr2 - chr2:242872-247537;chr2:242872-244626 chr2:242872-243502 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 66;53 N mutually_exclusive CUFF.810 chr2 - chr2:177041421-177042438,chr2:177042550-177042742 chr2:177041421-177042059,chr2:177042223-177042742 chr2:177042439-177042549 chr2:177042060-177042222 32;220 N jcn_only_AA CUFF.784 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 3;99 N jcn_only_AD CUFF.784 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 154;7 N jcn_only_AD CUFF.738 chr2 - chr2:11587901-11590137;chr2:11587901-11593707 chr2:11587901-11591327 307;38 K alternative_first_exon CUFF.740 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535524-16535568 chr2:16536395-16536535 5;27 K intron_retention CUFF.754 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 146;220 N jcn_only_AD CUFF.749 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 394;26 K alternative_first_exon CUFF.767 chr2 - chr2:73285726-73286222,chr2:73285726-73298168;chr2:73285726-73286136;chr2:73285726-73297588;chr2:73285726-73302708 chr2:73285726-73298732 chr2:73286137-73286301;chr2:73297589-73298458;chr2:73302709-73302841 chr2:73298733-73298942 2330;407 N coord_cassette CUFF.756 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 5;261 N jcn_only_AD CUFF.789 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 76;20 K intron_retention CUFF.772 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 80;74 N jcn_only_AD CUFF.735 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 136;62 K cassette CUFF.796 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 270;78 N alternative_donor CUFF.780 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 464;35 N alternative_donor CUFF.744,CUFF.784 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 10;433 K alternative_first_exon CUFF.727 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:287583-287892 chr2:286870-286954 816;35 N alternative_donor CUFF.735 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 136;402 N cassette CUFF.800 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 9;166 N alternative_donor CUFF.742,CUFF.807 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 15;57 N jcn_only_AD CUFF.731 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 253;5 N jcn_only_AD CUFF.812 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 15;13 N alternative_donor CUFF.842 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 468;93 N jcn_only_AA CUFF.731,CUFF.780 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 36;8 K intron_retention CUFF.731 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 279;28 N coord_cassette CUFF.842 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 14;387 K jcn_only_AA CUFF.778 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 22;38 N jcn_only_AA chr2 - chr2:234273-243502;chr2:242177-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 55;51 K intron_retention CUFF.725 chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 50;127 K alternative_acceptor CUFF.776 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 65;67 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 7;244 K alternative_first_exon CUFF.772 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422643 chr2:86422045-86422125 282;11 N cassette CUFF.840 chr2 - chr2:242441124-242447857 chr2:242441124-242443452;chr2:242443512-242447857 chr2:242443453-242443511 7;137 K intron_retention CUFF.831 chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 57;129 K cassette CUFF.735 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 3;456 N alternative_donor CUFF.784 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 154;7 K cassette CUFF.823 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 chr2:207988498-207989128;chr2:208030191-208030430 164;160 K cassette CUFF.814 chr2 + chr2:191362446-191364740 chr2:191362446-191364557;chr2:191364583-191364740 chr2:191364558-191364582 82;28 K cassette CUFF.796 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 332;31 K cassette CUFF.731 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 82;66 N jcn_only_AD CUFF.730 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 60;40 K alternative_first_exon CUFF.764 chr2 - chr2:69870407-69870874;chr2:69870407-69901154;chr2:69870407-69870706 chr2:69870407-69870923 chr2:69901155-69901251;chr2:69870707-69870786 chr2:69870924-69871018 120;10 K alternative_first_exon CUFF.728,CUFF.819 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676810 22;117 N jcn_only_AA CUFF.730 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 54;18 K alternative_first_exon CUFF.810 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177053147-177053333 chr2:177052793-177053045 106;70 N intron_retention CUFF.810 chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 7;55 N alternative_donor CUFF.805 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 110;162 N coord_cassette CUFF.800 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 5;355 N alternative_acceptor CUFF.725 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 50;706 K cassette CUFF.840 chr2 - chr2:242435950-242437030 chr2:242435950-242436596;chr2:242436794-242437030 chr2:242436597-242436793 226;83 K cassette CUFF.738 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 155;156 N alternative_donor CUFF.780 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 36;87 K alternative_donor CUFF.786 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 6;19 K alternative_first_exon CUFF.811 chr2 - chr2:177497854-177502189 chr2:177497854-177498092 chr2:177502190-177502659 chr2:177498093-177498327 137;27 N alternative_last_exon CUFF.738 chr2 - chr2:11587901-11593707 chr2:11591933-11593707 chr2:11587753-11587900 chr2:11591456-11591932 174;593 N jcn_only_AD CUFF.749 chr2 + chr2:38179345-38201182;chr2:38177739-38201182 chr2:38156873-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 71;27 K cassette CUFF.773 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 16;99 K alternative_acceptor CUFF.747 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 22;719 N alternative_donor CUFF.746,CUFF.774 chr2 - chr2:31423492-31424999 chr2:31423492-31424727 chr2:31424728-31424999 chr2:31424999-31425000 50;13 N alternative_acceptor CUFF.744 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 371;14 N jcn_only_AD CUFF.725 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 158;185 N intron_retention CUFF.840 chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 218;96 K jcn_only_AD CUFF.764,CUFF.784 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 80;5 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 42;17 K cassette CUFF.829 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 250;249 K cassette CUFF.738 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 92;376 K cassette CUFF.744 chr2 - chr2:27668317-27668611 chr2:27668317-27668419;chr2:27668497-27668611 chr2:27668420-27668496 41;305 N alternative_acceptor CUFF.767 chr2 - chr2:73228704-73247367 chr2:73228708-73247367 chr2:73228704-73228707 chr2:73228703-73228704 15;355 K intron_retention CUFF.824 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 5;85 K jcn_only_AA CUFF.826 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 15;15 N alternative_donor CUFF.767 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 48;92 N jcn_only_AD CUFF.730 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 79;22 K alternative_last_exon CUFF.761 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358409-68358577 chr2:68358894-68359137 42;65 N jcn_only_AA CUFF.800 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 82;36 K cassette CUFF.809 chr2 - chr2:175809672-175816891 chr2:175809672-175809897;chr2:175809990-175816891 chr2:175809898-175809989 54;96 N jcn_only_AD chr2 - chr2:234273-242797;chr2:234273-243502 chr2:234273-247537 chr2:242798-243502;chr2:243503-247537 chr2:243502-243503;chr2:247537-247538 172;320 K intron_retention CUFF.772 chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 34;36 N jcn_only_AD chr2 - chr2:242872-247537;chr2:242872-244626 chr2:242872-243502 chr2:243503-244626;chr2:244627-247537 chr2:244626-244627;chr2:247537-247538 65;51 N jcn_only_AD CUFF.725 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 392;24 N jcn_only_AD CUFF.744,CUFF.784 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 10;16 N cassette CUFF.744 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 86;489 K cassette CUFF.809 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 131;300 N alternative_donor CUFF.822 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 189;5 N alternative_donor CUFF.796 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 373;19 K alternative_first_exon CUFF.839 chr2 + chr2:241381924-241398446;chr2:241396887-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241392512-241398446 chr2:241396836-241396886;chr2:241394398-241394437;chr2:241397344-241397534 chr2:241392425-241392511 264;114 K alternative_first_exon CUFF.776 chr2 + chr2:99232810-99234630 chr2:99232997-99234630 chr2:99232579-99232809 chr2:99232873-99232996 20;72 K intron_retention CUFF.725 chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 16;13 K intron_retention CUFF.772 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 67;21 N alternative_last_exon chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003658 chr2:48906474-48906742 184;221 N cassette CUFF.731 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 37;502 K cassette CUFF.754 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 58;145 K cassette CUFF.742 chr2 - chr2:25174424-25179911 chr2:25174424-25176418;chr2:25176505-25179911 chr2:25176419-25176504 68;1881 K intron_retention CUFF.728 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 139;62 K intron_retention CUFF.837 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 41;54 N alternative_acceptor CUFF.784 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 15;26 K alternative_last_exon CUFF.767 chr2 - chr2:73280681-73285656,chr2:73269715-73285656,chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73267983-73268060 chr2:73276218-73277028 415;1998 K alternative_last_exon CUFF.725 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:218137-219001 chr2:224868-224920 943;320 K cassette CUFF.772 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 4;389 K coord_cassette CUFF.842 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 400;139 N cassette CUFF.810 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 24;570 K cassette CUFF.772 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 4;174 K intron_retention CUFF.785 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 9;10 K alternative_first_exon CUFF.810,CUFF.819 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204399834-204400125 chr2:204398088-204398196 428;352 K intron_retention CUFF.745 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 65;17 K cassette CUFF.735 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007227-4007505 chr2:4007154-4007226 5;94 N intron_retention chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 16;24 N alternative_acceptor CUFF.784 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 144;11 K alternative_last_exon CUFF.730,CUFF.787 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328618 135;51 N jcn_only_AA CUFF.749 chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 239;67 N alternative_acceptor CUFF.744 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 79;2 K cassette CUFF.735 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 5;590 K intron_retention CUFF.831 chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 8;216 K intron_retention CUFF.842 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 15;187 N cassette CUFF.728 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 148;530 N alternative_donor CUFF.749 chr2 + chr2:38177739-38201182;chr2:38156873-38201182 chr2:38179345-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 172;274 N alternative_first_exon CUFF.813 chr2 + chr2:191300056-191300702;chr2:191273230-191300702 chr2:191298119-191300702 chr2:191299967-191300055;chr2:191273081-191273229 chr2:191298053-191298118 78;24 K alternative_last_exon CUFF.730,CUFF.731 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 75;76 N alternative_acceptor CUFF.725 chr2 - chr2:234273-247537;chr2:244739-247537;chr2:243563-247537 chr2:242872-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 874;297 N alternative_acceptor CUFF.836 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 82;264 K intron_retention CUFF.826 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 15;33 N alternative_donor CUFF.749 chr2 + chr2:38179345-38201182;chr2:38177739-38201182 chr2:38156873-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 419;27 K alternative_first_exon CUFF.731 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393474-3393550 579;66 K cassette CUFF.735 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 72;503 N alternative_donor CUFF.823 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 411;71 K intron_retention chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 222;170 N jcn_only_AA CUFF.747 