#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 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 7;39 K alternative_acceptor CUFF.326 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 104;41 K alternative_first_exon CUFF.331 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 31;15 K intron_retention CUFF.331 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 21;17 K jcn_only_AA CUFF.328 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 38;157 N jcn_only_AD CUFF.315 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 15;114 N cassette CUFF.315 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 36;83 K cassette CUFF.323 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 22;11 N jcn_only_AD CUFF.325 chr13 + chr13:51805516-51825603 chr13:51819556-51825603 chr13:51805516-51819555 chr13:51805515-51805516 4;29 K alternative_first_exon CUFF.331 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525609-103525693 chr13:103527056-103527208 28;18 K alternative_first_exon CUFF.328,CUFF.329 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133452 chr13:101133234-101133277 22;22 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 14;34 N jcn_only_AA CUFF.322 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 28;36 N alternative_first_exon CUFF.315 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 15;51 K alternative_acceptor CUFF.328 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 38;136 N alternative_acceptor CUFF.322 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 28;0 N alternative_acceptor CUFF.315 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 76;2 N cassette CUFF.322 chr13 - chr13:25525627-25542343 chr13:25525627-25541529;chr13:25541592-25542343 chr13:25541530-25541591 12;305 N jcn_only_AA CUFF.315 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 76;10 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 7;317 K alternative_donor CUFF.328 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 143;50 K jcn_only_AA CUFF.327 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 12;16 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 7;1 N jcn_only_AA chr13 + chr13:21141396-21148518 chr13:21141396-21141808 17;41 K alternative_last_exon CUFF.329 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131801-101132017 6;69 N alternative_donor CUFF.315 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 76;0 K intron_retention CUFF.315 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 106;17 N jcn_only_AA CUFF.325 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 15;113 K alternative_first_exon CUFF.327,CUFF.328 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493532-78493903 chr13:78493142-78493465 2;24 N alternative_acceptor CUFF.319 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 9;4 K alternative_last_exon CUFF.315,CUFF.331 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511288 12;2 K alternative_first_exon CUFF.328 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97646966 chr13:97646552-97646795 8;163 K alternative_first_exon CUFF.324 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590164-33590451 chr13:33590601-33591397 34;41 N jcn_only_AD CUFF.315 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 76;6 N alternative_donor CUFF.325 chr13 + chr13:51805516-51825603 chr13:51819556-51825603 chr13:51805516-51819555 chr13:51805515-51805516 4;0 K jcn_only_AA CUFF.326 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 104;23 N jcn_only_AA CUFF.322 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 38;8 N alternative_acceptor CUFF.325 chr13 + chr13:51805516-51825603 chr13:51805516-51819447 chr13:51819448-51825603 chr13:51825603-51825604 4;1 N jcn_only_AA CUFF.319 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 9;11 K jcn_only_AD CUFF.324 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 7;66 K jcn_only_AD CUFF.328 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 143;76 K alternative_first_exon CUFF.327,CUFF.330 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102568995 5;12 N alternative_acceptor CUFF.322 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 38;0 K jcn_only_AA CUFF.325 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 23;89 K alternative_acceptor CUFF.327 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 12;31 K alternative_donor CUFF.324 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 7;43 N jcn_only_AA CUFF.325 chr13 + chr13:51805516-51825603 chr13:51805516-51819447 chr13:51819448-51825603 chr13:51825603-51825604 4;27 N cassette CUFF.315 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 15;48 N alternative_donor chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 7;57 K intron_retention CUFF.327 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 2;6 K alternative_acceptor CUFF.251,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 968;290 N jcn_only_AD CUFF.269 chr12 + chr12:21229504-21279041;chr12:21242864-21279041 chr12:21272562-21279041 64;31 N alternative_acceptor CUFF.270 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 117;2 N alternative_acceptor chr12 - chr12:22610096-22612425;chr12:22611490-22612425 chr12:22611520-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 23;6 N cassette CUFF.256 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 10;84 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 48;48 K jcn_only_AA CUFF.269 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 7;44 N jcn_only_AA CUFF.270 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 148;111 K intron_retention CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 chr12:56578814-56578876;chr12:56579939-56580024 260;64 K intron_retention chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 41;37 K jcn_only_AA CUFF.269 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 13;27 N jcn_only_AA CUFF.277 chr12 - chr12:48396825-48398019;chr12:48394878-48398019 chr12:48393909-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 107;51 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26148064-26208168;chr12:26205930-26208168 chr12:26174452-26208168 chr12:26147970-26148063;chr12:26205724-26205929 chr12:26174301-26174451 80;350 K cassette CUFF.291 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 chr12:56575788-56575863;chr12:56577959-56578028 329;73 K intron_retention CUFF.297 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 104;47 N cassette CUFF.291 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 chr12:56566369-56566488;chr12:56567480-56567633 129;44 K intron_retention CUFF.297 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 34;54 N alternative_donor CUFF.299 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 164;111 N jcn_only_AD CUFF.303 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 69;19 K intron_retention CUFF.291 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 chr12:56574761-56574885;chr12:56575266-56575381 59;35 N alternative_donor CUFF.277 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 52;14 K cassette CUFF.291 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 chr12:56565055-56565216;chr12:56566212-56566274 17;98 N alternative_donor CUFF.265 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 314;2 K alternative_last_exon CUFF.303 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254064-77254193 chr12:77256520-77256739 53;17 N intron_retention chr12 - chr12:69235469-69236633 chr12:69235468-69235469;chr12:69236633-69236634 2;83 N alternative_donor CUFF.254 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440484-4444817 chr12:4440483-4440484 32;1 K cassette CUFF.285 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 11;61 N jcn_only_AA CUFF.287 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1756;39 N alternative_acceptor CUFF.309 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 6;9 K jcn_only_AA CUFF.308 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 87;37 N cassette CUFF.270 chr12 - chr12:22646272-22666227 chr12:22646272-22659644;chr12:22659754-22666227 chr12:22659645-22659753 28;206 N alternative_first_exon CUFF.270,CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48298737;chr12:48276558-48293619 chr12:48276558-48336645 chr12:48298738-48298880;chr12:48293620-48293692 chr12:48336646-48336831 19;3 K intron_retention CUFF.299 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 64;224 N jcn_only_AD CUFF.269 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 58;37 K intron_retention CUFF.304 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 7;13 K coord_cassette CUFF.255 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 39;46 K alternative_first_exon CUFF.260 chr12 + chr12:9723489-9725598 chr12:9724170-9725598 chr12:9723307-9723488 chr12:9724058-9724169 5;4 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 1466;54 N jcn_only_AD CUFF.309 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 64;23 K jcn_only_AD CUFF.307 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 19;17 K intron_retention CUFF.265 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 327;47 N alternative_acceptor CUFF.294 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 129;7 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 30;7 N coord_cassette CUFF.299 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 60;42 N alternative_donor CUFF.273 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26148064-26164754 chr12:26148063-26148064 24;1 N alternative_donor CUFF.287 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1746;9 N jcn_only_AD chr12 - chr12:22610096-22611417;chr12:22610096-22612425 chr12:22610096-22622642 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 176;2 N alternative_acceptor CUFF.309 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 7;59 N coord_cassette CUFF.299 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 36;92 K cassette CUFF.279 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 46;35 K alternative_first_exon CUFF.272 chr12 - chr12:25702481-25705804,chr12:25702481-25706002,chr12:25702481-25710172,chr12:25702481-25801427;chr12:25702481-25783528 chr12:25702481-25706098 chr12:25783529-25783770 chr12:25706099-25706204 190;18 N jcn_only_AD CUFF.308,CUFF.309 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 68;6 K jcn_only_AD CUFF.297 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 108;181 K intron_retention CUFF.301 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 28;5 K alternative_last_exon CUFF.273 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26222421 94;67 N jcn_only_AA CUFF.272 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 27;141 N alternative_acceptor chr12 - chr12:22610096-22612425;chr12:22611520-22612425 chr12:22611490-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 20;9 N coord_cassette CUFF.299 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 29;89 N alternative_acceptor CUFF.277 chr12 - chr12:48393909-48398019;chr12:48394878-48398019 chr12:48396825-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 67;2 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25650729-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25650513-25650728;chr12:25562235-25562364 chr12:25629088-25629394 171;54 N jcn_only_AA CUFF.294 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 170;8 N cassette CUFF.272 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 71;165 N jcn_only_AD CUFF.277 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 51;132 K alternative_last_exon CUFF.262 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743303 chr12:11716635-11717337 60;21 N alternative_donor CUFF.308,CUFF.309 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 68;6 N alternative_acceptor CUFF.309 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 22;13 N intron_retention chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 20;130 N jcn_only_AD CUFF.287 chr12 + chr12:53846161-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 543;71 N cassette CUFF.299 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 161;218 K cassette CUFF.255 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665717-4668022 chr12:4665519-4665716 116;116 K cassette CUFF.294 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 57;185 K alternative_first_exon CUFF.306 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834580-111834677 10;8 N alternative_donor CUFF.255 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 40;3 K jcn_only_AD CUFF.276,CUFF.307 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 54;235 K cassette CUFF.249 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 223;118 N alternative_acceptor CUFF.269 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 206;13 N jcn_only_AD CUFF.287 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1746;26 N jcn_only_AD CUFF.270 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 103;65 K intron_retention CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 308;103 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 35;69 N jcn_only_AD chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 48;58 N alternative_donor CUFF.303 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 69;8 N alternative_acceptor CUFF.270 chr12 - chr12:22610096-22622642 chr12:22612477-22622642 chr12:22610096-22612476 chr12:22610095-22610096 2;11 N jcn_only_AD CUFF.270 chr12 - chr12:22610096-22622642;chr12:22610096-22612425 chr12:22610096-22611417 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 16;162 N alternative_donor CUFF.277 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 51;10 N intron_retention chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 21;36 K cassette CUFF.284 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 44;14 N alternative_donor CUFF.270 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 103;14 N cassette CUFF.276 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 276;23 N jcn_only_AD CUFF.249,CUFF.256 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 28;79 N intron_retention CUFF.276 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 5;9 N jcn_only_AD CUFF.251 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 96;21 K intron_retention CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 51;122 N jcn_only_AD CUFF.269 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 68;27 N intron_retention CUFF.249 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 20;26 N jcn_only_AA CUFF.309 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 7;119 N cassette CUFF.287 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 42;1482 K intron_retention CUFF.297 chr12 + chr12:58015211-58015472 chr12:58015210-58015211;chr12:58015472-58015473 167;89 N jcn_only_AD CUFF.251 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 93;24 K jcn_only_AD CUFF.303 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 62;504 N alternative_first_exon CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48298737;chr12:48276558-48336645 chr12:48276558-48293619 chr12:48298738-48298880;chr12:48336646-48336831 chr12:48293620-48293692 11;11 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 11;61 K alternative_donor CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 8;23 K cassette CUFF.256 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 47;32 N alternative_donor CUFF.309 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 64;3 K alternative_donor CUFF.307 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 19;16 N jcn_only_AD CUFF.255 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 619;110 K jcn_only_AA CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 403;1140 N jcn_only_AA CUFF.270 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 211;48 N cassette CUFF.265 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 7;263 K cassette CUFF.285 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 32;28 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 13;6 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 24;13 K intron_retention chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 196;107 N alternative_acceptor CUFF.307 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 23;15 K cassette CUFF.255 chr12 + chr12:4662314-4668022 chr12:4662314-4665596;chr12:4665669-4668022 chr12:4665597-4665668 116;48 N alternative_first_exon CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48293620-48293692;chr12:48336646-48336831 chr12:48298738-48298880 19;3 N cassette CUFF.275 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 9;287 K alternative_first_exon CUFF.254 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430371-4430469 chr12:4433831-4433929 29;3 K alternative_first_exon CUFF.269 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011373-21011505 chr12:21172291-21172314 23;9 K jcn_only_AA CUFF.285 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 18;29 N cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 105;103 N alternative_acceptor CUFF.294 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 124;12 N mutually_exclusive CUFF.256 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 14;21 N coord_cassette CUFF.255 chr12 + chr12:4653078-4655474 chr12:4653078-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 45;10 K alternative_donor CUFF.280 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;31 K alternative_first_exon CUFF.251 chr12 + chr12:1684008-1740463,chr12:1640117-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463 chr12:1726310-1740463 chr12:1639057-1639175 chr12:1725768-1726309 67;211 K alternative_donor CUFF.303 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 62;253 K intron_retention CUFF.294 chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 52;84 K intron_retention CUFF.291 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 chr12:56558087-56558152;chr12:56558432-56558515 81;30 N cassette CUFF.255 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 403;53 K intron_retention CUFF.309 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 3;30 K cassette CUFF.299 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 185;214 N jcn_only_AA CUFF.269,CUFF.287 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1785;10 N jcn_only_AD CUFF.277 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 52;27 K intron_retention CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 8;11 K coord_cassette CUFF.249 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 30;142 N alternative_donor chr12 - chr12:22610096-22611417;chr12:22610096-22612425 chr12:22610096-22622642 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 3;2 K intron_retention CUFF.256 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 159;56 N cassette CUFF.299 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 217;136 N jcn_only_AD CUFF.304 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 11;13 N alternative_donor chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 6;231 K intron_retention CUFF.286 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 134;53 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092 chr12:49349478-49349543;chr12:49349881-49350318 14;45 K jcn_only_AD CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 8;28 K cassette CUFF.304 chr12 - chr12:102796345-102813286 chr12:102796345-102811732;chr12:102811782-102813286 chr12:102811733-102811781 29;47 N jcn_only_AD CUFF.299 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 164;452 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 12;72 N jcn_only_AA CUFF.309 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 6;13 N coord_cassette CUFF.297 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 48;22 K intron_retention CUFF.309 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 106;17 N cassette CUFF.297 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 55;310 N jcn_only_AD CUFF.249 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 21;20 K intron_retention CUFF.262 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 21;15 N alternative_acceptor CUFF.279 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 18;1 N jcn_only_AD CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 172;102 K jcn_only_AA CUFF.273 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 42;40 K intron_retention CUFF.249 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 137;27 N cassette CUFF.299 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 22;85 K intron_retention CUFF.291 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 chr12:56577645-56577714;chr12:56577959-56578028 134;23 N alternative_acceptor chr12 - chr12:22611520-22612425;chr12:22611490-22612425 chr12:22610096-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 15;14 N coord_cassette CUFF.255 chr12 + chr12:4653071-4655474 chr12:4653071-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 340;11 N intron_retention chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 86;96 N alternative_acceptor CUFF.273 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 29;79 K cassette CUFF.249 chr12 - chr12:347177-351779 chr12:347177-347336;chr12:347510-351779 chr12:347337-347509 94;193 N jcn_only_AD CUFF.265 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 314;7 N jcn_only_AA CUFF.277 chr12 - chr12:48396825-48398019;chr12:48393909-48398019 chr12:48394878-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 59;99 N coord_cassette CUFF.299 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 60;33 K cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 14;64 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 35;99 K cassette CUFF.279 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 46;111 N jcn_only_AA chr12 - chr12:22611520-22612425;chr12:22611490-22612425 chr12:22610096-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 133;14 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 71;86 N alternative_acceptor chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 30;1746 N jcn_only_AD CUFF.294 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 107;167 K coord_cassette CUFF.295 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 265;53 N jcn_only_AD CUFF.276,CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 269;5 N jcn_only_AD CUFF.251 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 45;72 N jcn_only_AA CUFF.273 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 67;329 K intron_retention CUFF.294 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 107;73 N alternative_donor CUFF.249 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 21;9 N coord_cassette CUFF.299 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 54;24 N jcn_only_AA CUFF.249 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 15;37 K jcn_only_AA CUFF.251,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 968;554 K coord_cassette CUFF.249 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 30;82 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173434 8;75 K intron_retention CUFF.261 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 13;25 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25629395-25656671;chr12:25562365-25656671 chr12:25650729-25656671 chr12:25629088-25629394;chr12:25562235-25562364 chr12:25650513-25650728 187;38 K intron_retention CUFF.291 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 chr12:56578814-56578895;chr12:56579939-56580024 72;81 N jcn_only_AD CUFF.249 chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 91;15 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 15;4 N jcn_only_AA CUFF.294 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 71;107 K alternative_last_exon CUFF.308 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633246-113633694 chr12:113637854-113638618 107;78 K alternative_acceptor CUFF.285 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 18;15 K cassette CUFF.291 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 chr12:56556763-56557549;chr12:56558432-56558515 14;93 K intron_retention CUFF.294 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 276;14 N jcn_only_AA CUFF.277 chr12 - chr12:48393909-48398019;chr12:48394878-48398019 chr12:48396825-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 150;8 N coord_cassette CUFF.299 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 29;21 N alternative_acceptor CUFF.301 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 44;1 N alternative_acceptor CUFF.270 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 8;111 N cassette CUFF.255 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 324;394 K coord_cassette CUFF.256 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 29;89 K cassette CUFF.263 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 4;100 N cassette CUFF.287 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 1174;329 N cassette CUFF.255 chr12 + chr12:4653078-4655474;chr12:4653071-4655474;chr12:4653071-4654947 chr12:4653071-4654384,chr12:4653078-4654384;chr12:4654479-4655474,chr12:4654479-4654947 chr12:4654385-4654478 432;50 N cassette CUFF.272 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 43;170 N intron_retention chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 22;26 K alternative_acceptor CUFF.308 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 87;38 N alternative_donor CUFF.270 chr12 - chr12:22610096-22611417;chr12:22610096-22622642 chr12:22610096-22612425 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 5;0 N jcn_only_AA CUFF.307 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 23;30 N jcn_only_AA CUFF.301 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 44;22 N jcn_only_AD CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 203;22 K alternative_donor CUFF.297 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 108;99 K alternative_first_exon CUFF.282 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404235-52404346 32;26 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 24;13 N jcn_only_AD chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 6;468 K alternative_first_exon CUFF.277 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48383011-48383064 chr12:48382209-48382320 3;76 K cassette CUFF.307 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 7;31 K cassette CUFF.286 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 9;164 K intron_retention CUFF.282 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 155;66 N coord_cassette CUFF.299 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 161;47 N alternative_donor CUFF.304 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 11;70 N mutually_exclusive CUFF.270 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 42;22 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 35;8 N coord_cassette CUFF.299 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 45;20 N jcn_only_AA CUFF.273 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 29;31 N jcn_only_AD CUFF.270 chr12 - chr12:22610096-22611417;chr12:22610096-22622642 chr12:22610096-22612425 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 163;14 K coord_cassette CUFF.256 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7108732;chr12:7108792-7125577 chr12:7091837-7091943;chr12:7092593-7092700;chr12:7108733-7108791 29;70 N coord_cassette CUFF.299 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 45;34 N coord_cassette CUFF.299 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 54;21 N jcn_only_AA chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 49;1746 N jcn_only_AA chr12 - chr12:22610096-22612425;chr12:22611490-22612425 chr12:22611520-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 96;52 N cassette CUFF.299 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 57;60 N coord_cassette CUFF.299 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 12;57 N alternative_donor CUFF.287 chr12 + chr12:53846161-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 33;4 N alternative_acceptor CUFF.294 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 71;65 K alternative_acceptor CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 260;70 K coord_cassette CUFF.269 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 13;52 K intron_retention CUFF.256 chr12 - chr12:7086908-7087502 chr12:7086907-7086908;chr12:7087502-7087503 63;38 N alternative_donor CUFF.270 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 48;4 K alternative_first_exon CUFF.273 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26111962-26112081 chr12:26126724-26126820 78;8 N jcn_only_AD CUFF.254 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440484-4444817 chr12:4440483-4440484 32;10 K intron_retention CUFF.297 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 35;22 N cassette CUFF.297 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 48;142 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 72;115 N coord_cassette CUFF.299 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 439;42 K jcn_only_AA CUFF.249 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 31;83 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25650729-25656671;chr12:25629395-25656671 chr12:25562365-25656671 chr12:25650513-25650728;chr12:25629088-25629394 chr12:25562235-25562364 140;85 K alternative_acceptor CUFF.255,CUFF.287 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 74;95 K intron_retention CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 968;31 N jcn_only_AA CUFF.294 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 166;12 K cassette CUFF.286 chr12 - chr12:53471046-53473094 chr12:53471046-53471844;chr12:53471956-53473094 chr12:53471845-53471955 79;49 N cassette CUFF.270 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 66;262 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 14;85 N alternative_acceptor chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 20;111 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26205930-26208168;chr12:26174452-26208168 chr12:26148064-26208168 chr12:26205724-26205929;chr12:26174301-26174451 chr12:26147970-26148063 403;27 N jcn_only_AD CUFF.255 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 40;5 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 193;421 N coord_cassette CUFF.275 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 381;53 N jcn_only_AA CUFF.287 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 1778;5 N jcn_only_AD CUFF.270 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 48;24 N coord_cassette CUFF.299 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 161;36 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 181;6 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 43;155 N alternative_acceptor CUFF.287 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1755;21 K cassette CUFF.285 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 32;27 K intron_retention CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 92;82 N mutually_exclusive CUFF.287 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 288;16 N alternative_acceptor CUFF.260 chr12 + chr12:9723489-9725598 chr12:9723489-9724056 chr12:9724057-9725598 chr12:9725598-9725599 6;0 N alternative_acceptor CUFF.277 chr12 - chr12:48396825-48398019;chr12:48393909-48398019 chr12:48394878-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 53;16 N cassette CUFF.297 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 277;32 K jcn_only_AA CUFF.255,CUFF.287 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 74;139 N alternative_donor CUFF.301 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 44;3 K alternative_last_exon CUFF.273 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173434 70;34 K coord_cassette CUFF.287 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 852;315 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 13;19 N cassette CUFF.299 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 716;132 N cassette CUFF.299 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 137;459 N jcn_only_AA CUFF.294 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 127;52 K intron_retention CUFF.291 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 chr12:56578628-56578720;chr12:56578814-56578876 443;19 K jcn_only_AD CUFF.255 chr12 + chr12:4662256-4668022;chr12:4665717-4668022 chr12:4665669-4668022 340;40 N jcn_only_AA CUFF.309 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 22;3 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 607;7 K intron_retention CUFF.281 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 27;10 N alternative_acceptor CUFF.249 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 15;7 K cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 14;152 N intron_retention chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 48;23 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49349981-49351092 chr12:49349478-49349543;chr12:49349881-49349980 14;29 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 7;321 K intron_retention CUFF.294 chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 102;73 N alternative_acceptor CUFF.294 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 84;52 K alternative_acceptor CUFF.249 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 31;44 N alternative_acceptor CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 308;31 N alternative_donor CUFF.270 chr12 - chr12:22610096-22622642;chr12:22610096-22612425 chr12:22610096-22611417 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 2;3 K intron_retention CUFF.285 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 21;33 K intron_retention CUFF.287 chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 554;32 K alternative_last_exon CUFF.269 chr12 + chr12:21229504-21272537;chr12:21229504-21279051,chr12:21229504-21279041 chr12:21229504-21242841 chr12:21279052-21279191 chr12:21242842-21243040 64;104 K alternative_acceptor CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 92;148 N alternative_acceptor CUFF.270 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 113;6 N jcn_only_AD CUFF.301 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 44;15 N alternative_first_exon CUFF.295 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853918-57853984 chr12:57854182-57854338 8;41 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 31;171 K jcn_only_AA CUFF.249 chr12 - chr12:332401-344255 chr12:336835-344255 13;19 K alternative_donor CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 51;185 N alternative_last_exon CUFF.265 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756409 chr12:1748850-1749142 31;94 N alternative_donor CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 126;102 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 26;19 N jcn_only_AA CUFF.270 chr12 - chr12:22610096-22622642 chr12:22612477-22622642 chr12:22610096-22612476 chr12:22610095-22610096 2;146 N jcn_only_AA CUFF.260 chr12 + chr12:9723489-9725598 chr12:9723489-9724056 chr12:9724057-9725598 chr12:9725598-9725599 6;5 N cassette CUFF.279 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 12;77 N jcn_only_AD CUFF.249 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 94;13 N alternative_acceptor CUFF.287 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 1778;3 K intron_retention CUFF.253 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 16;7 N intron_retention chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 277;49 N intron_retention CUFF.303 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 19;3 K alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205724-26205929 63;34 N alternative_donor chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 48;16 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 16;252 N alternative_donor CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 203;16 K jcn_only_AD CUFF.255 chr12 + chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662256-4668022 140;240 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 11;8 K jcn_only_AD CUFF.255 chr12 + chr12:4662256-4668022;chr12:4665669-4668022 chr12:4665717-4668022 280;100 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 118;47 K alternative_first_exon CUFF.288 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393902-54394510 13;40 N jcn_only_AA CUFF.269 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 206;20 N jcn_only_AD CUFF.294,CUFF.307 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 38;19 N coord_cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767 chr12:49349478-49349543;chr12:49349881-49350133 105;35 N cassette CUFF.287 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 118;915 K intron_retention CUFF.297 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 248;58 N coord_cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 105;89 N alternative_acceptor CUFF.277 chr12 - chr12:48396825-48398019;chr12:48394878-48398019 chr12:48393909-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 18;51 K alternative_acceptor CUFF.273 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 42;83 N jcn_only_AA CUFF.270 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 159;100 K intron_retention CUFF.255 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 74;52 K intron_retention CUFF.289 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 364;60 N coord_cassette CUFF.299 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 439;32 N alternative_donor CUFF.255 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 619;11 N jcn_only_AD CUFF.273 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26148064-26164754 chr12:26148063-26148064 24;53 K jcn_only_AA CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 92;237 K intron_retention CUFF.273 chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 9;40 K alternative_first_exon CUFF.304 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102874097-102874378 chr12:102872265-102872410 50;19 N alternative_donor CUFF.276,CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 226;2 N cassette CUFF.309 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 18;73 N jcn_only_AD CUFF.270 chr12 - chr12:120158391-120287977 chr12:120158391-120159113 111;27 N jcn_only_AA CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 308;21 N jcn_only_AA chr12 - chr12:22610096-22612425;chr12:22611520-22612425 chr12:22611490-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 66;81 N alternative_acceptor CUFF.269,CUFF.287 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1767;9 N cassette CUFF.287 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 871;639 K alternative_donor CUFF.277 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 14;103 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 14;100 N cassette CUFF.265 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 79;134 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 127;61 K coord_cassette CUFF.269 chr12 + chr12:21229504-21294447 chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279052-21279191;chr12:21284057-21284170 13;60 K intron_retention CUFF.286 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 21;25 K jcn_only_AA CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 260;72 K jcn_only_AD CUFF.280 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;22 N alternative_last_exon chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21279042-21279191 chr12:21245447-21245682 37;55 K intron_retention CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 203;27 K alternative_acceptor CUFF.269 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 13;17 N alternative_acceptor CUFF.273 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 67;130 K intron_retention CUFF.249 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 30;31 K jcn_only_AD CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 51;248 N alternative_donor CUFF.294 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 104;124 N coord_cassette CUFF.299 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 161;77 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 51;135 K jcn_only_AD CUFF.277 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 14;142 N alternative_donor CUFF.294,CUFF.307 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 38;3 K intron_retention CUFF.291 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 chr12:56572188-56572318;chr12:56572594-56572631 54;52 N jcn_only_AA chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 20;196 K alternative_acceptor CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 403;553 N cassette CUFF.299 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 324;569 K alternative_donor CUFF.276,CUFF.307 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 54;226 N coord_cassette CUFF.299 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 29;24 K intron_retention CUFF.299 chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 36;141 K intron_retention chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 74;33 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 499;115 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26148064-26208168;chr12:26174452-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26174301-26174451 chr12:26205724-26205929 393;37 N jcn_only_AA CUFF.279 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 182;5 K intron_retention CUFF.291 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 chr12:56577959-56578028;chr12:56578628-56578720 532;23 N coord_cassette CUFF.295 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 32;38 K intron_retention CUFF.177 chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 28;11 K intron_retention CUFF.210 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 409;8 K intron_retention CUFF.180 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 58;431 K intron_retention CUFF.208 chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 chr11:63999343-63999436;chr11:64001366-64001758 50;63 K intron_retention CUFF.175 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 84;39 K cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102953476;chr11:102953569-102953984 chr11:102953477-102953568 106;98 K alternative_first_exon CUFF.226 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102962991 chr11:102959956-102960047 140;119 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36317989-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 3;265 N alternative_donor CUFF.206 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 29;33 K alternative_acceptor CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 107;74 K intron_retention CUFF.213 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 80;119 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 30;54 K alternative_acceptor CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949256-8950923 chr11:8949230-8949255 chr11:8949229-8949230 55;20 K intron_retention CUFF.208 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 chr11:64000176-64000337;chr11:64001366-64001758 199;90 N intron_retention chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 62;13 N jcn_only_AD chr11 - chr11:10819429-10823840 chr11:10819429-10820538 44;124 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 16;50 K intron_retention CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 18;31 N jcn_only_AA CUFF.182 chr11 + chr11:3424187-3427728 chr11:3424187-3424822 chr11:3424823-3427728 chr11:3427728-3427729 6;9 K jcn_only_AA CUFF.180 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 504;409 N alternative_acceptor CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 18;27 K jcn_only_AA CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 31;409 N alternative_acceptor CUFF.191 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 124;37 K alternative_first_exon CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819543-67819908 92;214 N alternative_donor chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 20;2 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36317989-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 250;265 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 6;2 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927863 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 326;79 N jcn_only_AD CUFF.174,CUFF.193 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 118;7 N mutually_exclusive CUFF.171 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 27;31 K cassette CUFF.171 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 24;233 K coord_cassette CUFF.171 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 40;57 N jcn_only_AD CUFF.204 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 26;58 N cassette CUFF.198 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 7;35 N mutually_exclusive CUFF.229 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 6;10 K jcn_only_AA CUFF.175 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 72;49 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927863 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 142;79 N alternative_acceptor CUFF.198,CUFF.204 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 30;0 K coord_cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984 chr11:102950638-102950726;chr11:102953477-102953568 106;20 N jcn_only_AD CUFF.243 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 190;20 N intron_retention CUFF.235 chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 17;197 N cassette CUFF.182 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 chr11:3405397-3405514 7;49 K intron_retention CUFF.239 chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 chr11:119056634-119056950;chr11:119057188-119057399 15;295 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 7;21 K intron_retention CUFF.235 chr11 + chr11:118403923-118404571 chr11:118403922-118403923;chr11:118404571-118404572 105;3 K alternative_last_exon CUFF.219 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 19;14 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 66;44 K intron_retention CUFF.237 chr11 - chr11:118923142-118923348 chr11:118923141-118923142;chr11:118923348-118923349 92;4 K intron_retention CUFF.206 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 124;10 K cassette CUFF.227 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 71;85 K intron_retention CUFF.223 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 101;36 K intron_retention CUFF.214 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 119;98 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 462;11 N jcn_only_AA CUFF.235 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 180;39 K intron_retention CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 33;67 K intron_retention CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 34;367 N cassette CUFF.239 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 chr11:119057188-119057399;chr11:119058273-119058409 69;122 N cassette CUFF.198 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 30;27 K alternative_donor CUFF.223 chr11 - chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706453-94706661 chr11:94706661-94706662 97;36 K jcn_only_AD CUFF.236 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 43;85 K alternative_first_exon CUFF.193,CUFF.226 chr11 - chr11:10828929-10829080,chr11:10828929-10829291;chr11:10828929-10829720 chr11:10828929-10829095 chr11:10829721-10829789 chr11:10829096-10829520 75;58 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 46;6 K alternative_first_exon CUFF.241 chr11 - chr11:119230945-119234558;chr11:119230945-119252182 chr11:119230945-119243416 chr11:119234559-119234915;chr11:119252183-119252421 chr11:119243417-119243478 41;4 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 23;7 N jcn_only_AD CUFF.198 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 161;54 K intron_retention CUFF.172 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 41;5 K intron_retention CUFF.237 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 46;36 N alternative_acceptor CUFF.231 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 43;11 K intron_retention CUFF.204 chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 15;7 K cassette CUFF.191 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 11;103 K alternative_acceptor CUFF.210 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 96;275 N alternative_donor CUFF.171 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 39;23 N intron_retention CUFF.193 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 10;43 K intron_retention CUFF.206 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 44;10 N jcn_only_AD CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 27;46 N jcn_only_AD CUFF.226 chr11 - chr11:102960048-102962515 chr11:102960048-102962412 chr11:102962413-102962515 chr11:102962515-102962516 37;51 K alternative_first_exon CUFF.175 chr11 + chr11:827712-828229;chr11:826267-828229 chr11:827460-828229 chr11:826144-826266 chr11:827206-827459 52;13 K intron_retention CUFF.231 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 23;61 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75520420-75522468 chr11:75514771-75522468 chr11:75514472-75514562;chr11:75520322-75520419 chr11:75514580-75514770 31;30 K intron_retention CUFF.199 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 46;8 N jcn_only_AA CUFF.174 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 51;139 K intron_retention CUFF.176 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 254;7 N alternative_acceptor CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 166;3 N cassette CUFF.214 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 35;255 K jcn_only_AA CUFF.219,CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 11;150 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 361;56 K intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 73;828 K intron_retention CUFF.239 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 chr11:119059064-119059260;chr11:119059349-119059576 126;11 K jcn_only_AA CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 chr11:63999903-64000086;chr11:64000176-64000337 284;114 N alternative_acceptor CUFF.241 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 4;1 N alternative_donor CUFF.198 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 161;1 K intron_retention CUFF.175 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 130;14 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 38;102 K alternative_donor CUFF.175 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 84;25 N alternative_donor CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 143;4 N cassette CUFF.183 chr11 - chr11:5701469-5706097 chr11:5701469-5705215;chr11:5705370-5706097 chr11:5705216-5705369 22;3692 K jcn_only_AA CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 25;192 K alternative_first_exon CUFF.241 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119243417-119243478;chr11:119252183-119252421 chr11:119234559-119234915 8;37 N cassette CUFF.191 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 13;39 N coord_cassette CUFF.188 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623495-6624633 chr11:6622156-6622832;chr11:6623082-6623494 7;59 K intron_retention CUFF.243 chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 26;54 K alternative_first_exon CUFF.227 chr11 - chr11:104915386-104972134 chr11:104915386-104916017,chr11:104915386-104915917 chr11:104972135-104972256 chr11:104916018-104916071 11;43 N alternative_donor CUFF.243 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 34;20 N jcn_only_AA CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 274;15 N alternative_first_exon CUFF.175 chr11 + chr11:827712-828259;chr11:826267-828259 chr11:827319-828259,chr11:827460-828259 chr11:826144-826266 chr11:827206-827318 70;60 N jcn_only_AD CUFF.177 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 52;2 K intron_retention CUFF.239 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 chr11:119058273-119058409;chr11:119058649-119058853 166;7 K intron_retention CUFF.175 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 12;27 N jcn_only_AD CUFF.239 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 chr11:119058649-119058853;chr11:119058273-119058367 12;166 K intron_retention CUFF.210 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 35;15 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 74;13 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 21;452 K intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 37;86 K intron_retention CUFF.188 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 19;58 K intron_retention CUFF.213 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 1266;72 K jcn_only_AA CUFF.210 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 96;329 K alternative_last_exon CUFF.204,CUFF.229 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107948903-107948967 chr11:107944527-107944795 10;20 N jcn_only_AD CUFF.198 chr11 + chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36371616-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 455;60 K intron_retention CUFF.232 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 331;152 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 7;8 N cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 11;69 N cassette CUFF.177 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 109;154 K cassette CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998413-63998503;chr11:63998620-63999342 chr11:63998504-63998619 chr11:63997904-63998412;chr11:63999343-63999436 172;131 N intron_retention CUFF.175 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 7;8 K intron_retention CUFF.182 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 chr11:3418319-3418636 7;20 N intron_retention CUFF.235 chr11 + chr11:118403177-118404134 chr11:118403176-118403177;chr11:118404134-118404135 70;28 K cassette CUFF.175 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 18;118 N jcn_only_AD CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 143;7 N alternative_first_exon CUFF.191,CUFF.213 chr11 - chr11:8502162-8587256;chr11:8502162-8615290 chr11:8502162-8615629 chr11:8587257-8587483;chr11:8615291-8615577 chr11:8615630-8615931 53;62 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 30;625 K intron_retention CUFF.235 chr11 + chr11:118403177-118404571 chr11:118403176-118403177;chr11:118404571-118404572 541;27 N alternative_donor CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 50;49 N jcn_only_AA CUFF.191 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 62;37 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 28;13 K alternative_acceptor CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 206;16 K cassette CUFF.226 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 129;23 N intron_retention CUFF.208 chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 chr11:63999343-63999436 44;90 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 chr11:63670533-63670604;chr11:63671570-63671619 29;26 K intron_retention CUFF.210 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 190;29 K intron_retention CUFF.171 chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 23;55 N jcn_only_AA CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 41;56 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 102;37 N alternative_acceptor CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 35;18 K intron_retention CUFF.243 chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 37;18 N alternative_acceptor CUFF.235 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 19;39 N alternative_acceptor CUFF.198 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 161;1 K intron_retention CUFF.195 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 19;4 K intron_retention CUFF.210 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 115;33 N intron_retention chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 90;65 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 37;81 K intron_retention CUFF.180 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 606;254 K alternative_donor CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 125;176 N alternative_donor chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 21;1 K intron_retention CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 31;32 N alternative_acceptor CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 56;2 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 41;36 K jcn_only_AD CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 125;227 N alternative_first_exon CUFF.189 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615931 chr11:8494710-8494823 3;80 N cassette CUFF.193 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 18;457 K alternative_first_exon CUFF.206 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369312 chr11:62368495-62368820 33;40 N cassette CUFF.235 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 611;538 N alternative_acceptor chr11 + chr11:36398255-36400930;chr11:36398255-36422546 chr11:36398255-36415395 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 47;6 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 16;23 N alternative_donor CUFF.243 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 45;9 K cassette CUFF.192 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 51;41 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404134 chr11:118401950-118402492,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402493-118403176 20;50 K intron_retention CUFF.189 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 259;139 N alternative_donor CUFF.239 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 chr11:119058649-119058853;chr11:119058273-119058367 12;104 K intron_retention CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 11;52 K alternative_donor CUFF.200 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 15;13 K coord_cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 2;38 K jcn_only_AA CUFF.204 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 65;1438 K jcn_only_AA CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949256-8950923 chr11:8949230-8949255 chr11:8949229-8949230 55;37 K intron_retention CUFF.239 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 452;39 K alternative_last_exon CUFF.208,CUFF.210 chr11 + chr11:63999437-63999865;chr11:63999437-64001365 chr11:63999437-63999981,chr11:63999437-63999901 chr11:64001366-64001758 chr11:63999982-64000086 chr11:63999343-63999436 101;301 K intron_retention CUFF.237 chr11 - chr11:118923542-118924832 chr11:118923541-118923542;chr11:118924832-118924833 73;5 N intron_retention CUFF.232 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 24;19 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 162;1131 N alternative_donor chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 29;25 N jcn_only_AD chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 120;20 N jcn_only_AA CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 33;24 K intron_retention CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 206;9 N alternative_acceptor CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 15;4 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 7;10 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 7;7 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 78;5 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36399275-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 268;0 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 20;133 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 8;45 K cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 2;45 N alternative_acceptor CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 274;17 N alternative_acceptor chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 9;76 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 7;1 N alternative_acceptor chr11 + chr11:36398255-36400930;chr11:36398255-36415395 chr11:36398255-36422546 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 10;43 N jcn_only_AD CUFF.178 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 62;45 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 10;185 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515 chr11:118926880-118927711 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 216;5 K intron_retention CUFF.183 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 145;6 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 7;7 N alternative_acceptor CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 33;10 N jcn_only_AD chr11 + chr11:3427841-3428851 chr11:3427946-3428851 7;7 N jcn_only_AA CUFF.231 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 43;11 K cassette CUFF.210 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 245;219 N alternative_first_exon chr11 - chr11:2187999-2188664 chr11:2187999-2188116 chr11:2188665-2188746 chr11:2188117-2188526 9;188 K mutually_exclusive CUFF.222 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 81;17 K jcn_only_AD CUFF.171 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 373;23 N alternative_acceptor CUFF.243 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 99;11 N jcn_only_AD CUFF.204 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 57;12 K jcn_only_AD CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915386-104915917 chr11:104915918-104916017 chr11:104916017-104916018 18;38 K intron_retention CUFF.223 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 47;41 K intron_retention CUFF.243 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 154;19 K intron_retention CUFF.241 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 53;30 K intron_retention chr11 + chr11:118401950-118402492 chr11:118401949-118401950;chr11:118402492-118402493 125;44 N jcn_only_AA CUFF.243 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 124;14 N coord_cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102953477-102953568;chr11:102953985-102954055 11;62 N intron_retention chr11 + chr11:118404267-118404571 chr11:118404266-118404267;chr11:118404571-118404572 126;9 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 56;848 N alternative_acceptor CUFF.247 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 60;46 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678492 53;199 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 268;26 K intron_retention CUFF.175 chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 27;170 N cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8502029;chr11:8502162-8615290 chr11:8502030-8502161 9;27 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515 chr11:118926880-118927711 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 391;14 K intron_retention CUFF.171 chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 215;25 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 5;12 K intron_retention CUFF.204 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 71;12 K cassette CUFF.207 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 chr11:63670533-63670630;chr11:63672258-63672515 182;48 K cassette CUFF.193 chr11 - chr11:10821304-10821790 chr11:10821304-10821636;chr11:10821716-10821790 chr11:10821637-10821715 32;35 N jcn_only_AA chr11 + chr11:36398255-36400930;chr11:36398255-36415395 chr11:36398255-36422546 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 364;43 N intron_retention chr11 + chr11:118402587-118403631 chr11:118402586-118402587;chr11:118403631-118403632 10;97 K alternative_acceptor CUFF.175 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 72;29 N jcn_only_AA chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74624740-74630577 chr11:74630577-74630578 19;35 N jcn_only_AA CUFF.191 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 74;25 K alternative_donor CUFF.171 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 373;58 N jcn_only_AD chr11 - chr11:118926880-118926990;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927730 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 330;75 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 56;91 K intron_retention CUFF.206 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 47;48 K intron_retention CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 523;505 K intron_retention CUFF.237 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 276;13 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678492 239;39 N jcn_only_AA CUFF.175,CUFF.208 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 135;7 K alternative_first_exon CUFF.204 chr11 + chr11:61583899-61605249,chr11:61594904-61605249;chr11:61584169-61605249 chr11:61596070-61605249 chr11:61584108-61584168 chr11:61595967-61596069 37;19 K intron_retention CUFF.193 chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 28;65 K alternative_first_exon CUFF.232 chr11 + chr11:117072658-117073717,chr11:117070546-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070037-117070148 chr11:117070935-117071058 92;52 K intron_retention CUFF.200 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 18;18 N jcn_only_AD chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 10;45 N intron_retention CUFF.210 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 17;16 K alternative_acceptor CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 523;923 N intron_retention CUFF.193 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 8;34 N cassette CUFF.237 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 13;136 N alternative_donor chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 13;12 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546 chr11:36420378-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 267;1 K alternative_acceptor CUFF.219,CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 11;99 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36399275-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 498;17 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927737 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 277;129 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 chr11:3405397-3405514;chr11:3418347-3419322 61;19 N intron_retention chr11 - chr11:10828867-10830251 chr11:10828866-10828867;chr11:10830251-10830252 74;133 K cassette CUFF.237 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 16;68 K cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 2;88 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 14;19 K intron_retention CUFF.193 chr11 - chr11:10828929-10830251 chr11:10828928-10828929;chr11:10830251-10830252 661;15 N cassette CUFF.237 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 109;271 N alternative_acceptor CUFF.182 chr11 + chr11:3424187-3427728 chr11:3424187-3424822 chr11:3424823-3427728 chr11:3427728-3427729 6;0 K jcn_only_AD CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 23;292 N jcn_only_AD CUFF.175 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 47;43 K alternative_donor CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 23;149 N intron_retention CUFF.239 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 chr11:119056112-119056219 20;39 K intron_retention CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 31;243 N alternative_donor CUFF.237 chr11 - chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118926990 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 208;13 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 472;27 N jcn_only_AD CUFF.174 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 97;28 K cassette CUFF.181 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 chr11:3239562-3239789;chr11:3242800-3244361 27;65 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 87;196 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927711 chr11:118926880-118927515 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 208;13 K intron_retention CUFF.247 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 30;15 K intron_retention CUFF.175 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 18;26 N alternative_first_exon CUFF.191 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8587257-8587483;chr11:8615630-8615931 chr11:8615291-8615577 95;20 N alternative_acceptor chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 28;5 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 12;4 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514472-75514562;chr11:75514580-75514770 chr11:75520322-75520419 53;8 K intron_retention CUFF.175 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 47;38 K alternative_donor CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 34;761 N mutually_exclusive CUFF.183 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 14;96 K intron_retention CUFF.193 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 56;3 N jcn_only_AD CUFF.171 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 150;14 N jcn_only_AA CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 185;35 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 109;13 N jcn_only_AA chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 74;146 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 26;85 N jcn_only_AD chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 13;14 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 7;72 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 50;7 N coord_cassette CUFF.188 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623446-6624633 chr11:6622156-6622832;chr11:6623082-6623445 7;57 K coord_cassette CUFF.207 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678492 39;23 N mutually_exclusive CUFF.198 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 24;7 K intron_retention CUFF.208 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 chr11:64001366-64001452;chr11:64001545-64001758 121;163 N alternative_acceptor CUFF.175,CUFF.208 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 135;8 K intron_retention CUFF.189 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 631;56 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402960,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402961-118403176 7;51 K intron_retention CUFF.171 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 205;80 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 23;9 N alternative_first_exon CUFF.176 chr11 - chr11:102960048-102962515,chr11:102960048-102962412 chr11:102960048-102962244 chr11:102962516-102962991 chr11:102962245-102962391 131;50 K intron_retention CUFF.247 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 21;11 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36415562-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 439;76 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615931 chr11:8476291-8476379 6;88 K alternative_acceptor CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 chr11:63999903-64000086;chr11:64000176-64000337 284;57 K intron_retention CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 50;29 K cassette CUFF.236 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 43;88 K intron_retention CUFF.236 chr11 - chr11:118531625-118531868 chr11:118531624-118531625;chr11:118531868-118531869 183;6 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 167;751 K intron_retention chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 30;1803 K alternative_acceptor CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 25;112 K intron_retention CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 chr11:119056112-119056219 27;41 N cassette CUFF.243 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 39;101 N jcn_only_AD chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 20;12 N alternative_last_exon CUFF.193 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818597-10819428 chr11:10823596-10823756 40;92 N jcn_only_AD CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 13;120 N jcn_only_AA chr11 + chr11:36398255-36415395;chr11:36398255-36422546 chr11:36398255-36400930 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 144;262 K intron_retention CUFF.235 chr11 + chr11:118403177-118403631 chr11:118403176-118403177;chr11:118403631-118403632 798;28 K alternative_first_exon CUFF.227,CUFF.241 chr11 - chr11:119230945-119243416;chr11:119230945-119234558 chr11:119230945-119252182 chr11:119243417-119243478;chr11:119234559-119234915 chr11:119252183-119252421 41;4 K cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 9;90 N alternative_acceptor chr11 + chr11:36398255-36415395;chr11:36398255-36422546 chr11:36398255-36400930 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 49;4 N cassette CUFF.171 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 119;238 K intron_retention CUFF.177 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 354;57 K intron_retention CUFF.201 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 65;27 N cassette CUFF.191 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 20;98 N jcn_only_AD chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 30;14 K cassette CUFF.222 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 20;37 N jcn_only_AA CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 15;23 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 62;30 N intron_retention chr11 + chr11:118915457-118916096 chr11:118915456-118915457;chr11:118916096-118916097 2;46 N jcn_only_AD CUFF.180 chr11 - chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797 chr11:8588797-8588798 7;37 N jcn_only_AA CUFF.183 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 50;62 N intron_retention CUFF.183 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 37;43 K jcn_only_AA CUFF.207 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 chr11:63669670-63669802;chr11:63670076-63670254 194;30 K intron_retention chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 1507;26 N jcn_only_AD chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 36;173 K cassette CUFF.224 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 49;4 K intron_retention CUFF.193 chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 237;228 N cassette CUFF.193 chr11 - chr11:10828433-10829823;chr11:10828433-10830251 chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251 chr11:10828802-10828928 111;413 N alternative_acceptor CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 41;57 N alternative_donor chr11 - chr11:118926880-118926990;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927730 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 187;34 N cassette CUFF.182 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 13;11 K intron_retention chr11 + chr11:118401950-118402489 chr11:118401949-118401950;chr11:118402489-118402490 1561;43 K jcn_only_AA CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 523;1266 K jcn_only_AA CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 50;29 N cassette CUFF.177 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 68;20 K jcn_only_AA CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 32;154 K jcn_only_AA CUFF.204 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 106;18 K alternative_acceptor CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 50;15 N alternative_donor CUFF.174,CUFF.193 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 69;3 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 56;182 K intron_retention CUFF.210 chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 196;32 N jcn_only_AA CUFF.220 chr11 + chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 121;296 N mutually_exclusive CUFF.237 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 14;11 N jcn_only_AA CUFF.208 chr11 + chr11:36397709-36440804 chr11:36397709-36398178 10;18 K intron_retention CUFF.193 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 133;37 K cassette CUFF.192 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949230-8950923 chr11:8949050-8949229 51;46 K intron_retention CUFF.247 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 86;22 K intron_retention CUFF.231 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 150;52 K cassette CUFF.178 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 46;31 K intron_retention CUFF.193 chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 39;83 K intron_retention CUFF.189 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 257;235 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 10;103 N alternative_donor chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 84;416 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546 chr11:36420378-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 461;54 K intron_retention CUFF.210 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 100;28 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 20;190 N mutually_exclusive CUFF.207 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678492 176;15 K intron_retention CUFF.235 chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 18;84 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 3;5 N alternative_first_exon CUFF.177,CUFF.247 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768465 chr11:124767622-124768177 48;5 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 24;99 K intron_retention CUFF.213 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 2030;68 K intron_retention CUFF.221 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 22;20 K intron_retention CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 43;31 K jcn_only_AA CUFF.188 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 4;19 K intron_retention chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 351;41 N intron_retention chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 7;31 N alternative_acceptor CUFF.175 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 79;6 N jcn_only_AD CUFF.171 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 141;23 N cassette CUFF.171 chr11 - chr11:408207-414822;chr11:408894-414822 chr11:408894-409867,chr11:408207-409867;chr11:410028-414822 chr11:409868-410027 129;187 N alternative_acceptor CUFF.174 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 51;74 N alternative_donor CUFF.174 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 44;28 N intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 51;32 N cassette CUFF.236 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 69;88 N alternative_donor CUFF.204 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 57;0 N alternative_donor chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 12;213 N alternative_donor CUFF.175 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 47;44 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118926990 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 340;65 K jcn_only_AD CUFF.175 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 84;12 K intron_retention CUFF.193 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 375;88 N jcn_only_AA CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 166;6 K cassette CUFF.226 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 17;147 N cassette CUFF.235 chr11 + chr11:118402587-118403631 chr11:118402587-118402960;chr11:118403177-118403631 chr11:118402961-118403176 10;837 N alternative_donor CUFF.198 chr11 + chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36371616-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 268;0 N intron_retention chr11 + chr11:118401950-118403631 chr11:118401949-118401950;chr11:118403631-118403632 30;10 K intron_retention CUFF.206 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 50;20 K cassette CUFF.225 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 48;27 N alternative_acceptor CUFF.183 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 50;73 K alternative_first_exon CUFF.235 chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401756-118401949 chr11:118402241-118402241 945;17 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 76;62 K jcn_only_AA CUFF.171 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 76;190 N alternative_donor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 13;2 K alternative_acceptor CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 32;105 N jcn_only_AD chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 12;22 K jcn_only_AA CUFF.176 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 53;174 N jcn_only_AA CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 13;118 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 82;3 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927711 chr11:118926880-118927515 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 363;43 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 chr11:3405397-3405514 7;18 N jcn_only_AD CUFF.239 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 chr11:119057188-119057399;chr11:119056634-119056874 70;15 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 21;465 N alternative_acceptor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 13;4 K intron_retention CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 55;6 N jcn_only_AD CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 50;37 K alternative_acceptor CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 31;331 N intron_retention chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 chr11:119056634-119056874;chr11:119057188-119057399 70;307 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 7;18 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 296;187 N jcn_only_AA CUFF.198,CUFF.204 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 30;16 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 12;21 N jcn_only_AD chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 7;28 K intron_retention CUFF.247 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 26;15 N jcn_only_AA CUFF.191 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 62;37 K alternative_acceptor CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 43;27 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 18;9 N cassette CUFF.171 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 152;55 N alternative_acceptor CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 31;29 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 10;72 N alternative_donor CUFF.204 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 26;2 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 81;29 K intron_retention CUFF.208 chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 chr11:63999343-63999436 409;102 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927737 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 144;77 K cassette CUFF.247 chr11 - chr11:124767158-124767621 chr11:124767158-124767483;chr11:124767529-124767621 chr11:124767484-124767528 16;15 K intron_retention CUFF.175 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 122;7 N jcn_only_AA chr11 + chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 352;65 K jcn_only_AA CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 206;28 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 65;443 N alternative_acceptor CUFF.191 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 62;99 K cassette CUFF.192 chr11 - chr11:8941998-8947009 chr11:8941998-8942840;chr11:8943063-8947009 chr11:8942841-8943062 34;62 N cassette CUFF.214 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 6;220 N jcn_only_AD chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 32;12 N alternative_donor CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 27;53 K cassette CUFF.183 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 145;65 N alternative_donor CUFF.177 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 52;73 K intron_retention CUFF.193 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 32;32 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 35;90 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 479;20 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 28;5 K intron_retention CUFF.206 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 47;10 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 463;10 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36420378-36422546 chr11:36398255-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 473;43 N jcn_only_AA CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 31;51 K alternative_acceptor CUFF.188 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 4;16 K intron_retention CUFF.193 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 9;22 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 chr11:119056634-119056661;chr11:119056801-119056950 294;158 N alternative_donor CUFF.178 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 62;21 K alternative_acceptor CUFF.204 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 106;262 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 113;26 N alternative_acceptor CUFF.191 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 136;25 N jcn_only_AA CUFF.247 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 60;11 N mutually_exclusive CUFF.171 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 27;31 N intron_retention chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 7;14 K alternative_acceptor CUFF.207 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 chr11:63669670-63669802;chr11:63670076-63670254 194;16 N alternative_acceptor chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74624740-74630577 chr11:74630577-74630578 19;2 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 47;452 K alternative_first_exon CUFF.176 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785289 chr11:1783363-1783461 33;18 N cassette CUFF.189 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 196;283 K alternative_first_exon CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776042-67776162 chr11:67777703-67777862 57;161 K alternative_acceptor CUFF.176 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 53;121 N intron_retention CUFF.191 chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 37;19 K jcn_only_AD CUFF.208 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:64001366-64001758 50;199 K intron_retention CUFF.193 chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 355;10 K alternative_donor CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915386-104915917 chr11:104915918-104916017 chr11:104916017-104916018 18;25 N alternative_donor chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 10;6 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 6;22 K intron_retention CUFF.232 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 227;121 N cassette CUFF.207 chr11 + chr11:63656437-63662630 chr11:63656437-63657693;chr11:63657768-63662630 chr11:63657694-63657767 chr11:63662631-63662810 4;38 N jcn_only_AD CUFF.243 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 193;16 N alternative_acceptor chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 41;17 N jcn_only_AA CUFF.198 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 161;45 N jcn_only_AA chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 46;76 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 121;19 N alternative_first_exon CUFF.191 chr11 - chr11:8502162-8615290;chr11:8502162-8615629 chr11:8502162-8587256 chr11:8615291-8615577;chr11:8615630-8615931 chr11:8587257-8587483 82;33 K jcn_only_AD CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 34;606 K intron_retention CUFF.193 chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 259;78 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 44;166 N alternative_donor chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 3;19 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 10;294 N jcn_only_AD CUFF.206 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 37;127 K jcn_only_AA CUFF.198 chr11 + chr11:36317989-36422546 chr11:36317989-36318920 265;71 N jcn_only_AA CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 35;17 K jcn_only_AA CUFF.248 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 23;14 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 12;46 K jcn_only_AA CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 107;149 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 14;32 K intron_retention CUFF.171 chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 373;64 N alternative_donor chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 7;18 N jcn_only_AD chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 26;19 K alternative_first_exon CUFF.210 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479751-65479916 chr11:65479924-65480068 112;160 N jcn_only_AD chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 84;1507 K intron_retention CUFF.175 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 98;40 K cassette CUFF.193 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 37;32 N alternative_donor chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 20;40 K intron_retention CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 125;133 N jcn_only_AA CUFF.241 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 4;5 K cassette CUFF.193 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 259;252 K alternative_acceptor CUFF.171 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 76;116 K intron_retention CUFF.175 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 135;9 K intron_retention CUFF.246 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 chr11:124077890-124078395;chr11:124078522-124078819 27;10 N alternative_donor CUFF.239 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 chr11:119057188-119057399;chr11:119056634-119056874 70;219 K intron_retention CUFF.239 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 chr11:119058649-119058853;chr11:119059064-119059260 99;27 N alternative_donor CUFF.226 chr11 - chr11:102960048-102962515 chr11:102960048-102962412 chr11:102962413-102962515 chr11:102962515-102962516 37;83 K intron_retention CUFF.204 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 72;184 K alternative_acceptor CUFF.248 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 23;12 K jcn_only_AA CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 43;22 K intron_retention CUFF.229 chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 19;10 K intron_retention CUFF.171 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 228;5 N alternative_donor CUFF.171 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 56;6 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 chr11:119058273-119058367;chr11:119058649-119058853 12;36 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 268;26 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404571 chr11:118401950-118402492,chr11:118403177-118404571 chr11:118403632-118403922 chr11:118402493-118403176 20;50 K intron_retention CUFF.171 chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 163;48 N intron_retention CUFF.235 chr11 + chr11:118403923-118404134 chr11:118403922-118403923;chr11:118404134-118404135 218;5 K alternative_first_exon CUFF.223 chr11 - chr11:94705358-94706661,chr11:94705358-94706452 chr11:94705358-94706436 chr11:94706662-94706776 chr11:94706437-94706441 87;31 K alternative_first_exon CUFF.178 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466456-2466714 chr11:2483053-2483207 30;51 K cassette CUFF.229 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 11;13 K intron_retention CUFF.239 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 chr11:119059349-119059576;chr11:119059714-119059914 130;13 N intron_retention chr11 - chr11:10830056-10830251 chr11:10830055-10830056;chr11:10830251-10830252 13;33 N jcn_only_AA CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 18;19 K intron_retention CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 32;63 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36420378-36422546 chr11:36398255-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 267;1 N intron_retention CUFF.193 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 43;22 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 84;26 K intron_retention CUFF.175 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 110;37 N intron_retention chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 15;7 N jcn_only_AA chr11 + chr11:36398255-36400930;chr11:36398255-36422546 chr11:36398255-36415395 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 305;102 K cassette CUFF.171 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 215;179 K alternative_acceptor CUFF.180 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 504;202 N jcn_only_AD chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 77;5 K alternative_first_exon CUFF.197,CUFF.206 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367731 chr11:62366690-62366751 80;8 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36415562-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 267;1 K alternative_first_exon CUFF.197,CUFF.236 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264051 12;6 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 4;16 N jcn_only_AA CUFF.175 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 89;33 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 31;41 K alternative_last_exon CUFF.221 chr11 - chr11:75520420-75522468;chr11:75514771-75522468 chr11:75514563-75522468 chr11:75520322-75520419;chr11:75514580-75514770 chr11:75514472-75514562 38;23 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 7;6 N alternative_donor CUFF.180 chr11 - chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797 chr11:8588797-8588798 7;0 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 662;256 N coord_cassette CUFF.171 chr11 - chr11:408894-414822 chr11:408894-409216;chr11:409309-409867;chr11:410028-414822 chr11:409217-409308;chr11:409868-410027 50;54 K jcn_only_AD CUFF.223 chr11 - chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706453-94706661 chr11:94706661-94706662 97;28 K jcn_only_AD CUFF.200 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 15;22 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 11;32 K intron_retention CUFF.189 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 57;13 N alternative_donor CUFF.165 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 11;1 K coord_cassette CUFF.165 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 109;77 K alternative_last_exon CUFF.164 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499935-123503373 chr10:123542100-123542214 350;72 K intron_retention chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 40;33 K cassette CUFF.140 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 12;40 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 235;89 K mutually_exclusive CUFF.159 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 24;14 K cassette CUFF.142 chr10 - chr10:73956748-73963184 chr10:73956748-73958206;chr10:73958424-73963184 chr10:73958207-73958423 326;168 K coord_cassette CUFF.133 chr10 - chr10:46113709-46143741 chr10:46113709-46120030;chr10:46120086-46121398;chr10:46122554-46135263;chr10:46135412-46143741 chr10:46120031-46120085;chr10:46121399-46122553;chr10:46135264-46135411 chr10:46113588-46113708;chr10:46143742-46143982 22;34 N coord_cassette CUFF.122 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 40;57 N jcn_only_AD CUFF.148 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 268;3 N alternative_donor CUFF.165 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 10;2 N alternative_acceptor CUFF.148 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1;383 N alternative_acceptor CUFF.148 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 322;0 N jcn_only_AA CUFF.157 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 268;6 N alternative_acceptor CUFF.152 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 4;2 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 114;85 K cassette CUFF.120 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 52;85 N jcn_only_AA CUFF.148 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 340;9 K cassette CUFF.119 chr10 - chr10:17636383-17645558 chr10:17636383-17641288;chr10:17641411-17645558 chr10:17641289-17641410 23;166 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 273;51 K alternative_first_exon CUFF.126 chr10 - chr10:35360268-35363119,chr10:35360268-35379106;chr10:35360268-35379357 chr10:35360268-35378823 chr10:35379358-35379560 chr10:35378824-35379040 77;25 N alternative_acceptor CUFF.148 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 88;0 K alternative_last_exon CUFF.113 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370577-370959 chr10:372946-373116 17;77 K intron_retention chr10 - chr10:35500327-35501113 chr10:35500326-35500327;chr10:35501113-35501114 2;388 N jcn_only_AD CUFF.165 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 19;38 N alternative_last_exon CUFF.142 chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73856278-73857208 chr10:73862099-73862170 27;7 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 146;19 N alternative_donor CUFF.146 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 18;43 N jcn_only_AA CUFF.152 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 4;31 K cassette CUFF.155 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 74;60 K alternative_donor CUFF.155 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 7;50 N jcn_only_AA CUFF.138 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 753;27 N alternative_donor chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 24;27 N alternative_donor CUFF.170 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 9;18 N alternative_acceptor CUFF.138 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 753;2 N jcn_only_AA CUFF.126 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 5;101 N cassette CUFF.122 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 133;65 N jcn_only_AA CUFF.148 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 143;114 N jcn_only_AA chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 30;11 K cassette CUFF.122 chr10 - chr10:27112235-27149675 chr10:27112235-27128661;chr10:27128713-27149675 chr10:27128662-27128712 137;29 N cassette CUFF.122 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 44;121 N alternative_acceptor CUFF.148 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 268;0 N coord_cassette CUFF.122 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 40;53 N alternative_acceptor CUFF.148 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 384;0 N intron_retention chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 18;45 N cassette CUFF.122 chr10 - chr10:27048168-27054146 chr10:27048168-27052808;chr10:27052890-27054146 chr10:27052809-27052889 45;45 K coord_cassette CUFF.116 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 3;319 K coord_cassette CUFF.140 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 92;34 K alternative_first_exon CUFF.165 chr10 + chr10:124134323-124152696 chr10:124151889-124152696 chr10:124134142-124134322 chr10:124151819-124151888 99;45 N alternative_donor CUFF.148 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 268;0 N jcn_only_AD CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 50;18 K cassette CUFF.116 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 387;60 K cassette CUFF.152 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 41;42 K cassette CUFF.137 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 84;139 K intron_retention CUFF.119 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 212;7 K alternative_acceptor CUFF.127 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 407;611 K alternative_first_exon CUFF.160 chr10 + chr10:106976881-106982873 chr10:106977724-106982873 chr10:106976694-106976880 chr10:106977611-106977723 3;12 K intron_retention CUFF.165 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 113;4 K intron_retention CUFF.162 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 8;14 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 281;43 N jcn_only_AA CUFF.113 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 chr10:412215-412351;chr10:410314-410522 5;29 N alternative_donor CUFF.142 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 348;6 N alternative_donor CUFF.133,CUFF.148 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 68;117 N alternative_acceptor CUFF.126 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 5;45 N alternative_acceptor CUFF.126 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 105;12 N jcn_only_AA CUFF.142 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 249;75 K cassette CUFF.113 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 chr10:518379-518489;chr10:532399-532470 5;37 N mutually_exclusive CUFF.164 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 305;24 N jcn_only_AA CUFF.133 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 66;20 N alternative_donor CUFF.142 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 415;7 N jcn_only_AA CUFF.119 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 253;44 K intron_retention CUFF.125 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 42;9 N alternative_acceptor CUFF.148 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 88;0 K intron_retention CUFF.126 chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 15;9 N jcn_only_AA CUFF.148 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 268;2 K alternative_first_exon CUFF.113 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:735434-735770 chr10:629529-629652 chr10:532399-532470 41;4 N jcn_only_AA CUFF.148 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 322;6 K alternative_first_exon CUFF.154 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833628-94833880 27;39 N jcn_only_AD CUFF.133 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 47;16 N alternative_donor CUFF.113 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 chr10:415434-415573;chr10:428587-428701 36;0 N alternative_donor chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 146;3 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 9;47 N cassette CUFF.133 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 chr10:46147414-46147481;chr10:46158990-46159290 12;53 N alternative_acceptor CUFF.160 chr10 + chr10:106976881-106982873 chr10:106976881-106977601 chr10:106977602-106982873 chr10:106982873-106982874 3;1 K alternative_first_exon CUFF.168 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 29;43 N cassette CUFF.164 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 16;276 N alternative_acceptor CUFF.157 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 268;0 N cassette CUFF.116 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 3;225 K intron_retention CUFF.137 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 135;80 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 74;113 N cassette CUFF.127 chr10 + chr10:35464634-35477127 chr10:35464634-35468061;chr10:35468205-35477127 chr10:35468062-35468204 9;314 N jcn_only_AD CUFF.142 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 415;195 N alternative_acceptor CUFF.113 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 chr10:412215-412351;chr10:410314-410522 5;9 N alternative_acceptor CUFF.148 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 105;10 N coord_cassette CUFF.114 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 11;104 K mutually_exclusive CUFF.122 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 67;4 N coord_cassette CUFF.127 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 78;161 K coord_cassette CUFF.160 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 15;10 K cassette CUFF.165 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 34;63 K cassette CUFF.152 chr10 - chr10:80825577-80827144 chr10:80825577-80826204;chr10:80826344-80827144 chr10:80826205-80826343 6;33 N alternative_donor ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;2 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 259;65 K alternative_first_exon CUFF.116 chr10 + chr10:6188460-6255585;chr10:6245300-6255585 chr10:6186977-6255585 chr10:6188258-6188459;chr10:6244810-6245299 chr10:6186814-6186976 382;13 N alternative_acceptor chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 17;1 K cassette CUFF.116 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 3;364 N jcn_only_AA CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 189;68 N jcn_only_AD CUFF.148,CUFF.164 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 322;2 K cassette CUFF.155 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 107;25 N coord_cassette CUFF.127 chr10 + chr10:35464634-35477127 chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127 chr10:35467817-35467914;chr10:35468062-35468204 9;301 K cassette CUFF.140 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 92;25 N jcn_only_AA CUFF.142 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 58;348 K jcn_only_AA CUFF.116 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 338;2 K alternative_first_exon CUFF.116 chr10 + chr10:6186977-6255585;chr10:6245300-6255585 chr10:6188460-6255585 chr10:6186814-6186976;chr10:6244810-6245299 chr10:6188258-6188459 370;25 N jcn_only_AD CUFF.124 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 125;27 N alternative_acceptor chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 30;5 K cassette CUFF.122 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 36;120 K alternative_first_exon CUFF.121,CUFF.146 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290352 chr10:76289051-76289135 26;51 K alternative_first_exon CUFF.158 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491950-101492166 31;102 N jcn_only_AA CUFF.152 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 41;8 N cassette CUFF.164 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 36;645 K alternative_first_exon CUFF.133,CUFF.144 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46147414-46147481 chr10:46145180-46145181 chr10:46143742-46143982 49;4 K alternative_acceptor CUFF.140 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 41;8 K alternative_first_exon CUFF.121,CUFF.132 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833380 14;12 N jcn_only_AA CUFF.126 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 105;33 N alternative_donor chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 160;4 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 51;19 K cassette CUFF.116 chr10 + chr10:6266177-6268154 chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266469-6266586 387;7 N alternative_acceptor CUFF.135 chr10 + chr10:48231815-48235818 chr10:48231815-48235121 