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 268;36 N alternative_acceptor CUFF.784 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 3;9 N jcn_only_AA chr2 + chr2:3464108-3464417;chr2:3464108-3466628 chr2:3464108-3469367 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 45;359 K intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 46;264 N intron_retention chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 21;16 K intron_retention CUFF.807 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 15;60 K jcn_only_AA CUFF.776,CUFF.837 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 44;41 K intron_retention CUFF.831 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 106;303 N alternative_donor CUFF.840 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 395;116 N alternative_donor CUFF.840 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 437;74 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 45;89 N jcn_only_AA CUFF.805 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 140;30 N alternative_donor CUFF.788 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 10;2 N jcn_only_AD CUFF.840 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 334;52 N jcn_only_AA CUFF.784 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 80;5 K cassette CUFF.800 chr2 + chr2:171376051-171399415 chr2:171376051-171381014;chr2:171381137-171399415 chr2:171381015-171381136 40;44 K intron_retention CUFF.826 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 37;62 K jcn_only_AA CUFF.780 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 5;323 K alternative_first_exon CUFF.814 chr2 + chr2:191334376-191334483;chr2:191302288-191334483 chr2:191307732-191334483 chr2:191334192-191334375;chr2:191302071-191302287 chr2:191307281-191307731 254;190 K jcn_only_AD CUFF.800 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 31;2 N alternative_donor CUFF.749 chr2 + chr2:38179345-38201182;chr2:38156873-38201182 chr2:38177739-38201182 chr2:38156873-38177738;chr2:38177739-38179344 chr2:38156872-38156873;chr2:38177738-38177739 301;145 N alternative_acceptor CUFF.731 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 417;23 N alternative_donor CUFF.749 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 394;116 N alternative_donor CUFF.767 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 281;540 N cassette CUFF.731 chr2 + chr2:3469467-3482616 chr2:3469467-3470024;chr2:3470165-3482616 chr2:3470025-3470164 37;26 K intron_retention CUFF.796 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 51;30 K intron_retention CUFF.831 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 121;42 K intron_retention CUFF.744 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 5;50 K cassette CUFF.840 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 18;526 N cassette CUFF.767 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 43;214 N jcn_only_AD CUFF.823 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 76;27 K jcn_only_AA CUFF.836 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 307;36 K intron_retention CUFF.842 chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 18;39 N jcn_only_AA chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 28;7 N alternative_acceptor CUFF.800 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 82;407 K alternative_first_exon CUFF.747 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516785-33516854 607;18 N intron_retention CUFF.725 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 4;72 N alternative_donor CUFF.731 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 253;120 K mutually_exclusive CUFF.809 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 169;57 K cassette CUFF.789 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 63;113 K cassette CUFF.772 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 4;123 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 32;40 N intron_retention CUFF.809 chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 151;43 K intron_retention CUFF.725 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 277;47 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 69;237 N jcn_only_AA CUFF.744 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 371;9 N alternative_acceptor CUFF.839 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 282;15 N mutually_exclusive CUFF.842 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 21;40 N alternative_donor CUFF.840 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 94;140 K intron_retention CUFF.759 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 30;39 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 537;71 K jcn_only_AD CUFF.761 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 35;62 N cassette CUFF.842 chr2 + chr2:242594063-242606059;chr2:242594759-242606059 chr2:242594759-242598522,chr2:242594063-242598522;chr2:242598603-242606059 chr2:242598523-242598602 32;644 N jcn_only_AD chr2 + chr2:1263214-1271136 chr2:1266722-1271136 26;37 N alternative_donor CUFF.749 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 224;16 N jcn_only_AA CUFF.784 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 3;4 N jcn_only_AD CUFF.767 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 281;7 K alternative_donor CUFF.772 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 178;84 N alternative_acceptor CUFF.746 chr2 - chr2:31423492-31424999 chr2:31424865-31424999 chr2:31423492-31424864 chr2:31423491-31423492 50;13 N jcn_only_AA chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 86;20 K alternative_first_exon CUFF.749 chr2 + chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150330-38150510 chr2:38152454-38152568 16;17 K intron_retention CUFF.842 chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 242;37 N intron_retention CUFF.728 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 9;103 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 9;191 K alternative_acceptor CUFF.771 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 chr2:79365093-79365202;chr2:79364350-79364463 96;107 N jcn_only_AA CUFF.725 chr2 - chr2:242872-247537;chr2:234273-247537;chr2:243563-247537 chr2:244739-247537 chr2:234273-242871;chr2:242872-243562;chr2:243563-244738 chr2:234272-234273;chr2:242871-242872;chr2:243562-243563 468;9 N alternative_donor CUFF.725 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 158;195 K cassette CUFF.738 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 221;94 K cassette CUFF.829 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 150;293 K cassette CUFF.818 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 11;81 N alternative_donor CUFF.784 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 15;10 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 211;88 N alternative_acceptor CUFF.731,CUFF.836 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 382;58 K jcn_only_AA CUFF.776 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 65;60 K intron_retention CUFF.737 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 41;34 N alternative_acceptor CUFF.731,CUFF.780 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 36;14 K alternative_acceptor CUFF.776,CUFF.837 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 44;122 N coord_cassette CUFF.767 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 107;147 K cassette CUFF.745 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 17;152 N jcn_only_AD CUFF.780 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 44;14 N alternative_first_exon CUFF.756 chr2 + chr2:48996261-49003418;chr2:48898820-49003418 chr2:48996214-49003418 chr2:48898730-48898819 chr2:48996100-48996213 72;18 K intron_retention CUFF.735 chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 22;347 K intron_retention CUFF.771 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 chr2:79363091-79363202;chr2:79363916-79364053 22;34 K alternative_donor CUFF.764,CUFF.784 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 80;163 K alternative_acceptor CUFF.819 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 27;558 K intron_retention CUFF.840 chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 116;166 K intron_retention CUFF.754 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 73;390 K coord_cassette CUFF.809 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 79;236 K alternative_acceptor CUFF.778 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 22;182 N cassette CUFF.836 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 19;78 K alternative_first_exon CUFF.754,CUFF.823 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46844109-46844258 chr2:46843726-46843823 230;146 K alternative_first_exon CUFF.731 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383446-3383610 chr2:3383613-3383647 32;24 K intron_retention CUFF.831 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 275;108 K coord_cassette CUFF.738 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 92;239 K alternative_acceptor CUFF.735 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 22;501 K intron_retention CUFF.842 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 434;13 N coord_cassette CUFF.744 chr2 - chr2:27668317-27668795 chr2:27668317-27668419;chr2:27668497-27668611;chr2:27668711-27668795 chr2:27668420-27668496;chr2:27668612-27668710 86;693 N jcn_only_AD CUFF.730 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 26;75 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 6;1328 N jcn_only_AD CUFF.738 chr2 - chr2:11587901-11590137;chr2:11587901-11591327 chr2:11587901-11593707 225;120 K alternative_first_exon CUFF.814 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191302071-191302287;chr2:191307281-191307731 chr2:191334192-191334375 212;232 K cassette CUFF.809 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 24;411 N jcn_only_AD CUFF.824 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 22;214 N alternative_donor chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 169;65 N alternative_acceptor CUFF.744 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 273;52 K intron_retention CUFF.728 chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 10;52 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 14;250 N jcn_only_AD CUFF.730 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 48;6 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 chr2:207988498-207989128 8;37 K jcn_only_AA CUFF.747 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 22;719 N jcn_only_AA CUFF.784 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 144;7 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 51;367 N alternative_acceptor chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 97;431 N alternative_donor CUFF.823 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 chr2:207953182-207953305;chr2:207989068-207989128 425;57 N jcn_only_AD CUFF.840 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 168;218 K jcn_only_AD CUFF.778 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 189;16 N intron_retention CUFF.725 chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 11;84 K mutually_exclusive CUFF.772 chr2 - chr2:86393768-86398330,chr2:86398469-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398468 chr2:86397872-86397964 7;34 K alternative_first_exon CUFF.833 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228159985-228160032 chr2:228161210-228161242 2;31 N jcn_only_AA CUFF.744 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 79;2 N jcn_only_AD CUFF.840 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 71;51 N jcn_only_AD CUFF.742,CUFF.807 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 15;12 N intron_retention chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 60;86 N intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 83;38 K cassette CUFF.809 chr2 - chr2:175677211-175689161 chr2:175677211-175686456;chr2:175686508-175689161 chr2:175686457-175686507 391;118 N jcn_only_AA CUFF.744 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 273;45 K alternative_last_exon CUFF.809 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689162-175689246 chr2:175701860-175702064 390;314 K alternative_last_exon CUFF.113,CUFF.90 chr1 + chr1:245246991-245250034,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245254795;chr1:245246991-245250061 chr1:245246991-245285221 chr1:245250547-245251133;chr1:245254796-245255091;chr1:245250062-245250259 chr1:245285222-245286291 976;251 N alternative_donor CUFF.113 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 279;12 K jcn_only_AD CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 29;40 K alternative_last_exon CUFF.42 chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78560636-78560700 chr1:78558441-78558488 7;17 N alternative_acceptor CUFF.33,CUFF.84 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 96;13 K alternative_donor CUFF.67 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 67;14 N jcn_only_AD CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 4;16 N cassette CUFF.61 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 5;30 N jcn_only_AD CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 