chr10:48235122-48235818 chr10:48235818-48235819 3;0 N jcn_only_AA chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 63;40 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 74;32 N alternative_acceptor CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 78;37 K cassette CUFF.158 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 132;15 K alternative_first_exon CUFF.162 chr10 - chr10:119774622-119798482 chr10:119774622-119793492 chr10:119798483-119798951 chr10:119793493-119793519 26;10 K alternative_first_exon CUFF.164 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123687957 chr10:123687359-123687566 38;370 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 146;16 N cassette CUFF.122 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 44;116 K cassette CUFF.122 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 43;83 N jcn_only_AD CUFF.148,CUFF.168 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 385;16 K jcn_only_AD CUFF.155 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 7;97 K intron_retention CUFF.162 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 63;11 N jcn_only_AA CUFF.142 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 387;20 N cassette CUFF.127 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 266;373 K jcn_only_AA CUFF.120 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 130;35 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 82;32 K mutually_exclusive CUFF.164 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 445;63 N jcn_only_AD CUFF.133,CUFF.148 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 68;82 N jcn_only_AA chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 17;40 N alternative_acceptor CUFF.148 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0;88 K intron_retention CUFF.142 chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 65;24 N cassette CUFF.142 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 11;127 N coord_cassette CUFF.116 chr10 + chr10:6266177-6274857 chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857 chr10:6267124-6267211;chr10:6268155-6268328 28;62 K jcn_only_AA CUFF.116,CUFF.157 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 10;159 N jcn_only_AA CUFF.148 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 422;17 K cassette CUFF.138 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 79;837 K alternative_first_exon CUFF.114 chr10 + chr10:5120170-5138601,chr10:5123094-5138601,chr10:5124078-5138601;chr10:5077809-5138601 chr10:5136721-5138601 chr10:5077546-5077808 chr10:5136549-5136720 119;45 N alternative_acceptor CUFF.148 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 340;0 N jcn_only_AA CUFF.120,CUFF.127 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 247;68 N jcn_only_AA CUFF.162 chr10 - chr10:119774622-119798482 chr10:119793553-119798482 chr10:119774622-119793552 chr10:119774621-119774622 8;13 N alternative_donor CUFF.142 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 150;2 N jcn_only_AD chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 38;31 N cassette CUFF.116 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 12;304 N alternative_donor CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 45;6 N jcn_only_AA CUFF.135 chr10 + chr10:48231815-48235818 chr10:48231815-48235121 chr10:48235122-48235818 chr10:48235818-48235819 3;3 K cassette CUFF.137 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 237;20 N jcn_only_AD CUFF.165 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 47;9 N jcn_only_AA CUFF.142 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 368;38 N jcn_only_AD CUFF.138 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 753;32 K cassette CUFF.126 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 51;44 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 9;2 N jcn_only_AA CUFF.142 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 415;17 N alternative_donor CUFF.152,CUFF.164 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 35;0 N alternative_donor CUFF.127 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 140;50 N jcn_only_AA CUFF.148 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 89;88 K cassette CUFF.164 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 140;63 N alternative_acceptor CUFF.162 chr10 - chr10:119774622-119798482 chr10:119793553-119798482 chr10:119774622-119793552 chr10:119774621-119774622 8;0 N alternative_donor chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 38;3 N jcn_only_AD CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 60;8 K alternative_donor CUFF.160 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 13;2 N alternative_acceptor chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 35;1 N coord_cassette CUFF.127 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 87;189 N jcn_only_AA CUFF.148 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 56;383 K alternative_first_exon CUFF.132 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274300 chr10:44274030-44274074 14;18 N alternative_acceptor chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 63;5 N cassette CUFF.127 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 14;355 N alternative_donor CUFF.124 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 125;0 N jcn_only_AD CUFF.170 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 9;19 N alternative_donor CUFF.133 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 47;2 N cassette CUFF.142 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 221;30 N alternative_donor CUFF.113 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 chr10:410314-410522;chr10:412215-412351 5;2 K cassette CUFF.146 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 90;21 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 160;84 K alternative_acceptor CUFF.120 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 130;17 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 82;16 N jcn_only_AD chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 26;42 N jcn_only_AD CUFF.146 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 18;40 K jcn_only_AD CUFF.160 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 13;3 K alternative_first_exon CUFF.130 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572460-43572779 chr10:43606655-43606913 38;10 N mutually_exclusive CUFF.122 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 59;4 K alternative_last_exon CUFF.145 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476878-75476950 chr10:75477773-75477923 10;21 N coord_cassette CUFF.127 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 78;292 N cassette CUFF.116 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 28;298 N mutually_exclusive CUFF.164 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 142;32 K cassette CUFF.164 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 26;213 N jcn_only_AA CUFF.148 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 115;62 K cassette CUFF.164 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 140;464 K alternative_acceptor CUFF.116 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 338;2 K alternative_first_exon CUFF.116 chr10 + chr10:6186977-6255585;chr10:6188460-6255585 chr10:6245300-6255585 chr10:6186814-6186976;chr10:6188258-6188459 chr10:6244810-6245299 38;357 N alternative_donor CUFF.138 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 753;1 N jcn_only_AD CUFF.113 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 chr10:415434-415573;chr10:428587-428701 36;5 N jcn_only_AA chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 35;23 N alternative_donor CUFF.148,CUFF.168 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 385;6 N coord_cassette CUFF.127 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 87;311 N alternative_acceptor CUFF.148 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 383;1 N jcn_only_AD CUFF.152,CUFF.164 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 35;11 N jcn_only_AA CUFF.160 chr10 + chr10:106976881-106982873 chr10:106976881-106977601 chr10:106977602-106982873 chr10:106982873-106982874 3;18 K intron_retention CUFF.152 chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 44;35 N alternative_acceptor CUFF.142 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 415;2 N alternative_acceptor CUFF.119 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 253;3 K jcn_only_AA CUFF.140 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 41;12 K alternative_last_exon CUFF.116 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277495 chr10:6270159-6270241 42;235 K alternative_acceptor CUFF.116,CUFF.157 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 10;79 N alternative_acceptor CUFF.152 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 41;0 N jcn_only_AD CUFF.142 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 348;45 N alternative_acceptor CUFF.120,CUFF.127 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 247;2 N jcn_only_AD ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;2 N jcn_only_AA CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 182;74 N alternative_acceptor CUFF.168 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 21;7 N alternative_acceptor CUFF.148 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 331;24 N jcn_only_AD CUFF.133 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 20;11 K alternative_last_exon CUFF.170 chr10 - chr10:135060555-135061294 chr10:135061206-135061294 chr10:135059982-135060554 chr10:135061011-135061205 6;99 K cassette CUFF.120 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 52;123 N jcn_only_AD CUFF.127 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 140;72 K coord_cassette CUFF.116 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266112-6266176;chr10:6266469-6266586 3;6 N jcn_only_AA CUFF.114 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 16;45 N alternative_donor CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 33;18 N jcn_only_AD CUFF.135 chr10 + chr10:48231815-48235818 chr10:48235174-48235818 chr10:48231815-48235173 chr10:48231814-48231815 3;3 N alternative_acceptor CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 47;68 N cassette CUFF.127 chr10 + chr10:35416122-35437295;chr10:35416496-35437295;chr10:35416122-35467816 chr10:35416122-35426709,chr10:35416496-35426709;chr10:35426808-35437295,chr10:35426808-35467816 chr10:35426710-35426807 431;205 K coord_cassette CUFF.122 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 36;89 N jcn_only_AD CUFF.142 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 150;6 K alternative_last_exon CUFF.116 chr10 + chr10:6270182-6271071;chr10:6270182-6274857 chr10:6270182-6273225 chr10:6274858-6277495 chr10:6273226-6273275 101;21 N alternative_acceptor CUFF.133 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 66;18 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 237;24 N alternative_donor CUFF.135 chr10 + chr10:48231815-48235818 chr10:48235174-48235818 chr10:48231815-48235173 chr10:48231814-48231815 3;0 N alternative_acceptor CUFF.114 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 16;4 K cassette CUFF.120 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 27;165 N coord_cassette CUFF.164 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 16;301 N alternative_donor CUFF.165 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 3;9 K intron_retention CUFF.142 chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 89;60 N jcn_only_AA CUFF.148 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 331;26 N alternative_donor CUFF.133 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 20;0 N jcn_only_AA CUFF.148 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 151;27 N jcn_only_AA CUFF.148 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 400;39 N alternative_first_exon chr10 - chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73975965-73976063 chr10:73975540-73975867 157;157 K intron_retention CUFF.142 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 75;118 K jcn_only_AA CUFF.127 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 407;608 N jcn_only_AD CUFF.165 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 47;10 K cassette CUFF.145 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 26;19 N intron_retention chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 43;26 N jcn_only_AD CUFF.113 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 chr10:410314-410522;chr10:412215-412351 5;8 N jcn_only_AA CUFF.168 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 21;6 K cassette CUFF.140 chr10 + chr10:70661228-70666466 chr10:70661228-70666039;chr10:70666094-70666466 chr10:70666040-70666093 26;7 N cassette CUFF.164 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 362;88 K cassette CUFF.148 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 94;73 N alternative_donor CUFF.148,CUFF.164 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 322;0 K cassette CUFF.599 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 107;30 N cassette CUFF.607 chr17 + chr17:80416385-80417867 chr17:80416385-80417150;chr17:80417325-80417867 chr17:80417151-80417324 34;610 N jcn_only_AD CUFF.596 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 64;710 N jcn_only_AD chr17 + chr17:29576138-29585361 chr17:29584745-29585361 10;38 N jcn_only_AD CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 52;128 N intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 12;45 N alternative_donor CUFF.583 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 206;63 K alternative_acceptor CUFF.606 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 308;52 N jcn_only_AA chr17 + chr17:29592358-29652837 chr17:29592358-29626527 10;7 K alternative_first_exon CUFF.527,CUFF.541 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655373-655517 chr17:654891-655301 80;146 N alternative_acceptor CUFF.587 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 59;1 K cassette CUFF.599 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 77;74 N jcn_only_AA CUFF.607 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 147;4 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 209;178 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 328;31 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 32;115 N jcn_only_AA CUFF.537 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 128;5 N intron_retention CUFF.530 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 22;110 N intron_retention CUFF.593 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 chr17:61904778-61904874 31;85 N jcn_only_AD CUFF.585 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 86;15 N cassette CUFF.553 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 39;154 K intron_retention CUFF.541 chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 93;78 N jcn_only_AA CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 420;9 N alternative_acceptor CUFF.602 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 12;254 N intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 16;50 N intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 11;43 N jcn_only_AA CUFF.580 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 139;7 K jcn_only_AD CUFF.533 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 191;6 K intron_retention chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 346;51 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895068 98;16 N jcn_only_AD CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 420;10 N intron_retention CUFF.593 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 chr17:61908169-61908295;chr17:61908380-61908586 18;54 N jcn_only_AA chr17 + chr17:29576138-29584704;chr17:29576138-29579955 chr17:29576138-29585361 36;10 N jcn_only_AA CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 68;22 N alternative_acceptor CUFF.601 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 263;3 N jcn_only_AA CUFF.600 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 38;17 K cassette CUFF.572 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 18;91 N cassette CUFF.603 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 91;68 N intron_retention chr17 - chr17:79478830-79478928 chr17:79478829-79478830;chr17:79478928-79478929 81;89 K intron_retention CUFF.571 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 22;52 N alternative_donor CUFF.575,CUFF.602 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 78;5 N alternative_acceptor CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 348;119 N alternative_acceptor CUFF.600 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 38;129 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 234;126 N jcn_only_AD CUFF.593 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61908396-61908586 58;949 K alternative_last_exon CUFF.539 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15492326-15492541 97;100 N alternative_donor CUFF.541 chr17 - chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 137;4 N intron_retention chr17 - chr17:79479387-79479631 chr17:79479386-79479387;chr17:79479631-79479632 18;6 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 57;3 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 30;207 K intron_retention CUFF.555 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 15;40 K intron_retention CUFF.537 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 80;11 N jcn_only_AA chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 7;214 N jcn_only_AA CUFF.530 chr17 + chr17:29664899-29665042;chr17:29664899-29667522 chr17:29664899-29665019 104;15 K intron_retention CUFF.580 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 38;22 N alternative_acceptor CUFF.603 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 34;108 N intron_retention CUFF.593 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 chr17:61904778-61904874 119;109 N jcn_only_AA CUFF.528 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 663;7 K intron_retention CUFF.537 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 4;11 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 20;136 K intron_retention CUFF.599 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 19;10 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 21;13 N intron_retention CUFF.593 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 chr17:61904778-61904874 26;130 K intron_retention CUFF.605 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 104;64 K intron_retention CUFF.593 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 126;58 N jcn_only_AD CUFF.587 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 49;85 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 65;76 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 5;25 N coord_cassette CUFF.566 chr17 - chr17:34500807-34503839 chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839 chr17:34502090-34502175;chr17:34502339-34502411 34;6 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 87;56 N cassette CUFF.541 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 49;182 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 89;11 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 21;45 K intron_retention CUFF.530 chr17 + chr17:1943900-1944396 chr17:1943899-1943900;chr17:1944396-1944397 91;21 K alternative_donor CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 87;21 N intron_retention chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 22;69 K jcn_only_AA CUFF.551 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 27;14 N cassette CUFF.541 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 277;226 N jcn_only_AD CUFF.547 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380580-17388747 chr17:17380579-17380580 10;38 N jcn_only_AA CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 348;81 K cassette CUFF.599 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 68;116 K intron_retention CUFF.602 chr17 - chr17:79478653-79478788 chr17:79478652-79478653;chr17:79478788-79478789 47;161 K jcn_only_AA CUFF.584 chr17 - chr17:57756906-57784731;chr17:57777238-57784731 chr17:57777551-57784731 139;53 N jcn_only_AA CUFF.591 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 24;3 N jcn_only_AD CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 224;28 N jcn_only_AD CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560535-61560820 chr17:61560051-61560534 chr17:61560050-61560051 21;19 K jcn_only_AD CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 191;52 K jcn_only_AD CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 15;241 N jcn_only_AD CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 132;47 N jcn_only_AA CUFF.528 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 446;224 K intron_retention CUFF.530 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 143;39 N alternative_donor CUFF.533,CUFF.576 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 143;4 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 chr17:66511535-66511717 15;75 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 22;84 N jcn_only_AD CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79355676 chr17:79354385-79358745 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 349;119 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 chr17:61555292-61555459 47;72 K cassette CUFF.569 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 11;31 K cassette CUFF.543 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 15;71 N mutually_exclusive CUFF.603 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 55;17 N alternative_last_exon CUFF.541 chr17 - chr17:15555261-15562115;chr17:15546131-15562115 chr17:15557749-15562115 chr17:15546035-15546130 chr17:15557647-15557748 27;19 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 chr17:66511535-66511717 215;19 K intron_retention CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 chr17:61907212-61907309;chr17:61907631-61907861 89;35 K intron_retention CUFF.593 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 chr17:61904778-61904883;chr17:61907493-61907549 40;89 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 47;241 K intron_retention CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 68;124 N alternative_donor CUFF.528 chr17 - chr17:79355741-79358928 chr17:79355741-79358745 chr17:79358746-79358928 chr17:79358928-79358929 27;89 K cassette CUFF.538 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 26;64 K cassette CUFF.572 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 27;26 N jcn_only_AD CUFF.587 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 112;22 K intron_retention CUFF.530 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 71;22 N jcn_only_AA CUFF.528 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 124;65 N jcn_only_AD CUFF.537 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 175;5 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 114;29 N jcn_only_AA CUFF.528 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 138;52 N cassette CUFF.541 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 13;132 N coord_cassette CUFF.553 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 23;111 N jcn_only_AA chr17 + chr17:29657517-29661855 chr17:29657517-29661681 58;6 N jcn_only_AD CUFF.533,CUFF.576 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 143;23 N jcn_only_AA chr17 + chr17:29664899-29665042;chr17:29664899-29665019 chr17:29664899-29667522 80;39 N jcn_only_AA CUFF.528 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 462;209 N intron_retention chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 160;54 N jcn_only_AD CUFF.583 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 505;55 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 chr17:66511128-66511260 76;15 K intron_retention CUFF.602 chr17 - chr17:79477356-79477504 chr17:79477355-79477356;chr17:79477504-79477505 27;506 K cassette CUFF.528 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 154;533 N jcn_only_AA CUFF.533 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 124;14 N intron_retention CUFF.543 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 15;6 K intron_retention CUFF.593 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 chr17:61908687-61908785;chr17:61908866-61908976 246;9 K intron_retention CUFF.533 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 39;55 N jcn_only_AD chr17 + chr17:29657517-29661855 chr17:29661749-29661855 58;11 K intron_retention CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 87;18 K jcn_only_AA CUFF.584 chr17 - chr17:57756906-57784731;chr17:57777551-57784731 chr17:57777238-57784731 78;114 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61904778-61904874 59;82 N jcn_only_AD CUFF.591,CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 738;22 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685695 chr17:46710876-46710960 132;127 N jcn_only_AD chr17 + chr17:29664899-29667522 chr17:29665824-29667522 39;98 N intron_retention chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 66;102 N alternative_acceptor CUFF.528 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 397;25 N alternative_donor chr17 - chr17:79354385-79358745;chr17:79354385-79355676 chr17:79354385-79358928 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 90;261 N cassette CUFF.553 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 73;116 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 207;49 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 43;55 N alternative_acceptor chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 130;126 N jcn_only_AA CUFF.596 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 547;14 N jcn_only_AD CUFF.578 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 23;308 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 chr17:61905498-61905569;chr17:61907212-61907309 14;29 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 39;263 K intron_retention CUFF.600 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 740;6 N alternative_donor CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 342;9 K coord_cassette CUFF.599 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 29;31 K intron_retention CUFF.530 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 221;49 N intron_retention chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 97;11 N cassette CUFF.587 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 chr17:61555292-61555459 4;94 N jcn_only_AA CUFF.601 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 287;66 K alternative_last_exon CUFF.547 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396540 chr17:17388614-17388904 4;140 K intron_retention CUFF.583 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 28;263 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 334;26 N jcn_only_AA CUFF.587 chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 36;204 K intron_retention CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 949;52 K cassette CUFF.557 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 13;34 K jcn_only_AD CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 87;30 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 4;56 K intron_retention CUFF.606 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 415;59 N jcn_only_AA chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 77;118 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 221;35 N jcn_only_AA chr17 + chr17:29576138-29585361;chr17:29576138-29579955 chr17:29576138-29584704 17;28 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 23;24 N cassette CUFF.543 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 18;13 N jcn_only_AD CUFF.580,CUFF.595 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 195;25 N alternative_donor CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 138;33 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 210;4 N jcn_only_AA chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 119;54 N jcn_only_AD CUFF.583 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 366;20 K intron_retention CUFF.574 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 9;30 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845 chr17:79894738-79895103 106;9 N jcn_only_AD chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 30;6 N jcn_only_AA CUFF.600 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 28;516 N alternative_acceptor CUFF.541 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 236;34 N alternative_donor CUFF.596 chr17 + chr17:66509120-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 22;47 N intron_retention chr17 - chr17:1946265-1946368 chr17:1946264-1946265;chr17:1946368-1946369 3;117 N coord_cassette CUFF.553 chr17 + chr17:25969375-25972886 chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886 chr17:25970551-25970646;chr17:25972340-25972375 28;133 K coord_cassette CUFF.599 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 29;58 N alternative_acceptor CUFF.543 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 52;2 N alternative_donor CUFF.603 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 24;1 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 168;43 N jcn_only_AD CUFF.528 chr17 - chr17:79355741-79358928 chr17:79355741-79358745 chr17:79358746-79358928 chr17:79358928-79358929 27;54 N intron_retention chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 chr17:66511535-66511717 139;14 K alternative_donor CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 15;139 N alternative_donor CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 420;2 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895133 104;11 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 209;175 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79895103 chr17:79894738-79894845 103;12 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 26;112 N alternative_donor chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 147;24 N alternative_donor CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79355676 chr17:79354385-79358745 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 270;81 N alternative_acceptor chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 119;6 K intron_retention CUFF.572 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 88;14 K cassette CUFF.587 chr17 + chr17:61562734-61563917 chr17:61562734-61563719;chr17:61563733-61563917 chr17:61563720-61563732 120;64 N alternative_acceptor CUFF.607 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 155;16 N intron_retention chr17 + chr17:25965381-25967668 chr17:25965380-25965381;chr17:25967668-25967669 96;120 K intron_retention CUFF.530 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 76;91 N cassette CUFF.607 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 91;737 N jcn_only_AA CUFF.600 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 756;23 N alternative_donor CUFF.597 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 5;1 N jcn_only_AA CUFF.607 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 65;168 N alternative_acceptor CUFF.607 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 65;185 N cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 21;88 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 26;372 K intron_retention CUFF.537 chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 47;62 N alternative_acceptor CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 71;65 N alternative_donor chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 85;184 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46710960;chr17:46685591-46685695 chr17:46687881-46688379 188;71 N coord_cassette CUFF.537 chr17 + chr17:6352728-6353681 chr17:6352728-6353023;chr17:6353099-6353347;chr17:6353393-6353681 chr17:6353024-6353098;chr17:6353348-6353392 32;32 N alternative_acceptor CUFF.528 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 176;21 N jcn_only_AD CUFF.583 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 323;63 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 chr17:61905498-61905569 170;39 N jcn_only_AA chr17 + chr17:29664899-29665019;chr17:29664899-29667522 chr17:29664899-29665042 54;65 N alternative_acceptor CUFF.583 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 39;90 K jcn_only_AA CUFF.565 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 22;22 K alternative_first_exon CUFF.580,CUFF.602 chr17 - chr17:79479387-79479489,chr17:79479387-79479631,chr17:79479387-79479640,chr17:79479387-79490667;chr17:79479387-79481572 chr17:79479387-79479759 chr17:79481573-79481596 chr17:79479760-79479900 113;229 K intron_retention CUFF.607 chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 29;32 N jcn_only_AD CUFF.575,CUFF.602 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 78;9 N alternative_donor CUFF.585 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 20;3 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 7;39 K alternative_first_exon CUFF.580,CUFF.601 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307939-47308195 chr17:47307830-47307890 85;72 N jcn_only_AD CUFF.593 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61907493-61907549 40;301 K intron_retention chr17 + chr17:79890661-79890871 chr17:79890660-79890661;chr17:79890871-79890872 5;74 N alternative_donor CUFF.596 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 64;369 N intron_retention chr17 + chr17:29683601-29683977 chr17:29683600-29683601;chr17:29683977-29683978 91;7 N alternative_acceptor chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 124;33 N jcn_only_AA chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 74;18 N jcn_only_AD CUFF.607 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 727;49 K cassette CUFF.579 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 72;74 N cassette CUFF.558 chr17 + chr17:29706042-29708890 chr17:29706042-29706123;chr17:29706376-29708890 chr17:29706124-29706375 125;158 K intron_retention CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 191;185 K alternative_first_exon CUFF.599 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77005746-77006035 chr17:77004145-77004235 65;5 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 255;16 N alternative_donor CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560535-61560820 chr17:61560051-61560534 chr17:61560050-61560051 21;6 N alternative_acceptor CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 949;35 N alternative_last_exon CUFF.607 chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80446097-80446115 chr17:80443373-80443530 10;9 N alternative_donor CUFF.537 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 149;2 N jcn_only_AD CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 379;88 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 240;16 K intron_retention chr17 + chr17:25965381-25967597 chr17:25965380-25965381;chr17:25967597-25967598 112;26 N coord_cassette CUFF.541 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 23;71 K cassette CUFF.587 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 21;177 K alternative_last_exon CUFF.533 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5424844-5425106 chr17:5433205-5433378 134;111 N jcn_only_AA CUFF.601 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 327;27 K intron_retention CUFF.606 chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 26;78 K alternative_last_exon CUFF.606 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993746-79993939 7;266 K cassette CUFF.527 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 35;116 N alternative_acceptor