44;8 K alternative_last_exon CUFF.116 chr1 - chr1:247320520-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320706-247322307 chr1:247319207-247320519;chr1:247301455-247302059;chr1:247285271-247287173 chr1:247320584-247320705 985;49 K mutually_exclusive CUFF.84 chr1 + chr1:167190196-167272710,chr1:167272812-167301706 chr1:167190196-167210643,chr1:167210848-167301706 chr1:167272711-167272811 chr1:167210644-167210847 322;37 K cassette CUFF.27 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 74;202 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 15;79 K alternative_last_exon CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110217369-110217889;chr1:110224431-110224456 chr1:110251103-110252171 102;81 N jcn_only_AD CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 23;40 N alternative_acceptor CUFF.104,CUFF.86 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 69;40 K alternative_first_exon CUFF.52 chr1 - chr1:113471975-113472502,chr1:113471975-113497897,chr1:113471975-113499460;chr1:113471975-113498656 chr1:113471975-113478445 chr1:113498657-113498975 chr1:113478446-113478684 111;72 N alternative_acceptor CUFF.13,CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 70;1160 K jcn_only_AD CUFF.116 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 12;14 N mutually_exclusive CUFF.35 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 78;170 K mutually_exclusive CUFF.103 chr1 - chr1:213181809-213186434,chr1:213186761-213188954 chr1:213181809-213184549,chr1:213184801-213188954 chr1:213186435-213186760 chr1:213184550-213184800 174;99 K mutually_exclusive CUFF.28 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 139;47 N cassette CUFF.54 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 115;69 K intron_retention CUFF.19 chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 14;55 N alternative_donor CUFF.67 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 61;97 K alternative_last_exon CUFF.8 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512210 chr1:10502322-10502868 136;221 N jcn_only_AD CUFF.5 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 293;491 K alternative_last_exon CUFF.116 chr1 - chr1:247320520-247322307;chr1:247320706-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247319207-247320519;chr1:247320584-247320705;chr1:247301455-247302059 chr1:247285271-247287173 863;171 K cassette CUFF.47 chr1 - chr1:106132408-106145898 chr1:106132408-106143891;chr1:106144008-106145898 chr1:106143892-106144007 41;65 N intron_retention chr1 - chr1:230416683-230417235 chr1:230416682-230416683;chr1:230417235-230417236 3;90 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 8;79 K intron_retention CUFF.32 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 26;36 N alternative_donor CUFF.89 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860531-200864215 chr1:200860530-200860531 139;26 K coord_cassette CUFF.47 chr1 - chr1:106132408-106146784 chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784 chr1:106143892-106144007;chr1:106145899-106146180 35;157 N alternative_donor CUFF.5 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 462;491 K intron_retention CUFF.32 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 32;47 N alternative_donor chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 7;40 N jcn_only_AD CUFF.27 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 163;4 N cassette CUFF.8 chr1 + chr1:10494748-10511433 chr1:10494748-10500403;chr1:10500471-10511433 chr1:10500404-10500470 9;61 K alternative_last_exon CUFF.49 chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212258-110212705 chr1:110212093-110212193 407;302 K alternative_first_exon CUFF.18,CUFF.74 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26233278 chr1:26231635-26231733;chr1:26231540-26231626;chr1:26232343-26232614;chr1:26232880-26232969 chr1:26233279-26233547 207;188 N jcn_only_AD CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 209;37 N coord_cassette CUFF.28 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 134;679 K mutually_exclusive CUFF.113 chr1 + chr1:245133746-245180543,chr1:245180629-245222687 chr1:245133746-245165422,chr1:245165535-245222687 chr1:245180544-245180628 chr1:245165423-245165534 181;19 K cassette CUFF.82 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 15;43 N alternative_donor CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 294;11 K cassette CUFF.34 chr1 - chr1:53878941-53883199 chr1:53878941-53881072;chr1:53881197-53883199 chr1:53881073-53881196 44;264 N cassette CUFF.70 chr1 - chr1:156449589-156452228 chr1:156449589-156450625;chr1:156450764-156452228 chr1:156450626-156450763 4;60 K alternative_last_exon CUFF.116 chr1 - chr1:247320706-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247320584-247320705;chr1:247301455-247302059;chr1:247285271-247287173 chr1:247319207-247320519 302;732 N alternative_donor CUFF.27 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 121;15 N alternative_acceptor CUFF.49 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 18;349 N jcn_only_AA CUFF.81 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 40;29 N cassette CUFF.5 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 13;366 N jcn_only_AA CUFF.3 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 24;14 K intron_retention CUFF.71 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 83;28 N alternative_donor CUFF.33 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 96;10 K alternative_first_exon CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072414-11072485 chr1:11072614-11072800 36;70 N alternative_acceptor chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 16;171 N jcn_only_AA CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 44;7 K intron_retention CUFF.113 chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 79;37 N alternative_donor CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 88;316 K cassette CUFF.106 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 106;765 K intron_retention CUFF.104 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 54;214 N alternative_last_exon CUFF.18 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226595-26227578 126;1333 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2013900-2066700 chr1:1991031-2066700 chr1:2006631-2006818;chr1:2013687-2013899 chr1:1990980-1991030 816;70 N alternative_acceptor CUFF.28 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 367;13 N cassette CUFF.85 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 47;286 N alternative_donor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 209;37 K alternative_last_exon CUFF.36 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387231-54387440 149;183 K intron_retention CUFF.49 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 56;88 N coord_cassette CUFF.8 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 21;113 N cassette CUFF.8 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 40;211 N alternative_donor CUFF.82 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 15;43 N jcn_only_AD CUFF.35 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 63;33 K intron_retention CUFF.58 chr1 + chr1:145584837-145585355 chr1:145584836-145584837;chr1:145585355-145585356 16;14 K jcn_only_AD CUFF.65 chr1 - chr1:153927643-153930621 chr1:153927643-153930536 chr1:153930537-153930621 chr1:153930621-153930622 27;103 K cassette CUFF.57 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 18;60 K alternative_first_exon CUFF.9 chr1 + chr1:11075704-11076900;chr1:11074023-11076900 chr1:11076312-11076900 chr1:11073759-11074022 chr1:11076269-11076311 365;15 N jcn_only_AA ENSG00000142634.8 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 3;10 K alternative_last_exon CUFF.13 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383803 chr1:16382917-16383003 19;43 K alternative_last_exon CUFF.116 chr1 - chr1:247320520-247322307;chr1:247320706-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247319207-247320519;chr1:247320584-247320705;chr1:247285271-247287173 chr1:247301455-247302059 952;82 K alternative_first_exon CUFF.12 chr1 - chr1:11710892-11715696;chr1:11710892-11713447 chr1:11710892-11714375 chr1:11715697-11715710;chr1:11713448-11713631 chr1:11714376-11714739 35;124 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 19;17 K cassette CUFF.97 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 47;74 K alternative_first_exon CUFF.87 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129138 chr1:174128025-174128291 180;413 N alternative_acceptor CUFF.81 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 39;116 N jcn_only_AA CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 192;17 N jcn_only_AD CUFF.49 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 65;22 K jcn_only_AA CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 72;33 N jcn_only_AD CUFF.27 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 102;65 N alternative_acceptor CUFF.46 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 29;11 N jcn_only_AA CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 23;7 N jcn_only_AD CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 240;6 K alternative_last_exon CUFF.113 chr1 + chr1:245246991-245250034,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245285221;chr1:245246991-245250061 chr1:245246991-245254795 chr1:245250547-245251133;chr1:245285222-245286291;chr1:245250062-245250259 chr1:245254796-245255091 915;312 N jcn_only_AA CUFF.108,CUFF.97 chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230227336-230338882 chr1:230338882-230338883 5;36 N jcn_only_AA CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 209;27 K cassette CUFF.62 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 59;41 K alternative_first_exon CUFF.28 chr1 + chr1:32538700-32540551;chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551 chr1:32539464-32539473;chr1:32537632-32538053 chr1:32538503-32538652 104;556 N jcn_only_AD CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 192;12 N cassette CUFF.79 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 4;157 N jcn_only_AA CUFF.33,CUFF.84 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 96;13 N alternative_acceptor CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 23;61 N alternative_first_exon chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941665 4;154 K alternative_first_exon CUFF.34 chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905713 chr1:53905100-53905160 142;10 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 37;761 K jcn_only_AA CUFF.84,CUFF.86 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 13;14 N intron_retention chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 7;120 K cassette CUFF.47 chr1 - chr1:106132408-106146784 chr1:106132408-106145898;chr1:106146181-106146784 chr1:106145899-106146180 35;247 K alternative_first_exon CUFF.18 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26232342 chr1:26231635-26231733;chr1:26231540-26231626;chr1:26233279-26233547;chr1:26232880-26232969 chr1:26232343-26232614 273;122 K coord_cassette CUFF.82 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 15;57 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 8;12 N cassette CUFF.27 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 9;200 K intron_retention CUFF.71 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 66;27 K cassette CUFF.47 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 25;114 K jcn_only_AD CUFF.24 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 8;130 N jcn_only_AD CUFF.27 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 69;98 N coord_cassette CUFF.35 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 31;268 N cassette CUFF.35 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 40;656 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 91;70 N cassette CUFF.28 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 158;713 K alternative_first_exon CUFF.106 chr1 + chr1:224371121-224377278;chr1:224371534-224377278 chr1:224363650-224377278 chr1:224370889-224371120;chr1:224371347-224371533 chr1:224363458-224363649 440;67 N jcn_only_AA CUFF.71 chr1 - chr1:156939836-156946774 chr1:156941609-156946774 4;7 N jcn_only_AA CUFF.65 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 18;12 N alternative_donor CUFF.42 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 29;11 K intron_retention CUFF.65 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 27;130 K cassette CUFF.28 chr1 + chr1:32541424-32542363 chr1:32541424-32542164;chr1:32542248-32542363 chr1:32542165-32542247 105;218 K cassette CUFF.71 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 66;185 N jcn_only_AD chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 7;8 N alternative_donor CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 4;21 N jcn_only_AA chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 16;7 K intron_retention CUFF.74 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 1295;50 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 37;429 N cassette CUFF.67 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 47;149 N intron_retention chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 28;109 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:2013900-2066700;chr1:1991031-2066700 chr1:2006819-2066700 chr1:2013687-2013899;chr1:1990980-1991030 chr1:2006631-2006818 764;122 K alternative_acceptor CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 72;48 N jcn_only_AA CUFF.70 chr1 - chr1:156449139-156450625 chr1:156449589-156450625 22;6 N mutually_exclusive CUFF.54 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 12;224 N jcn_only_AD CUFF.65 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 5;17 N alternative_acceptor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 192;116 N alternative_donor CUFF.5 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 494;459 N jcn_only_AD CUFF.3 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 24;14 K alternative_last_exon CUFF.55 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529583-120529705 chr1:120535405-120539369 3;1878 K cassette CUFF.87 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 38;397 K alternative_first_exon CUFF.32 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486840 34;81 K cassette CUFF.32 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 33;159 N jcn_only_AA CUFF.28 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 367;13 N jcn_only_AD CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 88;119 K alternative_acceptor CUFF.13 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 44;39 N cassette CUFF.88 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 21;345 N jcn_only_AA CUFF.116 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 66;12 N jcn_only_AD CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 57;149 N alternative_donor CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 23;48 N jcn_only_AA CUFF.113 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 279;12 N jcn_only_AA CUFF.84 chr1 + chr1:167353189-167358824 chr1:167353189-167356417 chr1:167356418-167358824 chr1:167358824-167358825 57;157 N jcn_only_AA CUFF.32 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 8;85 K cassette CUFF.82 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 17;43 K intron_retention CUFF.106 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 59;65 K intron_retention CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 23;103 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 5;48 K alternative_first_exon CUFF.31 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642235 140;117 N alternative_donor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 240;6 K alternative_first_exon CUFF.12 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11715697-11715710;chr1:11714376-11714739 chr1:11713448-11713631 135;24 K intron_retention CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137202-160137203;chr1:160141040-160141041 4;20 K alternative_last_exon CUFF.102 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211599553-211599625 chr1:211570198-211570198 29;4 N alternative_acceptor CUFF.76 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 549;143 K alternative_acceptor CUFF.30 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 157;17 K intron_retention CUFF.71 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 40;21 N intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 17;33 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 22;515 K alternative_acceptor CUFF.41 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 13;71 K jcn_only_AA CUFF.84 chr1 + chr1:167301773-167343392 chr1:167301773-167334703 23;294 N coord_cassette CUFF.27 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 9;298 N alternative_donor CUFF.116 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 26;769 K cassette CUFF.72 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 121;476 N jcn_only_AA CUFF.13,CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 70;41 K alternative_first_exon CUFF.63 chr1 - chr1:151158427-151167754 chr1:151158427-151162599,chr1:151158427-151162480 chr1:151167755-151167835 chr1:151162600-151162664 19;124 K intron_retention CUFF.5 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 216;91 K jcn_only_AA CUFF.41 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 13;44 N cassette CUFF.85 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 7;302 K intron_retention CUFF.72 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 116;31 K alternative_acceptor CUFF.49 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 56;72 K intron_retention CUFF.65 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 97;22 K alternative_first_exon CUFF.12,CUFF.74 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158582607-158582751 chr1:158581576-158581657 2069;12 N alternative_acceptor chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 27;217 N alternative_donor CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 205;166 K jcn_only_AA CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 7;130 K intron_retention CUFF.52 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 113;21 K intron_retention CUFF.93 chr1 + chr1:200883188-200883601 chr1:200883187-200883188;chr1:200883601-200883602 14;6 N jcn_only_AD chr1 + chr1:167227155-167301706;chr1:167288294-167301706 chr1:167298544-167301706 34;4 K alternative_first_exon CUFF.12 chr1 - chr1:11710892-11713447;chr1:11710892-11714375 chr1:11710892-11715696 chr1:11713448-11713631;chr1:11714376-11714739 chr1:11715697-11715710 148;11 K alternative_acceptor CUFF.42,CUFF.97 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 55;68 N alternative_acceptor CUFF.81 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 40;29 K intron_retention CUFF.18 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 255;14 N alternative_acceptor CUFF.3 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 24;440 N jcn_only_AD CUFF.5 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 781;3 N jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 31;91 K intron_retention CUFF.49 chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 24;258 N jcn_only_AA ENSG00000234277.2 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227613457-227617105 chr1:227617105-227617106 20;10 K jcn_only_AD CUFF.63 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 22;102 N alternative_acceptor CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 44;7 N jcn_only_AA CUFF.31 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 15;41 N cassette CUFF.14 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 4;1127 K alternative_acceptor CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 7;478 K intron_retention CUFF.57 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 55;866 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 8;14 N coord_cassette CUFF.35 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 9;268 N jcn_only_AA chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 27;139 N jcn_only_AA CUFF.20 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 7;17 N alternative_donor CUFF.41 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 45;206 N cassette CUFF.108 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 6;21 N alternative_donor CUFF.3 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 24;421 N alternative_donor CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 57;149 N alternative_donor CUFF.5 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 950;3 N alternative_donor CUFF.28 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 367;7 K intron_retention CUFF.113 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 79;51 K alternative_donor CUFF.63 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 22;219 N alternative_acceptor CUFF.20 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 7;49 N jcn_only_AD CUFF.67 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 61;19 N alternative_donor CUFF.90 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 6;51 K alternative_first_exon CUFF.102 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556145-211556267 chr1:211563906-211564012 77;39 N coord_cassette CUFF.84 chr1 + chr1:167190196-167301706 chr1:167190196-167210643;chr1:167210848-167272710;chr1:167272812-167301706 chr1:167210644-167210847;chr1:167272711-167272811 18;251 K alternative_donor CUFF.65 chr1 - chr1:153927643-153930621 chr1:153927643-153930536 chr1:153930537-153930621 chr1:153930621-153930622 27;127 K intron_retention CUFF.81 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 39;174 N alternative_acceptor CUFF.31 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 15;62 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 18;16 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 3;1077 K alternative_last_exon CUFF.113,CUFF.84 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167367231-167367370 chr1:167365770-167366064 83;406 N alternative_last_exon chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877281 14;4 N jcn_only_AD CUFF.5 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 494;290 N coord_cassette CUFF.113 chr1 + chr1:245133746-245222687 chr1:245133746-245165422;chr1:245165535-245180543;chr1:245180629-245222687 chr1:245165423-245165534;chr1:245180544-245180628 45;144 K alternative_last_exon CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110217368 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110217369-110217889 110;73 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26228173 chr1:26219005-26219098 28;9 K intron_retention CUFF.30 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 288;31 N alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 31;118 K intron_retention CUFF.36 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 73;45 K cassette CUFF.104 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 54;56 N alternative_acceptor CUFF.32 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 8;246 K alternative_acceptor CUFF.84,CUFF.86 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 13;30 N alternative_donor CUFF.49 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 13;292 K alternative_donor CUFF.24 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 8;250 N cassette CUFF.113 chr1 + chr1:245133746-245222687;chr1:245133746-245180543 chr1:245133746-245165422;chr1:245165535-245180543,chr1:245165535-245222687 chr1:245165423-245165534 124;109 K alternative_first_exon CUFF.71 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933587 62;51 N jcn_only_AD chr1 + chr1:167298544-167301706;chr1:167227155-167301706 chr1:167288294-167301706 11;27 K cassette CUFF.94 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 9;36 N jcn_only_AA CUFF.9 chr1 + chr1:155180686-155201808 chr1:155180686-155181182 5;17 K alternative_first_exon CUFF.18 chr1 - chr1:26231230-26231634;chr1:26231230-26232342;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26231539 chr1:26231635-26231733;chr1:26232343-26232614;chr1:26233279-26233547;chr1:26232880-26232969 chr1:26231540-26231626 364;31 N cassette CUFF.103 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 18;203 N cassette CUFF.84 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 3;578 N coord_cassette CUFF.104 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 24;182 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 29;38 N alternative_first_exon CUFF.91 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877526-200877677 7;230 N jcn_only_AD CUFF.95 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 11;25 N intron_retention chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 31;74 N alternative_acceptor ENSG00000234277.2 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227613457-227617105 chr1:227617105-227617106 20;32 N coord_cassette CUFF.88 chr1 + chr1:196913069-196927020 chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918585-196918779;chr1:196919982-196920158 21;462 K jcn_only_AA CUFF.42,CUFF.97 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 55;27 N jcn_only_AA CUFF.46 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 29;11 K intron_retention CUFF.82 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 20;29 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 25;153 K alternative_first_exon CUFF.24 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656799-28656886 168;46 K cassette CUFF.41 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 241;111 N alternative_donor CUFF.113 chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 33;557 K alternative_first_exon CUFF.28 chr1 + chr1:32538700-32540551;chr1:32538653-32540551;chr1:32538054-32540551 chr1:32539474-32540551 chr1:32538503-32538652;chr1:32537632-32538053 chr1:32539464-32539473 649;11 K intron_retention CUFF.74 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 941;83 N alternative_acceptor CUFF.116 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 66;21 K coord_cassette CUFF.28 chr1 + chr1:32541424-32542764 chr1:32541424-32542164;chr1:32542248-32542363;chr1:32542448-32542764 chr1:32542165-32542247;chr1:32542364-32542447 55;334 K alternative_first_exon CUFF.18 chr1 - chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26231634 