CUFF.587,CUFF.607 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 226;2 K cassette CUFF.579 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 72;54 K coord_cassette CUFF.572 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 132;30 N alternative_donor CUFF.578 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 23;176 N cassette CUFF.537 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 32;85 N alternative_donor CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 104;47 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 36;366 K intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 65;31 K intron_retention CUFF.528 chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 52;52 N alternative_donor CUFF.583 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 247;22 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 39;164 N cassette CUFF.541 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 105;62 N alternative_donor CUFF.530 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 168;50 N alternative_donor CUFF.585 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 18;5 N intron_retention chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 91;26 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 30;22 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 29;17 N coord_cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76993922-76994045;chr17:76994230-76994368;chr17:76996182-76996352 21;27 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 104;43 K coord_cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990384-46993437 chr17:46988170-46988242;chr17:46990196-46990383 78;46 K cassette CUFF.595 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 16;251 K coord_cassette CUFF.599 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 33;31 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 153;44 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 11;14 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 chr17:66511535-66511717 118;20 N alternative_acceptor CUFF.537 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 128;3 N jcn_only_AA CUFF.600 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 761;19 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 209;21 N alternative_acceptor chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 96;147 K alternative_first_exon CUFF.527,CUFF.606 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994067-79994198 chr17:79994023-79994055 268;14 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 5;60 N jcn_only_AD CUFF.558 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 74;19 N jcn_only_AA CUFF.543 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 52;15 N jcn_only_AD CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 224;33 N coord_cassette CUFF.541 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 18;125 N alternative_first_exon chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499987 chr17:15496651-15496809 11;71 N alternative_acceptor chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 122;35 N alternative_donor CUFF.580,CUFF.595 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 195;1 K intron_retention CUFF.539 chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 46;28 K intron_retention CUFF.549 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 21;122 K intron_retention CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 291;172 K intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 33;134 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 82;304 N jcn_only_AD CUFF.607 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 261;28 N jcn_only_AD CUFF.585 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 46;56 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46710960 chr17:46685591-46685695 198;61 N alternative_acceptor CUFF.600 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 400;7 N alternative_acceptor CUFF.601 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 5;261 N jcn_only_AD CUFF.530 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 247;17 N alternative_donor CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 23;118 N intron_retention CUFF.593 chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 chr17:61907212-61907309;chr17:61907493-61907549 301;56 N alternative_acceptor chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 7;89 N alternative_acceptor CUFF.528 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 135;62 K intron_retention CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 738;24 N jcn_only_AD CUFF.597 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 5;7 K intron_retention CUFF.553 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 159;12 K intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 51;16 K intron_retention CUFF.593 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 chr17:61904497-61904566;chr17:61904778-61904874 48;72 N jcn_only_AD CUFF.585 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 71;30 N alternative_donor CUFF.558 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 74;33 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61904778-61904874 59;39 K alternative_last_exon CUFF.587 chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61584417-61584419 chr17:61574498-61574975 4;136 N alternative_acceptor CUFF.601 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 264;2 N jcn_only_AA CUFF.575 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 78;11 K intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 chr17:61905498-61905569;chr17:61906854-61906923 330;29 N jcn_only_AD CUFF.587 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 106;28 N intron_retention CUFF.528 chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 28;49 N alternative_acceptor CUFF.528 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 136;61 N cassette CUFF.607 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 82;242 N intron_retention chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 11;5 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 35;236 N cassette CUFF.596 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 chr17:66507921-66508283;chr17:66511535-66511717 356;49 N cassette CUFF.553 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 49;151 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 chr17:61907631-61907861 50;429 N alternative_acceptor CUFF.547,CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560051-61560389 chr17:61560390-61560820 chr17:61560820-61560821 21;7 N alternative_acceptor CUFF.528 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 333;89 N alternative_acceptor chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 74;0 N intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 28;5 N cassette CUFF.584 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777551-57784731 chr17:57776232-57777550 7;134 N alternative_donor CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 57;114 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 chr17:66511128-66511260 11;13 N jcn_only_AA CUFF.600 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 42;738 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895055 102;13 K cassette CUFF.533 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 30;119 N alternative_acceptor CUFF.600 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 30;377 K alternative_first_exon CUFF.580 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47304009-47304120 chr17:47303018-47303110 53;5 K alternative_acceptor CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 291;252 K cassette CUFF.541 chr17 - chr17:15584268-15586349 chr17:15584268-15586174;chr17:15586266-15586349 chr17:15586175-15586265 251;116 N alternative_donor CUFF.607 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 142;7 K cassette CUFF.595 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 16;196 K intron_retention CUFF.596 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 chr17:66511128-66511260;chr17:66511535-66511717 82;26 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 241;119 K intron_retention CUFF.593 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 chr17:61908866-61908976;chr17:61909084-61909170 129;8 N alternative_acceptor chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 68;89 K intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 304;132 N jcn_only_AD chr17 - chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895137 69;46 N jcn_only_AA CUFF.596 chr17 + chr17:29576138-29584704;chr17:29576138-29585361 chr17:29576138-29579955 38;7 K cassette CUFF.537 chr17 + chr17:6352728-6353347 chr17:6352728-6353023;chr17:6353099-6353347 chr17:6353024-6353098 110;40 N jcn_only_AD chr17 + chr17:29576138-29584704 chr17:29580019-29584704 28;6 N intron_retention chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 28;6 N alternative_acceptor CUFF.596 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 547;7 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 60;9 K alternative_last_exon CUFF.537 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353682-6354789 chr17:6353559-6353606 87;3 K alternative_donor CUFF.533 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 191;3 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 23;54 N intron_retention CUFF.593 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 chr17:61904778-61904883 40;64 N coord_cassette CUFF.541 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178 chr17:15562116-15562190;chr17:15580490-15580594 23;32 N jcn_only_AA CUFF.533 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 132;6 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508690-66511127 chr17:66508284-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 59;10 N alternative_acceptor CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 68;68 K alternative_first_exon CUFF.533 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5405192 chr17:5403351-5404508 13;213 N jcn_only_AA CUFF.541 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 236;66 N alternative_donor CUFF.603 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 15;10 K intron_retention CUFF.606 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 303;94 N jcn_only_AD chr17 + chr17:29677337-29683477 chr17:29679433-29683477 32;56 N alternative_acceptor CUFF.528 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 174;23 K alternative_last_exon CUFF.600 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250831-79250933 chr17:79253503-79253960 324;231 K intron_retention chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 128;21 N alternative_acceptor CUFF.528 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 420;2 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 118;94 N alternative_acceptor CUFF.528 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 508;5 K cassette CUFF.587 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 61;94 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 63;105 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 chr17:61905498-61905569 170;15 N jcn_only_AA CUFF.587 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 209;31 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895403 107;7 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 32;11 N alternative_donor CUFF.547 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380580-17388747 chr17:17380579-17380580 10;6 N alternative_acceptor CUFF.528 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 213;209 N jcn_only_AA CUFF.553 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 365;6 N alternative_acceptor CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 67;69 K intron_retention CUFF.587 chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 22;28 N cassette CUFF.603 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 48;109 N jcn_only_AA chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 151;44 K intron_retention CUFF.587 chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 56;45 N jcn_only_AA CUFF.603 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 34;222 N jcn_only_AA CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 77;69 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 22;6 N cassette CUFF.593 chr17 + chr17:61905570-61907211 chr17:61905570-61906853;chr17:61906924-61907211 chr17:61906854-61906923 chr17:61905498-61905569;chr17:61907212-61907309 14;289 N alternative_acceptor CUFF.587 chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 24;204 K intron_retention CUFF.606 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 489;18 K cassette CUFF.574 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 65;25 N cassette CUFF.607 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442807-80443372 chr17:80442689-80442806 80;52 N jcn_only_AA CUFF.528 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 169;21 N jcn_only_AD CUFF.603 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 195;10 N jcn_only_AA CUFF.601 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 93;261 N jcn_only_AD CUFF.530 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 168;7 N alternative_donor CUFF.607 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 727;58 K intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 18;9 N alternative_acceptor CUFF.580 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 134;2 N jcn_only_AA CUFF.587,CUFF.607 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 235;5 K coord_cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990328-46993437 chr17:46988170-46988242;chr17:46990196-46990327 78;59 K jcn_only_AA CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 291;93 N intron_retention chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 chr17:66511128-66511260 3;7 N cassette CUFF.530 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 18;140 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 66;3 N alternative_acceptor CUFF.600 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 384;23 N cassette CUFF.567 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 36;32 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 226;30 N alternative_donor CUFF.593 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61905498-61905569;chr17:61904778-61904874 126;114 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 13;49 N coord_cassette CUFF.603 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 28;50 N cassette CUFF.541 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 18;80 K intron_retention CUFF.587 chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 116;13 K intron_retention CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478652-79478653;chr17:79478928-79478929 348;90 K alternative_donor CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 191;187 K alternative_acceptor CUFF.551 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 27;21 N jcn_only_AD CUFF.587 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 chr17:61555292-61555459;chr17:61554422-61554704 98;47 N jcn_only_AA CUFF.528 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 166;23 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 5;34 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 96;3 N cassette CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 chr17:61907212-61907309;chr17:61907631-61907861 89;300 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 39;191 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 9;142 N alternative_donor CUFF.583 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 505;32 N alternative_acceptor CUFF.528 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 167;30 K intron_retention CUFF.541 chr17 - chr17:15584268-15586174 chr17:15584267-15584268;chr17:15586174-15586175 19;9 K cassette CUFF.569 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 6;3 N alternative_donor CUFF.607 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 261;2 N jcn_only_AA CUFF.528 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 479;191 N intron_retention chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 106;23 K cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46993437 chr17:46988170-46988242 78;64 N alternative_acceptor chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 29;104 N alternative_donor CUFF.591,CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 738;18 N alternative_acceptor chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 chr17:61905498-61905569 170;25 N coord_cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 21;7 N jcn_only_AA chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 96;112 K intron_retention CUFF.593 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 chr17:61906854-61906923;chr17:61907212-61907309 355;34 N jcn_only_AD CUFF.607 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 142;5 K intron_retention CUFF.593 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 chr17:61907493-61907549;chr17:61907631-61907861 389;41 N intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 9;47 K alternative_last_exon CUFF.607 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436676-80436794 chr17:80436447-80436447 79;5 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508690-66511127 chr17:66508284-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 89;10 N jcn_only_AA chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 161;33 K alternative_acceptor CUFF.565 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 22;11 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 20;185 N jcn_only_AA CUFF.583 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 39;28 N alternative_acceptor CUFF.600 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 28;172 K intron_retention CUFF.602 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 375;170 N jcn_only_AA chr17 + chr17:29677337-29683477 chr17:29677337-29679274 32;56 N alternative_acceptor CUFF.553 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 365;1 K intron_retention chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 308;77 K intron_retention CUFF.576 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 21;144 K jcn_only_AA CUFF.606 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 308;26 K alternative_first_exon CUFF.557 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421945-29422387 chr17:29455479-29455525 40;16 K jcn_only_AD CUFF.572 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 41;88 N jcn_only_AA CUFF.528 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 162;28 K alternative_first_exon CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478929-79479168 chr17:79478789-79478810 422;42 K intron_retention CUFF.587 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 62;61 K intron_retention CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 224;182 N jcn_only_AA CUFF.587 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 85;59 N alternative_donor CUFF.587 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 chr17:61555292-61555459;chr17:61554422-61554704 98;77 K alternative_first_exon CUFF.572,CUFF.591 chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61851972-61852136 chr17:61850772-61851135 19;28 N alternative_acceptor CUFF.591 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 24;0 K intron_retention CUFF.583 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 352;46 N intron_retention chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 185;35 K intron_retention CUFF.539 chr17 - chr17:15496810-15498061 chr17:15496809-15496810;chr17:15498061-15498062 101;5 N cassette CUFF.533 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 43;72 N jcn_only_AA CUFF.528 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 508;6 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 252;19 N jcn_only_AA CUFF.547,CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560051-61560389 chr17:61560390-61560820 chr17:61560820-61560821 21;20 K jcn_only_AA CUFF.584 chr17 - chr17:57777238-57784731;chr17:57777551-57784731 chr17:57756906-57784731 166;26 N jcn_only_AA CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 77;70 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 39;65 N cassette CUFF.600 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 18;417 N intron_retention chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 23;76 K cassette CUFF.543 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 90;32 N alternative_donor CUFF.585 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 8;15 N cassette CUFF.584 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777238-57784731 chr17:57776232-57777237 7;150 N jcn_only_AA CUFF.533 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 20;118 N alternative_donor CUFF.530 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 247;4 N jcn_only_AD chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 16;20 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 7;238 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 301;59 K intron_retention CUFF.607 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 142;68 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 93;4 N jcn_only_AD chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 224;33 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 29;142 K intron_retention CUFF.538 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 15;68 K intron_retention CUFF.558 chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 23;147 N alternative_donor CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 224;178 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 949;18 N alternative_last_exon CUFF.539 chr17 - chr17:15498141-15499827;chr17:15492542-15499827 chr17:15498205-15499827 chr17:15492326-15492541 chr17:15498062-15498204 31;77 K intron_retention CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 15;32 N cassette CUFF.541 chr17 - chr17:15546131-15584178;chr17:15562191-15584178 chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178 chr17:15580490-15580594 74;58 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 214;7 N alternative_acceptor CUFF.587 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 206;22 N alternative_donor CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 49;102 N jcn_only_AA chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 29;212 N jcn_only_AD CUFF.593 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61905498-61905569;chr17:61904778-61904874 126;170 N jcn_only_AD CUFF.603 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 195;10 N alternative_acceptor chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 191;78 N alternative_donor CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 122;19 N cassette CUFF.587 chr17 + chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562428-61562596 chr17:61562331-61562427 30;48 N alternative_acceptor CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 420;3 K intron_retention CUFF.607 chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 11;23 N cassette CUFF.553 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 31;94 N alternative_acceptor CUFF.607 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 158;13 N intron_retention chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 44;92 N jcn_only_AA chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 191;27 N alternative_acceptor CUFF.528 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 325;97 N jcn_only_AA CUFF.602 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 12;418 N jcn_only_AD chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 27;10 N jcn_only_AD chr17 - chr17:79354385-79358745;chr17:79354385-79355676 chr17:79354385-79358928 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 207;261 N jcn_only_AA CUFF.607 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 146;5 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 33;140 N intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 46;43 K coord_cassette CUFF.599 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 6;47 N jcn_only_AA CUFF.528 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 631;39 N jcn_only_AD chr17 + chr17:29667602-29670026 chr17:29667664-29670026 30;104 N jcn_only_AD CUFF.596 chr17 + chr17:66509120-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 24;76 N intron_retention CUFF.593 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 chr17:61904778-61904874 59;62 N alternative_acceptor CUFF.575 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 78;4 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 39;19 N jcn_only_AD CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 66;191 K coord_cassette CUFF.494 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 52;19 K cassette CUFF.510 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 181;28 N alternative_donor CUFF.497,CUFF.500 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 1077;26 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4524849-4555484;chr16:4526489-4555484 chr16:4533756-4555484 chr16:4524691-4524848;chr16:4525835-4526488 chr16:4533743-4533755 407;66 N alternative_donor CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 87;103 N jcn_only_AD CUFF.489 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 42;11 K intron_retention CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 94;5 N alternative_acceptor CUFF.513,CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 160;10 K jcn_only_AA CUFF.490 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 171;184 N alternative_acceptor CUFF.462 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 10;86 K jcn_only_AD CUFF.493 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 113;10 K cassette CUFF.512 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 121;114 N jcn_only_AD CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 137;5 N alternative_acceptor CUFF.522 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 7;32 K intron_retention CUFF.500 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 79;41 K intron_retention CUFF.505 chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 2;14 N intron_retention CUFF.478 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 20;67 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 chr16:3115782-3115827 12;268 K intron_retention CUFF.478 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 76;38 N cassette CUFF.473 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 106;358 K alternative_last_exon CUFF.498 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097668-25098044;chr16:25096913-25097093 chr16:25111886-25112006 223;337 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 5;13 K intron_retention CUFF.490 chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 20;16 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 103;414 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:105794-105882 25;98 N alternative_acceptor CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 141;5 N alternative_acceptor chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 4;7 N jcn_only_AD CUFF.490 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 181;166 K intron_retention CUFF.526 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 356;7 K intron_retention CUFF.526 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 224;48 K alternative_first_exon CUFF.520 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589702-75590233 chr16:75589117-75589234 144;258 K alternative_acceptor CUFF.524 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 7;33 N jcn_only_AA CUFF.490 chr16 + chr16:3115689-3115784 chr16:3115689-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 341;5 K intron_retention CUFF.500 chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 61;37 N jcn_only_AD CUFF.462 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 148;25 N cassette CUFF.478 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 10;194 N jcn_only_AA CUFF.517 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 88;4 K alternative_last_exon CUFF.498 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097668-25098044;chr16:25111886-25112006 chr16:25096913-25097093 425;135 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 chr16:3115230-3115495 41;385 N cassette CUFF.473 chr16 + chr16:3115496-3117377 chr16:3115496-3115781;chr16:3115828-3117377 chr16:3115782-3115827 chr16:3115230-3115495;chr16:3117378-3117886 46;558 K intron_retention CUFF.518 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 83;9 N jcn_only_AA CUFF.490 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 261;14 N mutually_exclusive CUFF.473 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 chr16:3117378-3117416 91;41 N jcn_only_AA CUFF.466,CUFF.473 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 171;35 N alternative_acceptor CUFF.509 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1224;11 N jcn_only_AA CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 141;8 K intron_retention CUFF.500 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 102;48 N jcn_only_AA chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 9;24 N coord_cassette CUFF.490 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 47;166 K cassette CUFF.488 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 6;20 N jcn_only_AD CUFF.462 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 189;4 N alternative_acceptor chr16 + chr16:3115712-3115784 chr16:3115712-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 46;68 N cassette CUFF.500 chr16 - chr16:30005130-30006423 chr16:30005130-30005968;chr16:30006165-30006423 chr16:30005969-30006164 64;51 N jcn_only_AA CUFF.473,CUFF.511 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 7;26 N alternative_acceptor CUFF.517 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 88;2 N alternative_donor CUFF.473 chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 307;126 N jcn_only_AA CUFF.462 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 189;7 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 1218;18 N cassette CUFF.490 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 13;80 K alternative_first_exon CUFF.506 chr16 + chr16:56269297-56309842,chr16:56227625-56309842;chr16:56226529-56309842 chr16:56260484-56309842 chr16:56226486-56226528 chr16:56260393-56260483 628;21 K cassette CUFF.513 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 18;102 N alternative_donor CUFF.463 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 47;0 K intron_retention CUFF.500 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 166;48 K alternative_donor CUFF.526 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 62;100 K jcn_only_AD CUFF.512,CUFF.524 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 34;154 N jcn_only_AD CUFF.463 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 47;4 K cassette CUFF.513 chr16 + chr16:67233660-67234094 chr16:67233660-67233853;chr16:67233905-67234094 chr16:67233854-67233904 13;78 N cassette CUFF.520 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 48;51 N alternative_donor CUFF.490 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 181;63 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 24;129 K intron_retention ENSG00000261505.1 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 19;3 N alternative_first_exon CUFF.509 chr16 - chr16:57513601-57513756,chr16:57513601-57513772,chr16:57513601-57514206,chr16:57513601-57515373,chr16:57513601-57520216,chr16:57513601-57521007,chr16:57513601-57521042,chr16:57513601-57521157;chr16:57513601-57517869 chr16:57513601-57514241 chr16:57517870-57518288 chr16:57514242-57514402 175;405 K intron_retention chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 116;425 N mutually_exclusive CUFF.518 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 14;16 K intron_retention CUFF.494 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 57;15 K alternative_first_exon CUFF.518 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380732-70380951 chr16:70381801-70381893 1352;12 K alternative_last_exon CUFF.493 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21763256-21763398 chr16:21758619-21758619 1;2 N intron_retention CUFF.503 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 4;6 N intron_retention CUFF.497 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 27;82 K intron_retention CUFF.526 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 131;11 N mutually_exclusive CUFF.473 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 chr16:3117378-3117614 33;111 K jcn_only_AA CUFF.524 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 7;75 N jcn_only_AD CUFF.490 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 195;47 N coord_cassette CUFF.494 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 21;25 N jcn_only_AD chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 4;89 K alternative_acceptor CUFF.513 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 9;57 N cassette CUFF.489 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 12;193 N alternative_donor CUFF.462 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 189;14 K jcn_only_AD CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 94;6 K jcn_only_AD CUFF.517 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 19;121 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 7;15 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 chr16:3117378-3117614 60;290 K jcn_only_AD CUFF.493 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 2;2 N alternative_donor chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 116;588 N cassette CUFF.504 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 6;144 N jcn_only_AA CUFF.463 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 96;13 K jcn_only_AA CUFF.513 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 9;121 N cassette CUFF.489 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 11;48 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 chr16:3115230-3115495 19;388 K alternative_donor CUFF.493 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 113;9 N intron_retention chr16 + chr16:21974143-21974274 chr16:21974142-21974143;chr16:21974274-21974275 1;31 K intron_retention CUFF.497 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 1077;81 N alternative_acceptor CUFF.462 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 189;10 N alternative_acceptor CUFF.473,CUFF.511 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 7;2 N intron_retention CUFF.518 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 9;3 N alternative_donor CUFF.489 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 42;5 N cassette CUFF.522 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 28;19 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 36;15 N alternative_donor CUFF.473 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 566;111 N alternative_donor CUFF.490 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 63;6 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 34;422 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115621 chr16:3115496-3115781 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 267;104 N cassette CUFF.480 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 31;345 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115781 chr16:3115496-3115621 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 247;124 N intron_retention chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 chr16:106539-106613 4;11 N