chr1:26231540-26231626;chr1:26232343-26232614;chr1:26233279-26233547;chr1:26232880-26232969 chr1:26231635-26231733 361;34 K alternative_donor CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 29;64 K intron_retention CUFF.71 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 52;10 N jcn_only_AD CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 205;25 N alternative_first_exon chr1 - chr1:169439425-169454800 chr1:169439425-169446392 chr1:169454801-169455241 chr1:169446393-169446995 49;19 K intron_retention CUFF.19 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 8;18 N jcn_only_AD CUFF.113 chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 33;22 K alternative_first_exon CUFF.107 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224400540 chr1:224397943-224398114 10;37 N jcn_only_AD CUFF.89 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860531-200864215 chr1:200860530-200860531 139;6 K intron_retention CUFF.67 chr1 + chr1:155182359-155182484 chr1:155182358-155182359;chr1:155182484-155182485 46;41 N alternative_donor CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 216;585 N jcn_only_AA CUFF.49 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 18;60 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 17;13 K alternative_first_exon CUFF.65 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 46;69 N jcn_only_AD CUFF.27 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 121;4 N jcn_only_AD CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 294;6 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:1991031-2066700 chr1:2013900-2066700 chr1:2006631-2006818;chr1:1990980-1991030 chr1:2013687-2013899 741;145 K intron_retention CUFF.63 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 109;145 K intron_retention CUFF.16 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 139;28 K alternative_last_exon CUFF.14 chr1 - chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921426-16921508 chr1:16926080-16928338 57;2782 N alternative_acceptor CUFF.84 chr1 + chr1:167353189-167358824 chr1:167353189-167356417 chr1:167356418-167358824 chr1:167358824-167358825 57;157 N cassette CUFF.88 chr1 + chr1:196913069-196919981 chr1:196913069-196918584;chr1:196918780-196919981 chr1:196918585-196918779 40;274 N jcn_only_AD chr1 + chr1:167298544-167301706;chr1:167288294-167301706 chr1:167227155-167301706 31;7 K cassette CUFF.104 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 80;62 K alternative_last_exon CUFF.34 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53904022-53904721 132;484 N intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 21;409 K cassette CUFF.35 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 164;194 K intron_retention CUFF.57 chr1 + chr1:145580323-145580504 chr1:145580322-145580323;chr1:145580504-145580505 10;42 N jcn_only_AD CUFF.42 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 29;4 N cassette CUFF.70 chr1 - chr1:156453223-156470277 chr1:156453223-156469223;chr1:156469353-156470277 chr1:156469224-156469352 43;60 N intron_retention CUFF.103 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 11;128 N alternative_acceptor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 240;9 N coord_cassette CUFF.28 chr1 + chr1:32541424-32557275 chr1:32541424-32542164;chr1:32542248-32542363;chr1:32542448-32557275 chr1:32542165-32542247;chr1:32542364-32542447 134;161 N jcn_only_AD CUFF.113 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 279;12 K alternative_first_exon CUFF.106 chr1 + chr1:224363650-224377278;chr1:224371534-224377278 chr1:224371121-224377278 chr1:224363458-224363649;chr1:224371347-224371533 chr1:224370889-224371120 316;191 N alternative_first_exon chr1 - chr1:153927643-153930820 chr1:153927643-153930621,chr1:153927643-153930536 chr1:153930821-153931091 chr1:153930622-153930642 31;130 N cassette CUFF.49 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 5;134 N jcn_only_AA CUFF.104,CUFF.86 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 69;18 K jcn_only_AA CUFF.30 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 157;17 N alternative_acceptor ENSG00000142634.8 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 3;12 N jcn_only_AD CUFF.18,CUFF.71 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 11;12 N jcn_only_AD CUFF.82 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 15;23 N jcn_only_AD CUFF.33 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 96;10 N cassette CUFF.113 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 53;369 K mutually_exclusive CUFF.85 chr1 - chr1:169696667-169697198,chr1:169697388-169698326 chr1:169696667-169696879,chr1:169697069-169698326 chr1:169697199-169697387 chr1:169696880-169697068 26;54 N alternative_acceptor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 209;27 N alternative_acceptor CUFF.113 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 279;12 N jcn_only_AD CUFF.46 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 29;12 N cassette CUFF.41 chr1 + chr1:70820791-70832126;chr1:70820892-70832126 chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126 chr1:70831829-70832011 376;154 N alternative_donor CUFF.27 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 174;13 N jcn_only_AD CUFF.90 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 6;14 N alternative_acceptor CUFF.108,CUFF.97 chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230227336-230338882 chr1:230338882-230338883 5;252 N alternative_donor CUFF.95 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 11;30 N jcn_only_AD CUFF.116 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 26;18 N alternative_first_exon chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612297 chr1:120572529-120572610 15;65 K intron_retention CUFF.9 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 130;94 K intron_retention CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 7;171 K alternative_first_exon CUFF.106 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224370889-224371120;chr1:224363458-224363649 chr1:224371347-224371533 258;249 K jcn_only_AA CUFF.13 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 44;39 N jcn_only_AA CUFF.81 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 39;25 K alternative_last_exon CUFF.43 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723126-85723154 372;25 K cassette CUFF.41 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 94;51 N alternative_donor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 192;12 N cassette CUFF.103 chr1 - chr1:213181809-213188954 chr1:213181809-213184549;chr1:213184801-213188954 chr1:213184550-213184800 9;256 K alternative_last_exon CUFF.113 chr1 + chr1:245246991-245250034,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245254795;chr1:245246991-245285221 chr1:245246991-245250061 chr1:245250547-245251133;chr1:245254796-245255091;chr1:245285222-245286291 chr1:245250062-245250259 1113;114 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 61;10 K intron_retention CUFF.49 chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 296;179 K cassette CUFF.80 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 60;30 K alternative_last_exon CUFF.113 chr1 + chr1:245246991-245250034,chr1:245246991-245254328;chr1:245246991-245254795;chr1:245246991-245285221;chr1:245246991-245250061 chr1:245246991-245250546 chr1:245254796-245255091;chr1:245285222-245286291;chr1:245250062-245250259 chr1:245250547-245251133 696;531 N alternative_donor CUFF.49 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 65;547 N jcn_only_AD CUFF.49 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 13;266 N intron_retention chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 27;81 K cassette CUFF.43 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 94;75 K alternative_last_exon CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110217369-110217889;chr1:110251103-110252171 chr1:110224431-110224456 168;15 N alternative_donor CUFF.35 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 63;63 N cassette CUFF.84 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 32;444 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 29;554 N cassette CUFF.28 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 189;360 N alternative_donor CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 44;8 N jcn_only_AD CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 216;18 K intron_retention CUFF.71 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 58;25 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 23;377 K intron_retention CUFF.113 chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 82;27 K cassette CUFF.16 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 76;56 N alternative_donor CUFF.27 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 89;98 K intron_retention CUFF.49 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 65;96 K alternative_first_exon CUFF.28 chr1 + chr1:32538700-32540551;chr1:32539474-32540551;chr1:32538653-32540551 chr1:32538054-32540551 chr1:32539464-32539473;chr1:32538503-32538652 chr1:32537632-32538053 603;57 K cassette CUFF.21 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 34;489 K intron_retention CUFF.24 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 11;77 N jcn_only_AD CUFF.28 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 367;7 K jcn_only_AA CUFF.49 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 56;65 N alternative_donor CUFF.27 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 111;76 N jcn_only_AA CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 240;9 K jcn_only_AD CUFF.67 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 67;14 K alternative_first_exon CUFF.108 chr1 + chr1:230203154-230338882 chr1:230314058-230338882 chr1:230202979-230203153 chr1:230313964-230314057 14;12 N cassette CUFF.65 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 6;514 N alternative_donor CUFF.18,CUFF.71 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 11;77 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 29;10 K alternative_first_exon CUFF.15 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963292-22963353 9;18 N jcn_only_AD CUFF.41 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 45;44 K alternative_first_exon CUFF.18 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26233278 chr1:26231230-26232879 chr1:26231635-26231733;chr1:26231540-26231626;chr1:26232343-26232614;chr1:26233279-26233547 chr1:26232880-26232969 375;20 K cassette CUFF.70 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 35;40 K cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 15;462 N cassette CUFF.84 chr1 + chr1:167190196-167301706;chr1:167190196-167272710 chr1:167190196-167210643;chr1:167210848-167301706,chr1:167210848-167272710 chr1:167210644-167210847 204;228 N jcn_only_AA CUFF.76 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 549;40 N alternative_donor CUFF.46 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 29;12 K alternative_first_exon CUFF.104 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817636-222817928 70;223 N cassette CUFF.5 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 64;1254 N jcn_only_AA chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 28;125 K cassette CUFF.1365 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 205;31 N jcn_only_AA CUFF.1359 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 28;22 K alternative_last_exon CUFF.1329,CUFF.1342 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600735 3;89 N cassette CUFF.1333 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 8;116 N intron_retention CUFF.1361 chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 35;366 K cassette CUFF.1362 chr9 + chr9:130988453-130996299 chr9:130988453-130994264;chr9:130994404-130996299 chr9:130994265-130994403 30;117 N jcn_only_AD CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 34;73 K cassette CUFF.1362 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 30;69 K jcn_only_AD CUFF.1345,CUFF.1361 chr9 - chr9:104239452-104251395 chr9:104239452-104242952 13;4 N jcn_only_AD CUFF.1361 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 115;56 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667574 chr9:125655188-125655305 52;75 K intron_retention CUFF.1370 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 243;20 N alternative_donor CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 4;16 N alternative_donor CUFF.1371 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 437;146 K cassette CUFF.1354 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 11;59 N jcn_only_AA CUFF.1325 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 73;242 N alternative_donor CUFF.1361 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 235;156 K intron_retention CUFF.1361 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 241;251 N alternative_acceptor CUFF.1365 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 9;11 K intron_retention CUFF.1361 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 678;44 N jcn_only_AA CUFF.1365 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 9;11 N alternative_donor CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 34;73 N alternative_donor CUFF.1359,CUFF.1365 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 220;43 K cassette CUFF.1341 chr9 - chr9:86924630-86928273 chr9:86924630-86925326;chr9:86925503-86928273 chr9:86925327-86925502 6;54 N jcn_only_AD chr9 - chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15225914 40;63 N jcn_only_AD CUFF.1350 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 14;14 K alternative_first_exon CUFF.1361 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130931355-130931480 chr9:130929818-130929954 669;126 K alternative_donor CUFF.1359 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 23;82 K cassette CUFF.1358 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 57;2503 N jcn_only_AD chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 15;10 N jcn_only_AD CUFF.1361 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 135;36 N intron_retention CUFF.1361 chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 65;319 K intron_retention CUFF.1325 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 100;18 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 103;68 K alternative_last_exon CUFF.1343 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000061-100000367 16;42 N intron_retention chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 39;34 K intron_retention CUFF.1361 chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 35;278 N jcn_only_AA CUFF.1364 chr9 + chr9:133320383-133327610 chr9:133320383-133326988 chr9:133326989-133327610 chr9:133327610-133327611 3;5 K jcn_only_AA CUFF.1333 chr9 + chr9:43853617-43861005 chr9:43853617-43861002 chr9:43861003-43861005 chr9:43861005-43861006 11;10 K cassette CUFF.1333 chr9 + chr9:43885073-43890295 chr9:43885073-43887610;chr9:43887734-43890295 chr9:43887611-43887733 16;43 N alternative_acceptor CUFF.1363 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 514;35 N jcn_only_AD CUFF.1330 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 29;27 K alternative_first_exon CUFF.1364 chr9 + chr9:133327431-133327610;chr9:133325721-133327610;chr9:133320383-133327610 chr9:133320586-133327610 chr9:133325716-133325720;chr9:133320316-133320382 chr9:133320510-133320585 24;10 K coord_cassette CUFF.1358 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 346;959 N jcn_only_AA CUFF.1363 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 48;494 K jcn_only_AD CUFF.1364 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 95;13 N alternative_donor chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 616;22 K cassette CUFF.1331 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 20;56 N cassette CUFF.1347 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 10;85 N jcn_only_AA CUFF.1365 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730313-135736984 chr9:135730312-135730313 212;8 N alternative_acceptor CUFF.1354 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123515590-123527125 chr9:123515589-123515590 chr9:123533626-123533795;chr9:123514256-123515589 4;440 K alternative_first_exon CUFF.1362 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002264-131002275 chr9:131003167-131003326 76;56 N jcn_only_AA CUFF.1330 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077397-35078340 chr9:35077396-35077397 29;49 K alternative_first_exon CUFF.1353 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350026-117350200 chr9:117350268-117350398 120;15 K jcn_only_AA CUFF.1359 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 32;45 K alternative_first_exon CUFF.1371 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780732-139793164 chr9:139780970-139780993;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780463-139780731 121;244 N alternative_donor CUFF.1361 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 372;19 N jcn_only_AA CUFF.1363 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 310;39 K mutually_exclusive CUFF.1329 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 28;92 K cassette CUFF.1371 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 166;119 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 68;108 K alternative_first_exon CUFF.1371 chr9 + chr9:139780732-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139780463-139780731;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780970-139780993 316;49 K alternative_first_exon CUFF.1329 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991341-34991413 chr9:34992981-34992983 43;5 N jcn_only_AA CUFF.1354 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123515590-123527125 chr9:123515589-123515590 chr9:123533626-123533795;chr9:123514256-123515589 4;12 N jcn_only_AD CUFF.1325 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 70;44 K intron_retention CUFF.1354 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 6;36 K intron_retention CUFF.1363 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 310;85 N cassette CUFF.1325 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 13;214 K alternative_first_exon CUFF.1371 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139784995-139793164 chr9:139777163-139793164 chr9:139780463-139780731;chr9:139780970-139780993;chr9:139784801-139784994 chr9:139777119-139777162 344;21 N alternative_acceptor CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 3;192 N jcn_only_AD CUFF.1359,CUFF.1361 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 87;35 N alternative_acceptor CUFF.1350 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 14;11 N intron_retention CUFF.1363 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 3;77 N jcn_only_AA CUFF.1325 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 245;70 K intron_retention CUFF.1328 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 19;69 N alternative_donor CUFF.1359,CUFF.1361 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 339;299 N jcn_only_AD CUFF.1325 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357 chr9:15214248-15249915 99;4 N alternative_acceptor CUFF.1363 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 48;501 N alternative_acceptor CUFF.1325 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 100;19 K alternative_acceptor CUFF.1350 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 76;16 K jcn_only_AD CUFF.1359 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 23;67 N alternative_last_exon CUFF.1333 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592044 310;10 K alternative_last_exon CUFF.1350 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 92;106 N alternative_acceptor CUFF.1330 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077397-35078340 chr9:35077396-35077397 29;142 K jcn_only_AA CUFF.1350 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 32;161 K alternative_last_exon CUFF.1357 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906333-124906657 236;282 K cassette CUFF.1370 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 147;494 K alternative_acceptor CUFF.1333 chr9 + chr9:43853617-43861005 chr9:43853617-43861002 chr9:43861003-43861005 chr9:43861005-43861006 11;10 N cassette CUFF.1342 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 7;128 N intron_retention CUFF.1370 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 20;20 N jcn_only_AA CUFF.1325 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 63;61 K intron_retention CUFF.1330 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 124;36 N alternative_acceptor CUFF.1363 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 536;13 K jcn_only_AA CUFF.1350 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 76;16 N jcn_only_AA CUFF.1340 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 21;21 N jcn_only_AA CUFF.1362 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 68;8 K intron_retention CUFF.1359 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 76;84 N alternative_acceptor CUFF.1364 chr9 + chr9:133320383-133327610 chr9:133320383-133326988 chr9:133326989-133327610 chr9:133327610-133327611 3;45 N alternative_donor CUFF.1361 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 321;317 N jcn_only_AD chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 9;24 N jcn_only_AD CUFF.1359,CUFF.1365 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 220;17 K alternative_first_exon CUFF.1364 chr9 + chr9:133327431-133327610;chr9:133325721-133327610;chr9:133320586-133327610 chr9:133320383-133327610 chr9:133325716-133325720;chr9:133320510-133320585 chr9:133320316-133320382 31;3 K cassette CUFF.1329 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 28;92 N jcn_only_AA CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 3;4 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687372 chr9:46686829-46686830;chr9:46687372-46687373 9;54 N jcn_only_AD CUFF.1325 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915 chr9:15214248-15224357 88;15 N alternative_last_exon CUFF.1359 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 chr9:125652452-125652824 chr9:125659558-125659855 77;164 N alternative_donor chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 231;160 N alternative_donor CUFF.1363 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 310;21 K intron_retention CUFF.1363 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 500;70 N intron_retention chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 16;32 K cassette CUFF.1366 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 15;20 K cassette CUFF.1350 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 29;342 K intron_retention CUFF.1361 chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 37;239 K jcn_only_AA CUFF.1333 chr9 + chr9:43861207-43884944 chr9:43861207-43875988 8;9 K intron_retention CUFF.1330 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 61;12 N alternative_acceptor CUFF.1359 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 28;702 K intron_retention CUFF.1358 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 290;149 N jcn_only_AD CUFF.1361 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 160;11 K alternative_first_exon CUFF.1358 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026882-125027217 chr9:125027840-125028059 14;132 K intron_retention CUFF.1361 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 72;231 N jcn_only_AA CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 6;4 N alternative_donor CUFF.1371 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 329;254 N alternative_acceptor CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 6;63 N cassette CUFF.1340 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 15;213 K alternative_first_exon CUFF.1325,CUFF.1339 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161505 chr9:71160845-71161032 15;51 N alternative_acceptor CUFF.1362 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 68;16 N intron_retention CUFF.1361 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 423;170 N jcn_only_AD CUFF.1363 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 310;3 K jcn_only_AD CUFF.1333 chr9 + chr9:43828222-43853496 chr9:43849852-43853496 14;3 K cassette CUFF.1350 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 10;383 K alternative_first_exon CUFF.1364 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351679-133351776 79;28 K jcn_only_AA CUFF.1354 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 6;17 N cassette CUFF.1331 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 4;82 N alternative_donor chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 15;52 N jcn_only_AD chr9 - chr9:15211396-15267911 chr9:15211396-15214136 3;92 N alternative_last_exon CUFF.1325 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249038-15249685 5;2651 N alternative_acceptor chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 28;270 K intron_retention CUFF.1361 chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 22;405 N jcn_only_AA CUFF.1363 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 507;35 N jcn_only_AD CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 4;11 N jcn_only_AD CUFF.1371 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 167;146 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687553 chr9:46686829-46686830;chr9:46687553-46687554 45;36 N alternative_donor CUFF.1325 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 70;2329 N jcn_only_AD chr9 - chr9:86485548-86498727 chr9:86485548-86495211 16;10 K jcn_only_AD CUFF.1325,CUFF.1344 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 18;11 N jcn_only_AD CUFF.1325 chr9 - chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15224337 82;21 K intron_retention CUFF.1330 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 45;39 N alternative_acceptor CUFF.1361 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 332;97 K jcn_only_AD CUFF.1336,CUFF.1340 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 45;9 N cassette CUFF.1358 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 82;685 N alternative_donor CUFF.1361 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130966464-130966465 335;56 N cassette CUFF.1361 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 113;472 