jcn_only_AD CUFF.473 chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 16;126 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 13;105 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 16;221 K intron_retention CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 31;223 N cassette CUFF.473 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 chr16:3117378-3117416 81;728 N jcn_only_AD CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 87;20 N cassette CUFF.518 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 21;83 N cassette CUFF.496 chr16 + chr16:22448814-22466022 chr16:22448814-22462940;chr16:22462980-22466022 chr16:22462941-22462979 3;193 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 766;88 K intron_retention CUFF.478 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 145;11 N alternative_donor CUFF.517 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 7;61 K intron_retention CUFF.514 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 68;22 N jcn_only_AD CUFF.497,CUFF.500 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 1077;27 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 22;175 K jcn_only_AA CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 31;451 N jcn_only_AD CUFF.517 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 7;106 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115642;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115784 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 186;88 K intron_retention CUFF.494 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 2;19 N cassette CUFF.478 chr16 - chr16:4466963-4475478 chr16:4466963-4470359;chr16:4470555-4475478 chr16:4470360-4470554 14;83 N coord_cassette CUFF.494 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 15;45 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4533756-4555484;chr16:4526489-4555484 chr16:4524849-4555484 chr16:4533743-4533755;chr16:4525835-4526488 chr16:4524691-4524848 459;14 K jcn_only_AD CUFF.478 chr16 - chr16:4407261-4408367 chr16:4407261-4407968 22;107 K jcn_only_AD CUFF.513 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 10;119 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115642 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 232;41 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115642;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115784 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 283;88 N cassette CUFF.518 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 21;78 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115781 chr16:3115496-3115621 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 255;19 N jcn_only_AA CUFF.509 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1224;23 N jcn_only_AA CUFF.462 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 10;93 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115642 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 316;55 N jcn_only_AA CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 276;1077 N intron_retention CUFF.462 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 chr16:105794-105882 7;9 K intron_retention CUFF.514 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 74;36 K alternative_last_exon CUFF.506 chr16 + chr16:56226529-56268924;chr16:56226529-56309842 chr16:56226529-56247183 chr16:56309843-56310340 chr16:56247184-56247278 1253;8 K alternative_acceptor CUFF.490 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 171;91 N intron_retention CUFF.509 chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 7;88 N jcn_only_AA chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 4;4 N jcn_only_AA CUFF.512 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 213;7 K intron_retention CUFF.517 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 25;31 K intron_retention CUFF.494 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 101;28 K jcn_only_AA CUFF.512 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 34;121 K cassette CUFF.471 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 402;55 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 49;75 K intron_retention CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 141;4 N cassette ENSG00000228146.2 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 5;34 N intron_retention chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 7;9 K cassette CUFF.520 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 14;364 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 22;12 N alternative_donor CUFF.517 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 73;0 K jcn_only_AD CUFF.512,CUFF.517 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 85;44 N jcn_only_AD CUFF.517 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 73;7 N cassette CUFF.473 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 chr16:3117378-3117416 128;595 N jcn_only_AD CUFF.497 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1254;218 K cassette CUFF.472 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 171;16 K intron_retention CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 160;9 N alternative_acceptor CUFF.490 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 261;24 K alternative_first_exon CUFF.499 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523415 chr16:28518102-28518155 44;20 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4465715;chr16:4463406-4464307 chr16:4463406-4466459 chr16:4465716-4465751;chr16:4464308-4464367 chr16:4466460-4466962 53;147 N alternative_donor chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 4;45 N jcn_only_AA CUFF.513,CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 160;9 N alternative_acceptor CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 24;6 N coord_cassette CUFF.490 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 47;224 K jcn_only_AD CUFF.500,CUFF.509 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 38;20 N jcn_only_AD CUFF.496 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 253;24 N jcn_only_AA CUFF.522 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 7;145 N alternative_donor CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 202;231 K intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 chr16:3115230-3115495;chr16:3115782-3115827 126;199 N jcn_only_AD CUFF.497 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1436;36 N intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 218;19 N jcn_only_AA CUFF.463 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 60;49 K intron_retention CUFF.466 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 19;13 N intron_retention chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 15;22 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 chr16:3117378-3117614 810;289 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 589;88 N mutually_exclusive CUFF.490 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 12;8 K alternative_first_exon CUFF.526 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89788161-89788253 116;13 N alternative_donor CUFF.512 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 21;4 K cassette CUFF.494 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 52;25 K alternative_donor CUFF.497,CUFF.517 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 35;76 N alternative_acceptor CUFF.509 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 221;77 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 46;130 K alternative_first_exon CUFF.511 chr16 + chr16:66613796-66620899 chr16:66614088-66620899 chr16:66613351-66613795 chr16:66614042-66614087 chr16:66620900-66621001 23;127 N alternative_acceptor chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 56;39 N cassette CUFF.506 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 57;34 K alternative_donor CUFF.513 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 10;59 K alternative_last_exon CUFF.485 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660297-5660675 24;57 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 10;15 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 chr16:3115785-3115827 379;310 K cassette CUFF.490 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 20;202 N cassette CUFF.509 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 20;612 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 424;253 K alternative_first_exon CUFF.493 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695817-21695873 59;2 K alternative_donor CUFF.512,CUFF.517 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 85;28 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 chr16:3115785-3115827 341;279 N alternative_acceptor CUFF.490 chr16 + chr16:3115689-3115784 chr16:3115689-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 341;64 N jcn_only_AA CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 24;4 K cassette CUFF.494 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 20;25 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 101;1002 K intron_retention CUFF.462 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 189;10 N intron_retention chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 10;63 K alternative_first_exon CUFF.471 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190804-2190950 chr16:2198541-2198979 33;530 K intron_retention CUFF.512 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 61;131 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 13;119 N alternative_acceptor CUFF.497 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1182;58 K intron_retention CUFF.486 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 6;11 N cassette CUFF.478 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 75;195 K intron_retention CUFF.518 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 126;13 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 10;72 K intron_retention CUFF.478 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 146;8 K intron_retention CUFF.500 chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 271;28 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 91;69 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 chr16:3115782-3115827 5;284 N cassette CUFF.518 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 13;91 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 452;225 K cassette CUFF.478 chr16 - chr16:4445341-4455491 chr16:4445341-4447318;chr16:4447452-4455491 chr16:4447319-4447451 196;39 N alternative_acceptor chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 9;16 K intron_retention chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 93;57 K intron_retention CUFF.497 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 185;21 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 17;4 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 88;194 N alternative_acceptor CUFF.463 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 46;49 K intron_retention CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 87;65 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 5;35 K intron_retention CUFF.478 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 126;7 N jcn_only_AA chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 62;47 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 15;82 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4465715;chr16:4463406-4466459 chr16:4463406-4464307 chr16:4465716-4465751;chr16:4466460-4466962 chr16:4464308-4464367 182;18 N jcn_only_AD CUFF.473 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 809;46 K alternative_last_exon CUFF.478 chr16 - chr16:4407261-4408367 chr16:4408105-4408367 chr16:4407169-4407260 chr16:4407392-4408104 15;73 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 17;29 N alternative_acceptor CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1135;105 N coord_cassette CUFF.518 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 13;91 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4466459;chr16:4463406-4464307 chr16:4463406-4465715 chr16:4466460-4466962;chr16:4464308-4464367 chr16:4465716-4465751 177;23 N jcn_only_AD CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 130;12 N cassette CUFF.518 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 14;1166 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:105794-105882 25;51 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 chr16:3117378-3117416;chr16:3117555-3117886 510;418 N jcn_only_AD chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 254;1218 K alternative_last_exon CUFF.490 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19680482-19680621 chr16:19663677-19664007 89;53 N alternative_donor CUFF.509 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 226;5 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4524849-4555484;chr16:4533756-4555484 chr16:4526489-4555484 chr16:4524691-4524848;chr16:4533743-4533755 chr16:4525835-4526488 275;198 K jcn_only_AA CUFF.514 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 76;215 N intron_retention CUFF.509 chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 10;80 N alternative_donor CUFF.490 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 195;1 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 513;341 K intron_retention CUFF.480 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 364;13 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 6;43 N alternative_acceptor CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 87;51 K alternative_acceptor CUFF.514 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 76;118 K cassette CUFF.494 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 12;18 K intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 548;71 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 chr16:3115782-3115827;chr16:3117444-3117886 173;1127 N intron_retention chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 8;3 N jcn_only_AD CUFF.509 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 228;10 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 48;19 N jcn_only_AA CUFF.497 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1262;91 N alternative_donor CUFF.497 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 668;36 K intron_retention CUFF.471 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 451;21 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77775866 chr16:77769725-77770098 164;67 K alternative_donor CUFF.500,CUFF.509 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 38;25 K coord_cassette CUFF.478 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 77;305 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 chr16:3115785-3115827 46;262 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 15;90 K cassette CUFF.494 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 15;48 N jcn_only_AD CUFF.490 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 63;89 K alternative_first_exon CUFF.493 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716356-21716358 79;14 N alternative_donor chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 10;221 N jcn_only_AD CUFF.478,CUFF.509 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1224;26 N alternative_acceptor CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 163;1077 N jcn_only_AA CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1169;185 K alternative_last_exon CUFF.478 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4411494-4412132 chr16:4438546-4438632 105;127 K jcn_only_AD CUFF.497,CUFF.517 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 35;153 N alternative_acceptor CUFF.490 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 63;8 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 644;33 N coord_cassette CUFF.494 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 15;35 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115621 chr16:3115496-3115781 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 148;126 N jcn_only_AA CUFF.509 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 221;24 N alternative_donor CUFF.462 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 148;12 K jcn_only_AD CUFF.526 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 62;218 N cassette CUFF.473 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 chr16:3115230-3115495;chr16:3117378-3117886 46;545 K alternative_first_exon CUFF.524 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812593-87812980 chr16:87812414-87812586 64;115 N alternative_donor CUFF.496 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 253;16 N cassette CUFF.490 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 229;92 N jcn_only_AA CUFF.490 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 63;87 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 chr16:3117378-3117416 21;106 N alternative_donor CUFF.509 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 226;5 K alternative_donor CUFF.469 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 56;4 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 chr16:3115782-3115827;chr16:3117444-3117886 173;617 N alternative_donor CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 357;76 N cassette CUFF.504 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 3;6 K intron_retention CUFF.471 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 472;36 K intron_retention CUFF.518 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 76;6 N alternative_acceptor CUFF.512 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 213;5 N jcn_only_AA chr16 + chr16:3115712-3115784 chr16:3115712-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 46;12 K coord_cassette CUFF.500 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 271;88 K alternative_last_exon CUFF.521 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170014-76170263 chr16:76174260-76174301 46;15 N alternative_donor CUFF.497 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 624;80 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 4;24 K intron_retention CUFF.471 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 476;48 N alternative_donor CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 637;22 K alternative_donor CUFF.513 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 26;59 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 7;73 K alternative_last_exon CUFF.498 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096913-25097093;chr16:25111886-25112006 chr16:25097668-25098044 472;88 N mutually_exclusive CUFF.473 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 chr16:3117378-3117416 33;111 K intron_retention CUFF.493 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 14;12 K intron_retention CUFF.514 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 187;55 N cassette CUFF.522 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 43;144 K jcn_only_AD CUFF.469 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 56;9 N alternative_acceptor CUFF.463 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 88;7 K coord_cassette CUFF.490 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 153;178 K cassette CUFF.512 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 115;35 K mutually_exclusive CUFF.513 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 15;14 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 17;14 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 chr16:3117378-3117416 107;106 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 476;379 K intron_retention CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 637;22 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 96;6 K intron_retention CUFF.511 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 108;31 K alternative_donor CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 94;4 K alternative_acceptor CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 31;475 K jcn_only_AD CUFF.513 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 26;115 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 4;21 N alternative_donor CUFF.478,CUFF.509 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1224;4 N alternative_acceptor CUFF.466,CUFF.473 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 171;70 K alternative_donor CUFF.517 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 19;60 N jcn_only_AD CUFF.509 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 230;7 K alternative_first_exon CUFF.497 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521815 953;292 N jcn_only_AD CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 637;36 N jcn_only_AA CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 87;24 N cassette CUFF.500 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 64;39 K intron_retention CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 24;8 N jcn_only_AD CUFF.512 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 21;116 K jcn_only_AD CUFF.458 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 76;26 N alternative_acceptor chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 222;2 K cassette CUFF.391 chr15 + chr15:40558697-40564424 chr15:40558697-40559123;chr15:40559199-40564424 chr15:40559124-40559198 48;6 N alternative_donor CUFF.409 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 0;86 N jcn_only_AA CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45769966 chr15:45768751-45789310 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 34;9 N jcn_only_AD CUFF.437 chr15 + chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 97;11 N jcn_only_AD CUFF.409 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 125;30 K intron_retention CUFF.397 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 31;13 K alternative_acceptor CUFF.409 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 16;107 N alternative_donor CUFF.409 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 319;7 N jcn_only_AD CUFF.401,CUFF.406 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 130;30 K cassette CUFF.431 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 77;62 N alternative_donor CUFF.428 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 12;5 N cassette CUFF.399 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 13;76 K alternative_first_exon CUFF.409 chr15 + chr15:57506595-57523349;chr15:57490024-57523349 chr15:57511789-57523349 chr15:57489971-57490023 chr15:57511210-57511788 80;323 N jcn_only_AD CUFF.385 chr15 + chr15:29211691-29213842;chr15:29140756-29213842 chr15:29131425-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 190;3 N cassette CUFF.383 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 122;25 K cassette CUFF.404 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 89;22 K alternative_last_exon CUFF.446 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83357210-83357250;chr15:83355213-83355771 chr15:83350172-83350332 79;69 N alternative_acceptor CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 49;0 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 7;26 N jcn_only_AD CUFF.452 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 18;37 N alternative_acceptor CUFF.401 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 1;289 K cassette CUFF.446 chr15 - chr15:83358206-83378345 chr15:83358206-83358514;chr15:83358687-83378345 chr15:83358515-83358686 160;116 N jcn_only_AA CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 403;4 N jcn_only_AA CUFF.401 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 132;289 N cassette CUFF.399 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 134;91 K cassette CUFF.430 chr15 - chr15:75762341-75766029 chr15:75762341-75763020;chr15:75763172-75766029 chr15:75763021-75763171 22;8 N jcn_only_AD CUFF.428 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 12;18 N alternative_donor CUFF.428 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 111;10 K jcn_only_AD CUFF.453 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 2;13 N alternative_donor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 18;1 N jcn_only_AD CUFF.382 chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 26;9 N alternative_donor CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 106;15 K intron_retention CUFF.437 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 1013;8 K cassette CUFF.391 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 388;178 K jcn_only_AD CUFF.399 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 38;196 N cassette CUFF.421 chr15 - chr15:64669105-64673524 chr15:64669105-64673156;chr15:64673238-64673524 chr15:64673157-64673237 309;42 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 20;6 N alternative_acceptor CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 290;0 N alternative_first_exon CUFF.424 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789980-66790224 chr15:66789828-66789950 201;14 N jcn_only_AA CUFF.409 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 79;2 N alternative_donor CUFF.385 chr15 + chr15:29211691-29213842;chr15:29140756-29213842 chr15:29131425-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 1;3 N cassette CUFF.401 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 59;141 N cassette CUFF.421 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 24;278 N intron_retention chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 34;37 K intron_retention CUFF.419 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 12;15 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66678944;chr15:66645294-66648976 chr15:66645294-66678757 chr15:66678945-66679143;chr15:66648977-66649054 chr15:66678758-66678943 542;230 K alternative_acceptor CUFF.408 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 14;162 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 7;75 K cassette CUFF.396 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 100;141 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 31;374 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 88;20 K cassette CUFF.391 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 34;148 K alternative_first_exon CUFF.453 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91303824-91304485 chr15:91305527-91305652 24;38 N jcn_only_AD CUFF.402 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742489-45752767 chr15:45742488-45742489 22;11 N alternative_acceptor CUFF.452 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 57;183 K cassette CUFF.405 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 13;28 K cassette CUFF.391 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 12;61 N cassette CUFF.446 chr15 - chr15:83350333-83357909 chr15:83350333-83357487;chr15:83357584-83357909 chr15:83357488-83357583 7;76 N jcn_only_AD CUFF.408 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 387;9 K alternative_acceptor CUFF.392,CUFF.402 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 5;15 N jcn_only_AD chr15 + chr15:63047893-63053879 chr15:63050859-63053879 5;24 N alternative_donor CUFF.401 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 142;41 N jcn_only_AD CUFF.394 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 3;51 K alternative_first_exon CUFF.380 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115256 chr15:23114586-23114611 170;18 K cassette CUFF.408 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 61;169 N jcn_only_AD CUFF.385 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 347;49 N jcn_only_AD CUFF.406 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 114;26 N jcn_only_AD CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 69;7 N alternative_donor CUFF.382 chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 2;17 N alternative_donor CUFF.402 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742489-45752767 chr15:45742488-45742489 22;0 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66648976 chr15:66678945-66679143;chr15:66678758-66678943 chr15:66648977-66649054 640;132 N cassette CUFF.424 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 147;186 K cassette CUFF.409 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 373;582 K intron_retention CUFF.451 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 64;174 N jcn_only_AD CUFF.402 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 11;16 N alternative_donor CUFF.394 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 3;0 N jcn_only_AA CUFF.409 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 34;66 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 24;16 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 45;0 N alternative_acceptor CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45789310 chr15:45768751-45769966 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 30;0 N alternative_donor CUFF.460 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 39;1 N jcn_only_AD CUFF.452 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 426;65 N intron_retention chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 39;70 K intron_retention CUFF.397 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 29;33 K intron_retention CUFF.446 chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 38;23 K alternative_last_exon CUFF.405 chr15 - chr15:50793249-50821993;chr15:50805710-50821993 chr15:50793035-50821993 chr15:50793102-50793248;chr15:50805621-50805709 chr15:50792759-50793034 20;22 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 162;329 N alternative_donor CUFF.382 chr15 + chr15:24793618-24811235 chr15:24803469-24811235 chr15:24793618-24803468 chr15:24793617-24793618 12;2 K alternative_acceptor CUFF.446 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;21 K alternative_acceptor CUFF.428,CUFF.437 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 36;38 N jcn_only_AA CUFF.401 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 267;20 N alternative_acceptor chr15 + chr15:25207357-25222924 chr15:25207357-25213078 chr15:25213079-25222924 chr15:25222924-25222925 110;0 N alternative_donor CUFF.452 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 333;2 N jcn_only_AA CUFF.406 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 88;30 K alternative_last_exon CUFF.405 chr15 - chr15:50793035-50821993;chr15:50805710-50821993 chr15:50793249-50821993 chr15:50792759-50793034;chr15:50805621-50805709 chr15:50793102-50793248 30;12 N alternative_donor CUFF.452 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 18;12 K intron_retention CUFF.399 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 10;15 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45473384;chr15:45479652-45480154 chr15:45492925-45493460 323;369 N alternative_donor chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 11;0 N jcn_only_AD CUFF.431,CUFF.452 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 463;29 K cassette CUFF.440 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 51;48 N alternative_donor CUFF.437 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 66;9 K intron_retention CUFF.419 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 12;64 K cassette CUFF.446 chr15 - chr15:83333696-83334208 chr15:83333696-83333998;chr15:83334056-83334208 chr15:83333999-83334055 20;18 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 11;5 N jcn_only_AA CUFF.428 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 14;393 N jcn_only_AD CUFF.409 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 79;86 N alternative_acceptor CUFF.388,CUFF.428 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 12;11 K intron_retention CUFF.446 chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 21;16 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 115;145 N jcn_only_AA CUFF.450 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 2;24 N intron_retention chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 10;38 K alternative_last_exon CUFF.446 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83355213-83355771;chr15:83350172-83350332 chr15:83357210-83357250 131;17 N alternative_donor chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:61945388-62007313 chr15:62007313-62007314 24;0 N jcn_only_AD CUFF.401 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 142;213 K intron_retention CUFF.458 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 24;91 N alternative_donor CUFF.385 chr15 + chr15:29131425-29213842;chr15:29140756-29213842 chr15:29211691-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 4;0 N alternative_acceptor chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 9;17 N jcn_only_AA CUFF.457 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 61;2 K intron_retention CUFF.391 chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 12;9 N mutually_exclusive CUFF.421 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 18;328 K alternative_first_exon CUFF.460 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102197125-102197239 chr15:102196070-102196146 29;4 N jcn_only_AD CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 11;14 N jcn_only_AD CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 2;8 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45479652-45480154;chr15:45492925-45493460 chr15:45473305-45473384 663;29 K alternative_last_exon CUFF.430 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779625-75780118 1;135 N jcn_only_AA chr15 + chr15:29131425-29140665;chr15:29131425-29213842 chr15:29131425-29139019 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 9;25 K intron_retention CUFF.419 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 71;28 N cassette CUFF.382 chr15 + chr15:24803469-24811802 chr15:24803469-24811235;chr15:24811360-24811802 chr15:24811236-24811359 33;22 K cassette CUFF.409 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 48;23 N coord_cassette CUFF.399 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 6;104 K intron_retention CUFF.399 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 23;31 N jcn_only_AD CUFF.409 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 57;225 N cassette CUFF.422 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 196;404 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 6;329 N jcn_only_AD CUFF.409 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 152;13 K intron_retention CUFF.388 chr15 + chr15:30773111-30776704 chr15:30773110-30773111;chr15:30776704-30776705 16;32 K alternative_acceptor CUFF.392 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 11;23 N alternative_donor CUFF.409 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 86;0 N jcn_only_AA CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 2;10 N alternative_acceptor CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 2;4 K cassette CUFF.419 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 3;25 N cassette CUFF.399 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 94;45 K alternative_last_exon CUFF.431 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77450845-77451038 chr15:77470159-77470365 3;28 N jcn_only_AD CUFF.409 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 282;23 N jcn_only_AD CUFF.401 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 4;9 K alternative_donor CUFF.424,CUFF.460 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 71;241 N jcn_only_AA CUFF.452 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 57;336 N alternative_donor CUFF.452 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 336;11 K intron_retention CUFF.439 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 48;129 N alternative_donor CUFF.409 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 86;0 K intron_retention CUFF.391 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 10;90 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 25;1 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 61;9 N jcn_only_AA CUFF.430 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 2;10 K alternative_last_exon CUFF.402 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45752767 34;8 N alternative_donor CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 69;15 N jcn_only_AD chr15 - chr15:64658275-64665896 chr15:64658275-64665354 11;11 K cassette CUFF.409 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 122;61 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 48;61 N alternative_donor CUFF.409 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 86;0 K alternative_first_exon CUFF.391 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530862-40531336 24;113 N alternative_acceptor CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 45;4 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66648976;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66648977-66649054;chr15:66678758-66678943 chr15:66678945-66679143 584;188 N jcn_only_AD chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:61945388-62007313 chr15:62007313-62007314 24;139 K jcn_only_AD CUFF.458 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 50;52 N alternative_donor CUFF.385 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 1;265 N jcn_only_AD CUFF.385 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 32;8 N jcn_only_AA chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 11;480 N jcn_only_AD CUFF.385 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 407;141 N coord_cassette CUFF.449 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 11;16 N jcn_only_AD CUFF.385 chr15 + chr15:29131425-29213842;chr15:29211691-29213842 chr15:29140756-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 165;28 N alternative_last_exon CUFF.431 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544709-77544868 chr15:77576140-77576372 52;162 K jcn_only_AA CUFF.428,CUFF.437 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 36;70 N jcn_only_AD CUFF.452 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 423;68 N alternative_donor CUFF.440 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 84;2 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 83;34 N cassette CUFF.460 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 30;20 K alternative_acceptor CUFF.409 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 22;112 N jcn_only_AD CUFF.409 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 135;30 N cassette CUFF.382 chr15 + chr15:24820151-24832713 chr15:24820151-24825373;chr15:24825478-24832713 chr15:24825374-24825477 18;84 K cassette CUFF.406 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 149;86 K intron_retention CUFF.419 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 3;45 N cassette CUFF.452 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 232;227 N jcn_only_AD CUFF.444 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 137;69 N jcn_only_AD CUFF.437 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 66;15 K jcn_only_AA CUFF.409 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 22;225 N alternative_acceptor chr15 + chr15:29131425-29213842;chr15:29131425-29139019 chr15:29131425-29140665 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 3;0 N jcn_only_AD CUFF.382 chr15 + chr15:24793618-24811235 chr15:24803469-24811235 chr15:24793618-24803468 chr15:24793617-24793618 12;8 N jcn_only_AD CUFF.399 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 59;48 N jcn_only_AA chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 53;17 N alternative_donor CUFF.402 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 11;1 N jcn_only_AA CUFF.408 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 387;10 K coord_cassette CUFF.452 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 182;35 K intron_retention CUFF.428 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 164;27 K jcn_only_AA CUFF.392 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 11;34 K alternative_last_exon CUFF.457 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527110 chr15:94512823-94512924 18;9 N jcn_only_AD CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 39;96 N jcn_only_AD CUFF.382 chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 18;17 N jcn_only_AA CUFF.399 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 68;41 N jcn_only_AD CUFF.428 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 118;16 K jcn_only_AD CUFF.388 chr15 + chr15:30771397-30776704 chr15:30773111-30776704 36;16 K jcn_only_AA CUFF.409 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 16;125 N jcn_only_AA CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45789310 chr15:45768751-45769966 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 39;3 N jcn_only_AD CUFF.460 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 13;18 N jcn_only_AD CUFF.385 chr15 + chr15:29131425-29213842;chr15:29140756-29213842 chr15:29211691-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 30;163 N jcn_only_AA CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 402;20 K intron_retention CUFF.431 chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 16;22 K intron_retention CUFF.391 chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 97;84 N alternative_donor CUFF.385 chr15 + chr15:29131425-29213842;chr15:29211691-29213842 chr15:29140756-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 3;1 N alternative_donor CUFF.382 chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 18;1 K alternative_last_exon CUFF.452 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408836-90408925 230;57 N cassette CUFF.449 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 11;32 N jcn_only_AA CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 397;10 N jcn_only_AA chr15 + chr15:29131425-29140665;chr15:29131425-29139019 chr15:29131425-29213842 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 31;3 K intron_retention CUFF.428 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 70;98 N jcn_only_AD CUFF.409 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 130;35 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 11;9 K cassette CUFF.453 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 34;5 K cassette CUFF.409 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 232;62 K cassette CUFF.454 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 43;8 N jcn_only_AA chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 222;36 K alternative_last_exon CUFF.388 chr15 + chr15:30771397-30776704 chr15:30771397-30772944 chr15:30776705-30776892 chr15:30772945-30773274 32;50 N alternative_donor CUFF.401,CUFF.406 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 130;33 N jcn_only_AD chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 11;6 N alternative_donor CUFF.444 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 137;9 N coord_cassette CUFF.399 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 134;43 N mutually_exclusive CUFF.382 chr15 + chr15:24820151-24832713,chr15:24832883-24869114 chr15:24820151-24825373,chr15:24825478-24869114 chr15:24832714-24832882 chr15:24825374-24825477 13;107 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 18;27 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 33;37 N alternative_acceptor CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45769966 chr15:45768751-45789310 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 30;0 N alternative_donor CUFF.383 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 chr15:25223466-25224789 chr15:25223465-25223466 114;2 K intron_retention CUFF.419 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 73;22 N intron_retention chr15 - chr15:84869629-84871621 chr15:84869628-84869629;chr15:84871621-84871622 2;3 K cassette CUFF.382 chr15 + chr15:24825478-24869114 chr15:24825478-24832713;chr15:24832883-24869114 chr15:24832714-24832882 95;17 N alternative_donor CUFF.385 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 265;1 K alternative_donor CUFF.458 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 110;24 K intron_retention CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819891-24819892;chr15:24820053-24820054 11;14 K alternative_first_exon CUFF.381 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758770-24758884 chr15:24766832-24766977 39;13 K cassette CUFF.459 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 21;24 N jcn_only_AD CUFF.385 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 314;82 N jcn_only_AA CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 309;113 K alternative_last_exon CUFF.446 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83357210-83357250;chr15:83350172-83350332 chr15:83355213-83355771 86;62 N intron_retention chr15 - chr15:63134568-63136578 chr15:63134567-63134568;chr15:63136578-63136579 4;114 K alternative_donor CUFF.453 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 2;9 K jcn_only_AA CUFF.392,CUFF.402 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 5;31 N alternative_donor CUFF.407 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 20;4 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 24;34 N alternative_acceptor CUFF.399 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 68;2 K jcn_only_AD CUFF.424,CUFF.460 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 71;132 N alternative_acceptor CUFF.401 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 267;32 N jcn_only_AD chr15 + chr15:29131425-29140665 chr15:29139191-29140665 6;29 K alternative_donor CUFF.399 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 38;148 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 92;16 N alternative_donor CUFF.406 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 114;11 K jcn_only_AA CUFF.408 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 14;230 N alternative_acceptor CUFF.452 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 9;203 N coord_cassette CUFF.440 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 13;86 N alternative_last_exon CUFF.408 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722517-55722977 45;29 N alternative_donor CUFF.431,CUFF.452 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 334;1 N jcn_only_AD CUFF.382 chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 26;9 K alternative_donor CUFF.458 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 69;65 K cassette CUFF.405 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 46;13 K jcn_only_AA CUFF.446 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;21 N alternative_donor CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 2;3 K intron_retention CUFF.399 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 136;23 N jcn_only_AD CUFF.407 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 20;39 N jcn_only_AA CUFF.388,CUFF.428 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 12;14 N alternative_donor CUFF.385 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 266;0 N alternative_donor CUFF.399,CUFF.422 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 68;4 N alternative_acceptor CUFF.457 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 61;0 N jcn_only_AD CUFF.440 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 84;36 N jcn_only_AD CUFF.452 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 336;23 K coord_cassette CUFF.405 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 17;13 N jcn_only_AA CUFF.460 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 39;5 K intron_retention CUFF.458 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 52;82 K intron_retention CUFF.390 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 chr15:33022891-33022995;chr15:33023117-33026870 23;7 N alternative_acceptor chr15 + chr15:29131425-29140665;chr15:29131425-29213842 chr15:29131425-29139019 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 3;0 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 11;2 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 62;7 K alternative_first_exon CUFF.389 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294216-31294233 chr15:31327773-31327859 18;43 N alternative_donor CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 11;10 N jcn_only_AD CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 112;22 N alternative_donor CUFF.460 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 13;2 N alternative_donor CUFF.409 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 282;1 N alternative_acceptor CUFF.409 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 79;0 N cassette CUFF.385 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 37;16 K cassette CUFF.441 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 84;18 N mutually_exclusive CUFF.399 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 11;13 K cassette CUFF.399 chr15 - chr15:44892831-44898222 chr15:44892831-44896302;chr15:44896396-44898222 chr15:44896303-44896395 48;74 N jcn_only_AD CUFF.385 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 131;265 K alternative_last_exon CUFF.460 chr15 - chr15:102239639-102241288;chr15:102226266-102241288 chr15:102236243-102241288 chr15:102226099-102226265 chr15:102235957-102236242 28;53 N jcn_only_AD chr15 + chr15:63128273-63131054 chr15:63128318-63131054 89;3 K intron_retention CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 69;27 N alternative_acceptor CUFF.428 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 4;45 K alternative_first_exon CUFF.399,CUFF.404 chr15 - chr15:47672793-47687757 chr15:47672793-47685518 chr15:47687758-47687885 chr15:47685519-47685596 9;5 N jcn_only_AD CUFF.460 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 39;11 K cassette CUFF.391 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 16;208 N alternative_donor CUFF.408 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 387;1 N jcn_only_AD CUFF.409 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 319;158 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 7;48 N jcn_only_AA chr15 + chr15:45768751-45789310;chr15:45768751-45769966 chr15:45768751-45804570 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 12;30 K intron_retention CUFF.419 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 49;23 K alternative_last_exon CUFF.383,CUFF.441 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826007 24;63 N jcn_only_AD CUFF.399,CUFF.422 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 68;21 N intron_retention chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 6;13 N cassette CUFF.452 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 441;91 K cassette CUFF.453 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 5;52 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 38;7 N alternative_donor CUFF.452 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 332;3 N alternative_acceptor CUFF.430 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 2;1 N cassette CUFF.408 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 20;41 K intron_retention CUFF.446 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 49;32 N alternative_donor CUFF.385 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 407;1 K coord_cassette CUFF.409 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 122;23 K coord_cassette CUFF.453 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 10;35 N jcn_only_AA chr15 + chr15:25207357-25222924 chr15:25207357-25213078 chr15:25213079-25222924 chr15:25222924-25222925 110;18 K intron_retention CUFF.458 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 26;67 N alternative_acceptor CUFF.450 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 2;7 K cassette CUFF.449 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 28;16 N cassette CUFF.431 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577398-77578764 chr15:77577300-77577397 7;57 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 20;42 K alternative_last_exon CUFF.440 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471296-78471322 43;12 K alternative_last_exon CUFF.405 chr15 - chr15:50793249-50821993;chr15:50793035-50821993 chr15:50805710-50821993 chr15:50793102-50793248;chr15:50792759-50793034 chr15:50805621-50805709 34;8 N alternative_acceptor CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 289;1 N alternative_donor CUFF.409 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 125;12 N alternative_acceptor chr15 + chr15:29131425-29140665;chr15:29131425-29139019 chr15:29131425-29213842 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 0;3 K cassette CUFF.449 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 21;26 N alternative_acceptor chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 11;21 N alternative_acceptor CUFF.409 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 34;46 N alternative_acceptor chr15 + chr15:45768751-45789310;chr15:45768751-45769966 chr15:45768751-45804570 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 0;30 N alternative_acceptor CUFF.406 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 88;3 N jcn_only_AA chr15 + chr15:29131425-29213842;chr15:29131425-29139019 chr15:29131425-29140665 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 28;6 N alternative_acceptor CUFF.408 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 387;0 N alternative_acceptor CUFF.460 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 39;1 K coord_cassette CUFF.391 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 388;171 N alternative_donor CUFF.399 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 59;18 K intron_retention CUFF.390 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 chr15:33022891-33023005;chr15:33023129-33026870 12;7 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45473384;chr15:45492925-45493460 chr15:45479652-45480154 543;149 K jcn_only_AD CUFF.458 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 78;24 N jcn_only_AA CUFF.452 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 9;338 N alternative_donor CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 25;96 K intron_retention CUFF.446 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 109;58 N cassette CUFF.440 chr15 - chr15:78500445-78537610 chr15:78500445-78501486;chr15:78501592-78537610 chr15:78501487-78501591 19;63 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 24;2 K alternative_donor CUFF.458 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 89;45 N jcn_only_AD CUFF.383 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 chr15:25223466-25224789 chr15:25223465-25223466 114;16 N mutually_exclusive CUFF.452 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 49;194 N alternative_donor CUFF.385 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 32;1 N alternative_donor CUFF.437 chr15 + chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 34;11 N alternative_donor CUFF.341 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 17;30 K intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 36;8 K alternative_first_exon CUFF.363 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81893446-81893556 chr14:81884507-81884595 chr14:81864639-81864924 42;4 K alternative_acceptor CUFF.337 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 14;123 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 0;7 N mutually_exclusive CUFF.355 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 55;11 N alternative_donor CUFF.349,CUFF.355 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 39;45 N intron_retention chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 12;20 N alternative_acceptor CUFF.357 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76353043-76368484 chr14:76368484-76368485 171;3 N cassette CUFF.352 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 53;74 K cassette CUFF.336 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 230;207 N jcn_only_AD CUFF.350 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 342;32 K cassette CUFF.360 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 5;56 N alternative_donor CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 81;1 N cassette CUFF.355 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 13;75 K cassette CUFF.341 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 54;279 N jcn_only_AD CUFF.341 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 318;17 K alternative_first_exon CUFF.349 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60018073-60018154 chr14:60011881-60011909 43;6 K intron_retention CUFF.360 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 52;144 K cassette CUFF.357 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 39;12 K alternative_first_exon CUFF.345 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894408-58894531 chr14:58894956-58895181 48;6 N jcn_only_AD chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 9;61 N jcn_only_AD CUFF.350 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 349;25 N alternative_donor CUFF.336 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 267;5 N coord_cassette CUFF.355 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 19;24 N cassette CUFF.337 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 10;89 N jcn_only_AD CUFF.367 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 16;20 K jcn_only_AA CUFF.357 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 42;40 N alternative_donor CUFF.350 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 47;274 N jcn_only_AA CUFF.339 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 43;40 N jcn_only_AD CUFF.339 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 38;34 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69616147 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 63;491 N cassette CUFF.336 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 22;170 K alternative_first_exon CUFF.339 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354619-31355532 chr14:31354174-31354481 17;170 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619205 chr14:69589078-69619660 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 546;8 N jcn_only_AA CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 81;11 N jcn_only_AA CUFF.341 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 419;10 N jcn_only_AA CUFF.357 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76353043-76368484 chr14:76368484-76368485 171;93 N alternative_acceptor chr14 + chr14:23390330-23392180;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392177 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 64;34 K intron_retention ENSG00000260669.2 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 15;3 N jcn_only_AA CUFF.375 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 6;5 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 162;24 K alternative_first_exon CUFF.375 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046021-105046340 chr14:105047959-105047962 39;13 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 15;11 K alternative_first_exon CUFF.369 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958519-92958584 chr14:92959259-92959268 83;4 K alternative_last_exon CUFF.363 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81727000-81728275 chr14:81734393-81734841 chr14:81737014-81737216 7;59 N alternative_acceptor CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 5;7 K intron_retention CUFF.342 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 81;82 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 9;24 N alternative_last_exon chr14 + chr14:77928586-77934425 chr14:77928586-77928984 chr14:77934426-77934661 chr14:77928985-77929102 37;526 N coord_cassette CUFF.336 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 31;195 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 71;274 N jcn_only_AA CUFF.361 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 18;78 N cassette CUFF.337 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 116;68 N alternative_acceptor CUFF.355 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 36;0 K jcn_only_AA CUFF.357 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 54;54 N intron_retention chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 6;17 N jcn_only_AD chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 6;34 N alternative_donor CUFF.352 chr14 - chr14:69589078-69616147;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69619481 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 96;18 N alternative_donor CUFF.355,CUFF.367 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 3;0 N alternative_donor CUFF.339 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 38;19 K intron_retention CUFF.337 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 132;16 K alternative_last_exon CUFF.350 chr14 + chr14:61518854-61545547;chr14:61518854-61545527 chr14:61518854-61519066 chr14:61545528-61545645 chr14:61519067-61519390 133;109 N alternative_donor CUFF.354 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 7;0 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 21;6 N alternative_first_exon CUFF.360 chr14 - chr14:75127644-75130601 chr14:75127644-75130214 chr14:75130602-75130777 chr14:75130215-75130581 30;335 N jcn_only_AD chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 40;10 N alternative_donor chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 9;3 N alternative_first_exon chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942616 chr14:59941446-59941700 177;75 N alternative_donor CUFF.350 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 312;9 N alternative_acceptor CUFF.352 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 144;3 K intron_retention CUFF.373 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 12;144 N alternative_last_exon CUFF.345 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-58987639 chr14:58979346-59006788 chr14:59014499-59015215;chr14:58987640-58987922 chr14:59006789-59006854 100;76 N cassette CUFF.342 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 20;90 N jcn_only_AA CUFF.357,CUFF.369 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 92;5 N jcn_only_AD chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81893446-81893556 20;20 N alternative_donor CUFF.350 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 168;73 N cassette CUFF.345 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 16;77 K intron_retention CUFF.342 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 36;166 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104251252-104263707 chr14:104245159-104263707 88;10 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77276431;chr14:77275987-77278647 chr14:77275987-77280649 chr14:77276432-77276494;chr14:77278648-77278992 chr14:77280650-77280764 69;12 N jcn_only_AD CUFF.336 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 267;13 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 89;98 K cassette CUFF.357 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 43;107 K alternative_acceptor CUFF.349 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 87;15 N jcn_only_AD CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 93;15 N jcn_only_AD CUFF.350 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 331;43 N jcn_only_AD CUFF.341 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 329;6 N jcn_only_AA CUFF.352 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 23;114 K jcn_only_AD CUFF.357 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 115;35 N intron_retention chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 3;7 N jcn_only_AD CUFF.334 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 163;24 N alternative_donor CUFF.354 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 7;0 N jcn_only_AD CUFF.373 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 40;5 N mutually_exclusive CUFF.342 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 15;7 N alternative_acceptor CUFF.369 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 112;1 N jcn_only_AA CUFF.355 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 59;9 K coord_cassette CUFF.361 chr14 + chr14:77934852-77935419 chr14:77934852-77934932;chr14:77935033-77935314;chr14:77935329-77935419 chr14:77934933-77935032;chr14:77935315-77935328 109;69 N jcn_only_AD CUFF.349,CUFF.355 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 39;75 K intron_retention CUFF.337 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 213;11 N intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 86;44 N jcn_only_AA CUFF.350 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 134;133 K intron_retention CUFF.361 chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 877;24 N jcn_only_AA CUFF.357 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 49;48 N alternative_acceptor CUFF.375 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 6;0 K alternative_last_exon CUFF.372 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237470-103237910 36;61 N jcn_only_AA CUFF.355 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 36;8 K alternative_last_exon CUFF.361 chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935817 chr14:77930941-77931029 12;595 N cassette CUFF.355 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 68;48 N jcn_only_AD CUFF.350 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 99;274 N jcn_only_AA chr14 - chr14:104225643-104245081;chr14:104230817-104245081 chr14:104224089-104245081 21;11 K jcn_only_AA CUFF.337 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 14;98 N jcn_only_AD CUFF.354 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 10;16 N cassette CUFF.343 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 12;2 K intron_retention CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 53;20 K cassette CUFF.367 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 22;80 N jcn_only_AD CUFF.369 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 16;73 N alternative_acceptor CUFF.355 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 59;4 K intron_retention CUFF.355 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 209;10 N alternative_acceptor chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 4;1 K intron_retention CUFF.350 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 274;27 N alternative_donor CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 5;5 N alternative_donor CUFF.342 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 57;12 K mutually_exclusive CUFF.367 chr14 - chr14:92195824-92245318,chr14:92245415-92246919 chr14:92195824-92203037,chr14:92203194-92246919 chr14:92245319-92245414 chr14:92203038-92203193 13;35 K intron_retention CUFF.336 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 37;120 N cassette CUFF.337 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 31;195 N alternative_donor CUFF.369 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 50;8 K jcn_only_AA CUFF.346 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 109;206 N jcn_only_AA CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 5;31 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 19;7 N jcn_only_AD chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 42;8 K intron_retention CUFF.343 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 192;8 N alternative_donor CUFF.369 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 52;6 N alternative_donor chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 0;3 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 131;9 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69616147 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 47;67 N alternative_acceptor CUFF.339 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 43;24 N cassette CUFF.336 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 9;166 N alternative_donor CUFF.357 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 104;21 N alternative_donor CUFF.367 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 3;0 N alternative_donor CUFF.350 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 304;17 N cassette CUFF.355 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 7;21 N cassette CUFF.347 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 21;292 K intron_retention CUFF.373 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 16;184 N alternative_acceptor CUFF.349 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 62;0 N alternative_first_exon CUFF.373 chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204153 82;36 N coord_cassette CUFF.350 chr14 + chr14:61497242-61504342 chr14:61497242-61500736;chr14:61500832-61503776;chr14:61503860-61504342 chr14:61500737-61500831;chr14:61503777-61503859 16;64 N jcn_only_AD CUFF.354 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 10;94 N cassette CUFF.345 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 3;31 K cassette CUFF.371 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 255;17 N coord_cassette CUFF.355 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635 chr14:75158744-75159031;chr14:75165467-75165559 18;27 K alternative_first_exon CUFF.336 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457976-24458284 95;212 N coord_cassette CUFF.350 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 35;263 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 126;20 K intron_retention CUFF.342 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 102;74 N alternative_donor CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 93;0 N alternative_acceptor chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 21;2 K cassette CUFF.350 chr14 + chr14:61497242-61503776 chr14:61497242-61500736;chr14:61500832-61503776 chr14:61500737-61500831 256;73 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 135;5 N coord_cassette CUFF.345 chr14 + chr14:58899176-58909423 chr14:58899176-58899829;chr14:58900063-58907938;chr14:58908062-58909423 chr14:58899830-58900062;chr14:58907939-58908061 55;15 K cassette CUFF.350 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 252;96 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 18;8 N cassette CUFF.345 chr14 + chr14:58899176-58909423 chr14:58899176-58907938;chr14:58908062-58909423 chr14:58907939-58908061 55;29 N alternative_acceptor CUFF.373 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 53;75 N jcn_only_AD CUFF.354 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 23;3 K intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 11;33 N alternative_donor chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 6;31 N alternative_last_exon CUFF.345 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-59006788 chr14:58979346-58987639 chr14:59014499-59015215;chr14:59006789-59006854 chr14:58987640-58987922 100;76 N intron_retention chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 346;8 N mutually_exclusive CUFF.337 chr14 + chr14:24563464-24566100,chr14:24566347-24567411 chr14:24563464-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 36;23 N jcn_only_AA CUFF.367 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 3;19 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619205 chr14:69589078-69619660 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 106;8 N alternative_acceptor CUFF.350,CUFF.357 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 280;6 N intron_retention CUFF.373 chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 48;38 