K intron_retention CUFF.1364 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 3;16 K alternative_acceptor CUFF.1354 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 6;49 N jcn_only_AA CUFF.1358 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 55;61 N jcn_only_AA CUFF.1325 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 312;3 N alternative_donor chr9 - chr9:130950214-130952966 chr9:130950214-130952607 chr9:130952608-130952966 chr9:130952966-130952967 3;296 K intron_retention CUFF.1358 chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 107;151 N jcn_only_AA CUFF.1363 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 529;13 N cassette CUFF.1361 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 16;675 K cassette CUFF.1335 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 20;70 N jcn_only_AA CUFF.1325 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 100;8 N jcn_only_AD chr9 - chr9:130950214-130952966 chr9:130950214-130952607 chr9:130952608-130952966 chr9:130952966-130952967 3;219 N alternative_donor chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 9;24 N alternative_acceptor CUFF.1340 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 21;54 K jcn_only_AA CUFF.1361 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 63;272 K alternative_acceptor CUFF.1350 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 32;455 N jcn_only_AD CUFF.1361 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 57;65 N coord_cassette CUFF.1340 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 7;67 K cassette CUFF.1367 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 21;245 N alternative_donor CUFF.1371 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 400;183 N jcn_only_AD CUFF.1361 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 332;80 K alternative_acceptor CUFF.1361 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 63;279 K cassette CUFF.1350 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 201;14 K alternative_last_exon CUFF.1362 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017514 chr9:131016288-131016445 195;18 K alternative_donor CUFF.1336,CUFF.1340 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 45;42 N alternative_acceptor CUFF.1363 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 310;139 K cassette CUFF.1346 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 8;14 N alternative_donor CUFF.1330 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 29;78 N jcn_only_AD chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 100;22 K cassette CUFF.1362 chr9 + chr9:131008783-131009653 chr9:131008783-131009215;chr9:131009403-131009653 chr9:131009216-131009402 47;39 K jcn_only_AA CUFF.1333 chr9 + chr9:43828222-43853496 chr9:43828222-43844143 14;8 K alternative_first_exon CUFF.1364 chr9 + chr9:133327431-133327610;chr9:133320586-133327610;chr9:133320383-133327610 chr9:133325721-133327610 chr9:133320510-133320585;chr9:133320316-133320382 chr9:133325716-133325720 22;12 K alternative_last_exon CUFF.1333 chr9 + chr9:43853617-43861005,chr9:43853617-43861002 chr9:43853617-43854068 chr9:43861006-43861206 chr9:43854069-43854398 39;142 N jcn_only_AD CUFF.1371 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 281;32 K cassette CUFF.1364 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 15;140 N jcn_only_AD CUFF.1354,CUFF.1361 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 17;9 N cassette CUFF.1358 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 346;466 K alternative_acceptor CUFF.1359 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 32;54 N jcn_only_AA CUFF.1350 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 14;11 K mutually_exclusive CUFF.1346 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 13;17 N alternative_donor CUFF.1354,CUFF.1361 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 17;35 K cassette CUFF.1329 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 28;28 K alternative_first_exon CUFF.1371 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139777163-139793164 chr9:139784995-139793164 chr9:139780463-139780731;chr9:139780970-139780993;chr9:139777119-139777162 chr9:139784801-139784994 314;51 N alternative_donor CUFF.1350 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 14;14 N jcn_only_AA CUFF.1361 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 332;83 N cassette CUFF.1358 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 290;813 N alternative_donor CUFF.1361 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 332;80 K alternative_donor CUFF.1364 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 95;40 K cassette CUFF.1358 chr9 + chr9:125027218-125033142 chr9:125027218-125027740;chr9:125027825-125033142 chr9:125027741-125027824 648;236 N jcn_only_AD CUFF.1371 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 178;135 N alternative_acceptor CUFF.1365 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730313-135736984 chr9:135730312-135730313 212;18 N alternative_acceptor CUFF.1358 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 55;653 K intron_retention CUFF.1370 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 12;335 N alternative_acceptor CUFF.1325 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 63;85 K alternative_last_exon CUFF.1291,CUFF.1320 chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74894005 chr8:74891314-74891406 29;73 N alternative_donor CUFF.1321 chr8 + chr8:144375236-144377909 chr8:144377641-144377909 chr8:144375236-144377640 chr8:144375235-144375236 374;36 K alternative_first_exon CUFF.1323 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821529-144821673 15;24 K intron_retention CUFF.1277 chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 114;152 K alternative_first_exon CUFF.1272,CUFF.1275 chr8 - chr8:23225948-23228155,chr8:23225948-23239903;chr8:23225948-23261466;chr8:23225948-23228589 chr8:23225948-23282563 chr8:23261467-23261753;chr8:23228590-23228680 chr8:23282564-23282884 270;45 K alternative_first_exon CUFF.1283 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224515 16;147 N alternative_acceptor CUFF.1321 chr8 + chr8:144375236-144377909 chr8:144375236-144377548 chr8:144377549-144377909 chr8:144377909-144377910 374;3 K alternative_last_exon CUFF.1313 chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552501 chr8:118542962-118543066 44;16 K cassette CUFF.1294 chr8 - chr8:80963864-80965516 chr8:80963864-80964840;chr8:80964911-80965516 chr8:80964841-80964910 599;343 N coord_cassette CUFF.1281 chr8 - chr8:56652778-56663522 chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522 chr8:56656040-56656179;chr8:56657620-56657680 104;315 N alternative_donor CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107749829-107751685 chr8:107670414-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 132;7 K intron_retention CUFF.1280 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 112;19 K jcn_only_AA CUFF.1320 chr8 + chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364 chr8:144357364-144357365 28;332 N alternative_acceptor CUFF.1293,CUFF.1315 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 chr8:124637927-124646553 chr8:124646553-124646554 1103;38 K cassette CUFF.1294 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 190;620 N mutually_exclusive CUFF.1294 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 43;9 N jcn_only_AA CUFF.1309 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 66;13 K intron_retention CUFF.1270 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 62;54 K intron_retention CUFF.1272 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 65;49 K alternative_acceptor CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 40;39 N alternative_acceptor chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 56;5 K intron_retention CUFF.1305 chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 435;60 N alternative_donor CUFF.1277 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 126;49 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 24;689 K alternative_first_exon CUFF.1305,CUFF.1318 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855412 50;258 K alternative_first_exon CUFF.1275 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605653 chr8:29592687-29592739 28;23 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 148;133 K alternative_first_exon CUFF.1280 chr8 - chr8:38001905-38003480 chr8:38001905-38002739 chr8:38003481-38003665 chr8:38002740-38002865 31;95 K intron_retention CUFF.1277 chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 67;245 K cassette CUFF.1316 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 22;99 K alternative_first_exon CUFF.1311 chr8 + chr8:107670314-107691437;chr8:107531368-107691437;chr8:107630412-107691437 chr8:107593480-107691437 chr8:107531171-107531367;chr8:107630325-107630411 chr8:107593388-107593479 97;185 N alternative_donor chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 61;39 N jcn_only_AD chr8 + chr8:106370866-106431371;chr8:106400154-106431371 chr8:106427235-106431371 80;22 K alternative_first_exon CUFF.1305 chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057943-99057944 chr8:99057736-99057890 13;488 K jcn_only_AA CUFF.1320 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 149;100 N alternative_first_exon CUFF.1293 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75262814-75272371;chr8:75263702-75272371 chr8:75233481-75272371 chr8:75262585-75262813;chr8:75263591-75263701 chr8:75233365-75233480 236;83 K intron_retention CUFF.1320 chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 4;166 K intron_retention CUFF.1305 chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 31;242 N jcn_only_AD chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 7;10 N jcn_only_AD chr8 + chr8:106427235-106431371;chr8:106400154-106431371 chr8:106370866-106431371 36;66 K alternative_last_exon CUFF.1294 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80948812-80950470 42;3909 N jcn_only_AD CUFF.1277 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 126;8 K alternative_first_exon CUFF.1277,CUFF.1280 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30669836-30670215 chr8:30667506-30667827 517;566 N alternative_acceptor CUFF.1284,CUFF.1309 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 56;39 K cassette CUFF.1314 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 13;493 N alternative_donor CUFF.1298 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 264;68 K intron_retention CUFF.1294 chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 455;28 K alternative_last_exon CUFF.1320 chr8 + chr8:144356973-144358172,chr8:144356973-144358066 chr8:144356973-144357364,chr8:144356973-144357147 chr8:144358173-144359100 chr8:144357365-144357908 1004;1573 K cassette CUFF.1294 chr8 - chr8:80976829-81083659 chr8:80976829-81032049;chr8:81032120-81083659 chr8:81032050-81032119 85;98 K alternative_last_exon CUFF.1291,CUFF.1311 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74890991-74891247 chr8:74888540-74888726 91;122 K jcn_only_AA CUFF.1320 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 118;131 K intron_retention CUFF.1313 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 10;105 K alternative_first_exon CUFF.1272 chr8 - chr8:23225948-23228155,chr8:23225948-23239903;chr8:23225948-23282563;chr8:23225948-23228589 chr8:23225948-23261466 chr8:23282564-23282884;chr8:23228590-23228680 chr8:23261467-23261753 230;85 N alternative_donor CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107670414-107751685 chr8:107749829-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 40;99 K alternative_first_exon CUFF.1319 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915663-143915705 chr8:143916145-143916284 11;79 N jcn_only_AD CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107749829-107751685 chr8:107670414-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 81;7 K intron_retention CUFF.1270 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 77;70 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 41;78 K alternative_first_exon CUFF.1270 chr8 - chr8:22011553-22012072 chr8:22011553-22011654 chr8:22012073-22012144 chr8:22011655-22012026 8;255 N alternative_donor CUFF.1309 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 9;56 N alternative_donor CUFF.1311 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 247;28 K alternative_first_exon CUFF.1268 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 14;32 K intron_retention CUFF.1320 chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 332;69 N jcn_only_AD CUFF.1309 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 35;4 K alternative_first_exon CUFF.1321 chr8 + chr8:144373938-144375141;chr8:144374455-144375141;chr8:144373781-144375141 chr8:144373029-144375141 chr8:144374369-144374454;chr8:144373528-144373780 chr8:144372915-144373028 716;31 N alternative_donor CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107738538-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 118;21 K jcn_only_AA CUFF.1305 chr8 - chr8:99054947-99057170 chr8:99055004-99057170 chr8:99054947-99055003 chr8:99054946-99054947 31;172 K intron_retention CUFF.1305 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 164;247 K cassette CUFF.1301 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 9;131 N alternative_acceptor CUFF.1272 chr8 - chr8:23225948-23261466;chr8:23240027-23261466 chr8:23228276-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 105;14 N jcn_only_AD chr8 + chr8:106370866-106431371;chr8:106427235-106431371 chr8:106400154-106431371 88;14 N jcn_only_AA CUFF.1281 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 312;12 K alternative_first_exon CUFF.1272,CUFF.1281 chr8 - chr8:56676540-56685534;chr8:56676540-56685827 chr8:56676540-56685785 chr8:56685828-56685923 chr8:56685786-56685793 240;70 K intron_retention CUFF.1280 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 31;10 N cassette CUFF.1281 chr8 - chr8:56652778-56663522;chr8:56656180-56663522 chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522 chr8:56657620-56657680 119;279 K jcn_only_AA CUFF.1275 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 26;21 N cassette CUFF.1272 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 15;234 K alternative_acceptor CUFF.1320 chr8 + chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364 chr8:144357364-144357365 28;954 N alternative_donor CUFF.1269 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 27;8 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 18;210 N alternative_donor CUFF.1311 chr8 + chr8:107738538-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107726214-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 127;12 N jcn_only_AD CUFF.1298 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 264;12 N alternative_acceptor CUFF.1311 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 185;223 N alternative_donor chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 54;46 K alternative_first_exon CUFF.1291 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888470-74888726 85;235 K alternative_first_exon CUFF.1311 chr8 + chr8:107670314-107691437;chr8:107593480-107691437;chr8:107630412-107691437 chr8:107531368-107691437 chr8:107593388-107593479;chr8:107630325-107630411 chr8:107531171-107531367 225;57 N alternative_acceptor chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 25;5 K alternative_acceptor CUFF.1280 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 112;44 N jcn_only_AA chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 56;5 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 32;75 K alternative_first_exon CUFF.1291 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884593-74884856 chr8:74884860-74885228 140;99 K alternative_acceptor CUFF.1270 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 10;105 N cassette CUFF.1281 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 41;321 K jcn_only_AA CUFF.1320 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 231;18 K alternative_last_exon CUFF.1280 chr8 - chr8:38001905-38003480 chr8:38002834-38003480 chr8:38001167-38001904 chr8:38002740-38002833 126;79 K alternative_last_exon CUFF.1293 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401106 chr8:75276220-75276956 36;529 K intron_retention CUFF.1320 chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 133;52 K jcn_only_AA CUFF.1309 chr8 + chr8:106801153-106810951 chr8:106801153-106807983 9;14 K alternative_first_exon CUFF.1313 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542613-118543066 72;390 K jcn_only_AA CUFF.1270 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 10;87 N jcn_only_AA CUFF.1272 chr8 - chr8:23225948-23261466;chr8:23228276-23261466 chr8:23240027-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 46;68 K cassette CUFF.1311 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 6;143 N jcn_only_AA ENSG00000168077.9 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27528417-27534085 chr8:27534085-27534086 chr8:27516013-27517056;chr8:27534086-27534293 4;10 K alternative_first_exon CUFF.1321 chr8 + chr8:144373938-144375141;chr8:144374455-144375141;chr8:144373029-144375141 chr8:144373781-144375141 chr8:144374369-144374454;chr8:144372915-144373028 chr8:144373528-144373780 63;684 N alternative_first_exon CUFF.1293 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75262814-75272371 chr8:75263702-75272371 chr8:75233365-75233480;chr8:75262585-75262813 chr8:75263591-75263701 306;13 N jcn_only_AD CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107738538-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 76;12 K alternative_last_exon CUFF.1319 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143995379-143995461 chr8:143927811-143928264 11;347 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 172;176 K intron_retention CUFF.1294 chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 190;27 K intron_retention CUFF.1280 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 79;14 K intron_retention CUFF.1277 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 71;74 N cassette CUFF.1293 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 114;276 N alternative_acceptor CUFF.1272 chr8 - chr8:23240027-23261466;chr8:23228276-23261466 chr8:23225948-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 86;33 N cassette CUFF.1281 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619 chr8:56656040-56656179 117;209 K alternative_first_exon CUFF.1280 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008783 chr8:38006594-38006641 442;31 K jcn_only_AD CUFF.1291 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 87;8 N jcn_only_AA CUFF.1311 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 185;45 K cassette CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055004-99057054;chr8:99057317-99057574 chr8:99057055-99057316 148;481 N intron_retention CUFF.1281 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 8;21 N jcn_only_AD CUFF.1311 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107670414-107751685 chr8:107749829-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 30;58 K alternative_first_exon CUFF.1311 chr8 + chr8:107670314-107691437;chr8:107531368-107691437;chr8:107593480-107691437 chr8:107630412-107691437 chr8:107531171-107531367;chr8:107593388-107593479 chr8:107630325-107630411 260;22 N alternative_acceptor ENSG00000168077.9 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27528417-27534085 chr8:27534085-27534086 chr8:27516013-27517056;chr8:27534086-27534293 4;287 N cassette CUFF.1294 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 453;407 K alternative_last_exon CUFF.1305 chr8 - chr8:99037967-99057170 chr8:99054947-99057170,chr8:99055004-99057170 chr8:99037079-99037966 chr8:99054873-99054946 54;203 K intron_retention CUFF.1280 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 92;25 N jcn_only_AD chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 10;46 N cassette CUFF.1294 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 458;494 K intron_retention CUFF.1294 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 433;9 N alternative_first_exon CUFF.1293 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371 chr8:75262814-75272371 chr8:75233365-75233480;chr8:75263591-75263701 chr8:75262585-75262813 116;203 N jcn_only_AD chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 53;3 K cassette CUFF.1281 chr8 - chr8:56668971-56676494 chr8:56668971-56675193;chr8:56675588-56676494 chr8:56675194-56675587 98;1081 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 24;121 K jcn_only_AA CUFF.1270 chr8 - chr8:22011553-22012072 chr8:22011727-22012072 8;77 K intron_retention CUFF.1280 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 14;23 K intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 85;25 N jcn_only_AA CUFF.1272 chr8 - chr8:23225948-23261466;chr8:23240027-23261466 chr8:23228276-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 101;13 K cassette CUFF.1314 chr8 - chr8:120772979-120774654 chr8:120772979-120773847;chr8:120774013-120774654 chr8:120773848-120774012 115;127 K alternative_first_exon CUFF.1316 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963430-126963482 chr8:126963158-126963424 15;26 N jcn_only_AD CUFF.1311 chr8 + chr8:107738538-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107726214-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 77;11 K alternative_acceptor CUFF.1305 chr8 - chr8:99054947-99057170 chr8:99055004-99057170 chr8:99054947-99055003 chr8:99054946-99054947 31;291 K alternative_first_exon CUFF.1314 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120790259-120790369 chr8:120779243-120779411 6;51 N jcn_only_AD CUFF.1311 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 247;21 N alternative_donor chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 7;336 K alternative_acceptor CUFF.1266 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 33;13 N jcn_only_AA chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 25;3 K alternative_first_exon CUFF.1270,CUFF.1303 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085450 chr8:96084945-96085148 101;10 N alternative_donor CUFF.1309 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 35;5 N jcn_only_AA CUFF.1293,CUFF.1315 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 chr8:124637927-124646553 chr8:124646553-124646554 1103;38 K alternative_last_exon CUFF.1272 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 chr8:23225510-23225947 chr8:23261423-23261586 77;221 N alternative_donor chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 85;15 N jcn_only_AD chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 49;7 K alternative_last_exon CUFF.1272 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23185895-23186078 chr8:23188946-23189521 219;405 K jcn_only_AA CUFF.1284 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 46;42 K jcn_only_AD CUFF.1291 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 54;41 K alternative_last_exon CUFF.1309 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106573591-106573709 chr8:106463786-106463907 163;53 N jcn_only_AD CUFF.1269 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 27;8 N intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 24;28 K jcn_only_AD CUFF.1291 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 49;46 N jcn_only_AD chr8 - chr8:120818642-120843916 chr8:120818642-120831585 17;3 K jcn_only_AA CUFF.1280 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 112;31 N jcn_only_AA CUFF.1321 chr8 + chr8:144375236-144377909 chr8:144375236-144377548 chr8:144377549-144377909 chr8:144377909-144377910 374;3 K jcn_only_AA CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 40;39 K alternative_first_exon CUFF.1272 chr8 - chr8:23225948-23228155,chr8:23225948-23239903;chr8:23225948-23261466;chr8:23225948-23282563 chr8:23225948-23228589 chr8:23261467-23261753;chr8:23282564-23282884 chr8:23228590-23228680 269;46 K jcn_only_AA CUFF.1266 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 33;13 N jcn_only_AA CUFF.1284,CUFF.1309 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 56;10 K alternative_first_exon CUFF.1321 chr8 + chr8:144373938-144375141;chr8:144373029-144375141;chr8:144373781-144375141 chr8:144374455-144375141 chr8:144372915-144373028;chr8:144373528-144373780 chr8:144374369-144374454 740;7 N alternative_acceptor CUFF.1309 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 66;23 K intron_retention CUFF.1281 chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 30;98 N alternative_acceptor CUFF.1281 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 312;29 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 143;120 K alternative_first_exon CUFF.1309 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456508-106456609 chr8:106541112-106541197 128;6 K alternative_acceptor CUFF.1320 chr8 + chr8:144356973-144358172 chr8:144356973-144358066 chr8:144358067-144358172 chr8:144358172-144358173 4;267 N alternative_acceptor CUFF.1272 chr8 - chr8:23225948-23261466;chr8:23228276-23261466 chr8:23240027-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 47;72 K intron_retention CUFF.1308 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 68;108 K alternative_last_exon CUFF.1284,CUFF.1323 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824286 1047;91 K intron_retention CUFF.1294 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 599;99 N cassette CUFF.1320 chr8 + chr8:144349655-144356873 chr8:144349655-144351529;chr8:144351691-144356873 chr8:144351530-144351690 47;433 K cassette CUFF.1281 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 30;717 N jcn_only_AD CUFF.1321 chr8 + chr8:144375236-144377909 chr8:144377641-144377909 chr8:144375236-144377640 chr8:144375235-144375236 374;3 K intron_retention CUFF.1320 chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 28;315 N jcn_only_AA CUFF.1272 chr8 - chr8:23240027-23261466;chr8:23228276-23261466 chr8:23225948-23261466 chr8:23225948-23228275;chr8:23228276-23240026 chr8:23225947-23225948;chr8:23228275-23228276 81;33 N jcn_only_AD CUFF.1309 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 9;16 K jcn_only_AA CUFF.1320 chr8 + chr8:144356973-144358172 chr8:144356973-144358066 chr8:144358067-144358172 chr8:144358172-144358173 4;133