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104230817-104245081 chr14:104225643-104245081 17;15 N coord_cassette CUFF.350 chr14 + chr14:61451522-61497162 chr14:61451522-61453769;chr14:61453876-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61453770-61453875;chr14:61482622-61482674;chr14:61486259-61486298 35;180 N cassette CUFF.340 chr14 + chr14:39954462-39982820 chr14:39954462-39961458;chr14:39961761-39982820 chr14:39961459-39961760 235;75 N jcn_only_AD chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 126;14 N jcn_only_AA CUFF.350,CUFF.357 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 280;9 N jcn_only_AD chr14 - chr14:104251252-104263707 chr14:104251252-104260913 69;19 N jcn_only_AD chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 34;3 N alternative_donor CUFF.357 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 49;2 N jcn_only_AD CUFF.357 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 104;37 K cassette CUFF.365 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 24;106 N jcn_only_AA CUFF.369 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 112;3 N alternative_donor CUFF.354 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 10;28 K alternative_first_exon CUFF.369 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789961-92790304 2;38 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619660 chr14:69589078-69619205 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 517;37 N cassette CUFF.355 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 19;23 K intron_retention CUFF.373 chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 13;56 K intron_retention CUFF.361 chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 9;41 K jcn_only_AD CUFF.363 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81743245-81745083 6;72 K intron_retention CUFF.373 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 10;91 K alternative_first_exon CUFF.354 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71227719-71227899 chr14:71219655-71219716 20;19 N alternative_acceptor CUFF.357 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 90;0 N mutually_exclusive CUFF.342 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 7;28 N alternative_acceptor ENSG00000187156.4 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 100;2 N jcn_only_AD chr14 - chr14:104245159-104263707 chr14:104245159-104251131 10;93 N jcn_only_AD CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 5;27 N alternative_donor CUFF.354 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 28;3 N cassette CUFF.342 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 9;75 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 180;6 K alternative_first_exon CUFF.369 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874693-92874778 27;20 N alternative_donor CUFF.334 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 163;110 N jcn_only_AD CUFF.354 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 28;3 N jcn_only_AA chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 21;52 N jcn_only_AD CUFF.369 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 80;10 N jcn_only_AD CUFF.341 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 23;312 K intron_retention ENSG00000260669.2 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 14;3 N jcn_only_AA ENSG00000187156.4 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 100;11 N alternative_acceptor CUFF.350 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 134;66 N jcn_only_AA CUFF.373 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 53;44 K coord_cassette CUFF.346 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 281;168 N jcn_only_AA chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 3;11 N jcn_only_AA CUFF.355 chr14 - chr14:75127644-75130601 chr14:75130526-75130601 25;209 N jcn_only_AD chr14 + chr14:23392414-23395669 chr14:23393651-23395669 35;36 N jcn_only_AA chr14 - chr14:104251252-104263707;chr14:104245159-104263707 chr14:104261001-104263707 79;19 N cassette CUFF.337 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 10;136 N alternative_donor CUFF.341 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 30;17 N jcn_only_AD CUFF.342 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 57;22 N alternative_acceptor CUFF.357,CUFF.369 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 92;0 K jcn_only_AA CUFF.357 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 45;61 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 82;16 K intron_retention CUFF.373 chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 53;186 N cassette CUFF.355 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75179635 chr14:75158744-75159031 18;75 K cassette CUFF.345 chr14 + chr14:58899176-58907938 chr14:58899176-58899829;chr14:58900063-58907938 chr14:58899830-58900062 5;10 K alternative_first_exon CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924209-77924325 chr14:77924334-77924612 42;292 K intron_retention chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 48;15 K cassette CUFF.367 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 68;14 K jcn_only_AA CUFF.349 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 87;29 N jcn_only_AD CUFF.350 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 168;21 N alternative_donor CUFF.341 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 47;0 K cassette CUFF.341 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 14;534 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 18;10 N cassette CUFF.361 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 71;155 N alternative_acceptor CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 81;2 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77280650-77280764;chr14:77278648-77278992 chr14:77276432-77276494 69;12 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69616147;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69619481 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 537;18 N cassette CUFF.373 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 6;62 N jcn_only_AA CUFF.352 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 144;7 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 28;112 K alternative_acceptor CUFF.357 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 42;20 N alternative_acceptor CUFF.367 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 3;0 N alternative_acceptor CUFF.341 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 419;1 N cassette CUFF.355 chr14 - chr14:75136830-75138110 chr14:75136830-75137464;chr14:75137575-75138110 chr14:75137465-75137574 2;62 N cassette CUFF.350 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 36;241 N intron_retention chr14 + chr14:69520532-69521913 chr14:69520531-69520532;chr14:69521913-69521914 3;51 K alternative_acceptor CUFF.357 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 45;30 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619660 chr14:69589078-69619205 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 93;21 N alternative_last_exon CUFF.345,CUFF.350 chr14 + chr14:58979346-59003724;chr14:58979346-59006788;chr14:58979346-58987639 chr14:58979346-59014498 chr14:59006789-59006854;chr14:58987640-58987922 chr14:59014499-59015215 163;13 N jcn_only_AA chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 4;2 K alternative_acceptor CUFF.357 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 54;30 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 92;6 N jcn_only_AD CUFF.369 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 83;6 K cassette CUFF.350 chr14 + chr14:61512886-61517229 chr14:61512886-61514965;chr14:61515016-61517229 chr14:61514966-61515015 223;18 N jcn_only_AA CUFF.346 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 14;3 K jcn_only_AA CUFF.375 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 15;33 N cassette CUFF.373 chr14 - chr14:104212891-104213269 chr14:104212891-104212988;chr14:104213110-104213269 chr14:104212989-104213109 13;55 K mutually_exclusive CUFF.340 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 28;157 K cassette CUFF.345 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 341;19 N jcn_only_AA CUFF.373 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 10;48 N alternative_donor CUFF.369 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 14;44 N alternative_donor CUFF.350 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 300;21 N jcn_only_AA chr14 + chr14:23390330-23392180;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392177 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 129;58 N jcn_only_AD CUFF.361 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 43;796 N mutually_exclusive CUFF.337 chr14 + chr14:24563644-24566100,chr14:24566347-24567411 chr14:24563644-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 36;23 N cassette CUFF.350 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 16;220 K alternative_acceptor CUFF.375 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 15;24 N alternative_acceptor chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 3;0 N cassette CUFF.354 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 19;11 K cassette CUFF.367 chr14 - chr14:92195824-92246919 chr14:92195824-92203037;chr14:92203194-92246919 chr14:92203038-92203193 68;35 N jcn_only_AA CUFF.349 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 62;6 N alternative_acceptor CUFF.361 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 18;77 N alternative_acceptor CUFF.352 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 23;57 N mutually_exclusive CUFF.336 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 5;23 N jcn_only_AA CUFF.361 chr14 + chr14:23392414-23395669 chr14:23392414-23393509 35;34 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104225643-104245081 chr14:104230817-104245081 26;6 N jcn_only_AD chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 18;32 N alternative_donor CUFF.373 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 40;0 N jcn_only_AA CUFF.357 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 90;28 K intron_retention CUFF.337 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 143;25 N jcn_only_AD CUFF.357 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 49;65 N cassette CUFF.352 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 41;367 N cassette CUFF.357 chr14 + chr14:76368568-76420766 chr14:76368568-76407766;chr14:76407838-76420766 chr14:76407767-76407837 18;50 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77280650-77280764;chr14:77276432-77276494 chr14:77278648-77278992 24;57 N jcn_only_AD CUFF.355,CUFF.367 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 23;14 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 19;7 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 56;42 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104245159-104263707 chr14:104251252-104263707 29;69 N cassette CUFF.342 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 32;62 N cassette CUFF.340 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 73;107 N jcn_only_AD CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 81;9 K intron_retention CUFF.361 chr14 + chr14:77935329-77935419 chr14:77935328-77935329;chr14:77935419-77935420 16;26 N alternative_acceptor CUFF.357 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 49;1 K intron_retention CUFF.723 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 436;23 K alternative_last_exon CUFF.652 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894682-5894865 13;72 K cassette CUFF.727 chr19 + chr19:52264484-52271897 chr19:52264484-52266614;chr19:52266771-52271897 chr19:52266615-52266770 278;30 N cassette CUFF.674 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 12;128 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 102;3 K cassette CUFF.690 chr19 - chr19:33954969-33968951 chr19:33954969-33967985;chr19:33968206-33968951 chr19:33967986-33968205 244;53 N alternative_acceptor CUFF.650 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 90;6 K intron_retention CUFF.705 chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 17;22 N alternative_donor CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 19;94 K intron_retention CUFF.666 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 66;52 K jcn_only_AA CUFF.668 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 64;150 N alternative_acceptor chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 11;45 K cassette CUFF.669 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 14;75 K intron_retention CUFF.676 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 50;16 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 94;8 K cassette CUFF.678 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 chr19:16595974-16596068;chr19:16606562-16606562 20;23 N coord_cassette CUFF.674 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 12;41 N jcn_only_AD CUFF.690,CUFF.695 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 86;22 N coord_cassette CUFF.690 chr19 - chr19:33984244-34003498 chr19:33984244-33991843;chr19:33991908-34001933;chr19:34002062-34003498 chr19:33991844-33991907;chr19:34001934-34002061 25;31 N cassette CUFF.653 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 35;99 N alternative_acceptor CUFF.650,CUFF.705 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 30;66 N jcn_only_AD CUFF.676 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 203;15 K alternative_acceptor CUFF.699 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 22;9 K cassette CUFF.662 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 97;11 N alternative_acceptor CUFF.649 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 290;12 K cassette CUFF.731 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 80;25 K cassette CUFF.662 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 9;25 K intron_retention CUFF.668 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 22;50 K intron_retention CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 175;118 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33977904;chr19:33980902-33980963 chr19:33978156-33978244 190;4 K cassette CUFF.690 chr19 - chr19:33984244-34001933 chr19:33984244-33991843;chr19:33991908-34001933 chr19:33991844-33991907 79;41 K intron_retention CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 9;27 K alternative_last_exon CUFF.700 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41937223-41938313 chr19:41938751-41939339 139;186 K intron_retention CUFF.700 chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 12;157 N jcn_only_AA chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 79;154 N alternative_acceptor CUFF.681 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 141;26 K alternative_first_exon CUFF.667 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11039690-11041000 chr19:11042709-11042936 192;68 K coord_cassette CUFF.723 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 23;275 K alternative_donor CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 127;55 K intron_retention CUFF.657 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 16;4 K intron_retention CUFF.705 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 11;20 N alternative_acceptor CUFF.668 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 130;13 N alternative_acceptor CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888553-11888930 chr19:11888931-11889144 chr19:11889144-11889145 2;7 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 43;35 K intron_retention CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 12;4 K cassette CUFF.731 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 80;81 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 119;72 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 161;72 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 17;57 K intron_retention CUFF.695 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 345;51 K alternative_first_exon CUFF.693 chr19 + chr19:36139811-36142134;chr19:36139306-36142134 chr19:36139796-36142134 chr19:36139125-36139305 chr19:36139674-36139795 69;10 N alternative_donor CUFF.674 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 254;8 K intron_retention CUFF.715 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 52;15 N alternative_acceptor CUFF.729 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 22;10 K intron_retention CUFF.679 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 8;27 K intron_retention CUFF.695 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 20;63 K alternative_acceptor CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 21;115 K intron_retention CUFF.680 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 781;141 K intron_retention CUFF.683 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 189;4 K jcn_only_AD CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 110;482 N jcn_only_AD chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 12;61 N cassette CUFF.662 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 19;41 N intron_retention chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 21;39 K intron_retention CUFF.680 chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 227;82 K alternative_donor CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 56;17 N alternative_donor CUFF.698 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 2;12 K intron_retention CUFF.715 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 23;7 K cassette CUFF.653 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 29;25 K intron_retention CUFF.715 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 55;5 N jcn_only_AA CUFF.650 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 233;24 K intron_retention CUFF.672 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 94;59 K alternative_first_exon CUFF.704 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725116 5;1270 K intron_retention CUFF.676 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 329;13 N alternative_donor CUFF.681 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 126;141 K coord_cassette CUFF.674 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 113;45 N jcn_only_AD CUFF.676 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 126;9 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 373;15 K jcn_only_AA CUFF.705,CUFF.729 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 96;17 K intron_retention CUFF.652 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 74;12 N alternative_donor CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 9;51 K alternative_last_exon CUFF.709 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116165-49116564 chr19:49117433-49117884 96;66 N jcn_only_AA chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 11;47 N alternative_donor CUFF.681 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 210;57 N jcn_only_AA chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 226;7 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 9;31 K intron_retention CUFF.715 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 39;26 K alternative_first_exon CUFF.684,CUFF.733 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 24;21 N alternative_acceptor CUFF.649 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 280;22 N jcn_only_AD CUFF.681 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 326;130 N cassette CUFF.698 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 407;22 K intron_retention CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 3;3 K jcn_only_AD CUFF.691 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 13;159 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 36;8 N alternative_donor chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 12;37 K alternative_donor CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 98;279 N cassette CUFF.674 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 14;42 K alternative_first_exon CUFF.729 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656604-54656736 chr19:54656764-54656819 45;6 N jcn_only_AA CUFF.676 chr19 + chr19:16186983-16197232 chr19:16186983-16192722 87;120 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 18;32 K intron_retention CUFF.700 chr19 - chr19:41938314-41939176 chr19:41938313-41938314;chr19:41939176-41939177 107;54 N jcn_only_AA CUFF.649 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 523;18 N jcn_only_AD CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 5;4 N jcn_only_AA CUFF.686 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 23;19 N mutually_exclusive CUFF.653 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 33;20 K alternative_last_exon CUFF.697 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909613-40909769 chr19:40913362-40913626 2;30 K intron_retention CUFF.683 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 177;6 N jcn_only_AA CUFF.649 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 533;9 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 103;33 K intron_retention CUFF.698 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 16;256 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 85;29 N jcn_only_AD CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 40;94 K intron_retention CUFF.696 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 132;77 K alternative_first_exon CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305857-50306205 chr19:50305238-50305398 chr19:50305682-50305856 10;27 K alternative_donor CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 28;27 N cassette CUFF.674 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 152;107 K intron_retention CUFF.709 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 54;26 N alternative_acceptor CUFF.681 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 19;53 K jcn_only_AD CUFF.724 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 93;382 N alternative_last_exon CUFF.684 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243270-20243396 chr19:20338806-20339292 21;1003 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58963072-58965062;chr19:58963111-58965062 chr19:58964150-58965062 chr19:58962971-58963071;chr19:58963101-58963110 chr19:58964020-58964149 68;16 N jcn_only_AA CUFF.674 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 123;5 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33977904;chr19:33978156-33978244 chr19:33980902-33980963 12;182 K jcn_only_AD CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 86;17 K alternative_first_exon CUFF.721 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551306 71;8 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 41;36 N alternative_first_exon CUFF.676 chr19 + chr19:16191886-16192722,chr19:16187508-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16186857-16186982 chr19:16191112-16191252 163;21 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 19;41 K intron_retention CUFF.725 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 105;44 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 29;57 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 33;11 K alternative_first_exon CUFF.702,ENSG00000099800.3 chr19 - chr19:42744295-42759129 chr19:42744295-42746334 chr19:42759130-42759131 chr19:42746335-42746745 13;59 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 65;237 N jcn_only_AD CUFF.652 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 41;15 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 24;3 N alternative_donor CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 94;19 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 3;8 N cassette CUFF.680 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 11;154 K alternative_last_exon CUFF.676 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206221 219;31 K intron_retention CUFF.680 chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 176;67 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658984;chr19:54659047-54659419 chr19:54658996-54658999 227;24 N jcn_only_AD CUFF.705 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 30;11 N alternative_first_exon chr19 - chr19:20243397-20351308;chr19:20243397-20349096 chr19:20243397-20261169 chr19:20349097-20349332 chr19:20261170-20261357 43;11 K intron_retention CUFF.702 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 68;731 K intron_retention CUFF.729 chr19 + chr19:54657578-54658995 chr19:54657577-54657578;chr19:54658995-54658996 25;27 N jcn_only_AD CUFF.698 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 2;26 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33978156-33978244;chr19:33980902-33980963 chr19:33977809-33977904 186;8 N jcn_only_AA chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 21;122 N jcn_only_AA CUFF.681 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 111;9 K intron_retention CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 28;42 K intron_retention CUFF.729 chr19 + chr19:54647486-54647741 chr19:54647485-54647486;chr19:54647741-54647742 84;6 N alternative_donor CUFF.676 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 203;1 K jcn_only_AA CUFF.650 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 332;457 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 360;28 K alternative_last_exon CUFF.686 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637185-21637274 chr19:21638133-21638406 69;141 K intron_retention CUFF.715 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 31;5 N cassette CUFF.653 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 9;122 K intron_retention CUFF.680 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 41;151 K cassette CUFF.722 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 65;64 N intron_retention CUFF.728 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 9;3 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 17;78 N alternative_donor CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 5;3 N jcn_only_AA CUFF.723 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 33;498 K alternative_donor CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 98;234 K intron_retention CUFF.676 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 94;13 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 87;27 N alternative_acceptor CUFF.735 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 71;3 K intron_retention CUFF.680 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 26;54 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 40;8 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 63;345 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 5;65 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 10;13 N intron_retention chr19 + chr19:52918293-52918376 chr19:52918292-52918293;chr19:52918376-52918377 38;4 K jcn_only_AA CUFF.733 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 29;7 K intron_retention CUFF.683 chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 65;65 N alternative_acceptor CUFF.710 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 214;9 K cassette CUFF.700 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 291;73 N intron_retention chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 37;44 K alternative_last_exon CUFF.686 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21636352-21636579 25;56 K cassette CUFF.728 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 4;108 N jcn_only_AA CUFF.729 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 22;68 K intron_retention CUFF.715 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 35;29 K intron_retention CUFF.659 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 11;10 N jcn_only_AD CUFF.721 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 102;31 N cassette CUFF.674 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 10;143 N alternative_acceptor CUFF.723 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 133;6 K jcn_only_AD CUFF.700 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 73;107 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 19;25 K mutually_exclusive CUFF.722 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 60;17 K alternative_acceptor CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 9;27 N cassette CUFF.653 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 26;155 N jcn_only_AA CUFF.710 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 214;8 K alternative_donor CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 331;46 K cassette CUFF.712 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 29;33 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658984;chr19:54658996-54658999 chr19:54659047-54659419 84;167 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 11;36 N coord_cassette CUFF.674 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 7;64 N alternative_acceptor CUFF.669 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 31;0 K intron_retention CUFF.680 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 155;77 K alternative_acceptor CUFF.660,CUFF.728 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 19;1 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 11;22 N jcn_only_AA CUFF.669 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 31;6 K alternative_first_exon CUFF.723 chr19 - chr19:51528923-51529011,chr19:51528923-51531199;chr19:51528923-51530712 chr19:51528923-51529793 chr19:51530713-51530946 chr19:51529794-51529858 317;99 K intron_retention CUFF.650 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 312;201 K cassette CUFF.712 chr19 - chr19:49316606-49316919 chr19:49316606-49316689;chr19:49316810-49316919 chr19:49316690-49316809 29;29 K intron_retention CUFF.680 chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 18;65 N jcn_only_AA CUFF.735 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 72;23 K cassette CUFF.707 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 10;55 K jcn_only_AD CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 534;58 N intron_retention chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 7;11 N cassette CUFF.674 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 186;90 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 41;27 K cassette CUFF.693 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 95;66 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 51;27 K intron_retention CUFF.695 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 44;54 K mutually_exclusive CUFF.731 chr19 + chr19:55087577-55098476,chr19:55098528-55098667 chr19:55087577-55088931,chr19:55089191-55098667 chr19:55098477-55098527 chr19:55088932-55089190 80;25 K intron_retention CUFF.715 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 43;5 K alternative_first_exon CUFF.673 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 7;13 K jcn_only_AD CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 28;22 N jcn_only_AA CUFF.649 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 523;19 N jcn_only_AD chr19 - chr19:6176455-6199490 chr19:6176455-6199486 41;17 N alternative_acceptor CUFF.649 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 298;4 K alternative_donor CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 45;28 N alternative_acceptor CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 3;7 K intron_retention CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 21;117 K intron_retention CUFF.710 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 19;9 K cassette CUFF.712 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 9;35 N jcn_only_AD CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 103;31 K intron_retention CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 9;84 N jcn_only_AA CUFF.680,CUFF.681 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 107;13 N alternative_donor CUFF.650 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 173;7 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 441;34 K cassette CUFF.688 chr19 + chr19:32851525-32873372 chr19:32851525-32871514;chr19:32871527-32873372 chr19:32871515-32871526 21;17 N jcn_only_AD CUFF.650 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 173;15 N coord_cassette CUFF.710 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 22;187 K alternative_first_exon CUFF.707 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254484-45254637 chr19:45258505-45258731 35;22 N alternative_acceptor chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 21;133 K jcn_only_AA CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 12;23 N jcn_only_AD CUFF.649 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 441;72 K intron_retention CUFF.672 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 152;41 K intron_retention CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 19;22 N cassette CUFF.728 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 28;11 N alternative_acceptor CUFF.684 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 18;42 K alternative_donor CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 175;173 K alternative_acceptor CUFF.668 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 64;83 N intron_retention chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 2;2 N cassette CUFF.653 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 76;53 K alternative_first_exon CUFF.733 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56348076-56348164 chr19:56347702-56348040 15;10 K intron_retention CUFF.729 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 69;32 N jcn_only_AA chr19 + chr19:17597767-17597982 chr19:17597767-17597908 103;11 N cassette CUFF.700 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 24;204 K intron_retention CUFF.683 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 144;45 K jcn_only_AD CUFF.710 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 214;9 N cassette CUFF.729 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 11;55 K alternative_donor CUFF.678 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 chr19:16593489-16593596;chr19:16594741-16594926 31;33 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 7;86 N jcn_only_AD CUFF.673 chr19 - chr19:33904550-33968951 chr19:33904550-33953900 7;120 K intron_retention CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 5;15 N alternative_donor CUFF.649 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 441;55 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 62;16 N intron_retention chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 19;13 N alternative_first_exon CUFF.680 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445729-17445931 chr19:17447460-17447536 116;13 K intron_retention CUFF.683 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 134;7 K intron_retention CUFF.649 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 155;38 K cassette CUFF.690 chr19 - chr19:33882386-33892626 chr19:33882386-33886995;chr19:33887062-33892626 chr19:33886996-33887061 43;9 K jcn_only_AA CUFF.660,CUFF.728 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 19;3 K alternative_first_exon CUFF.676 chr19 + chr19:16186983-16197232 chr19:16192857-16197232 chr19:16186857-16186982 chr19:16192528-16192856 68;217 N jcn_only_AD CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 56;33 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 9;41 N alternative_donor CUFF.652 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 41;4 N alternative_first_exon CUFF.700 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41946386-41946714;chr19:41945787-41945815 chr19:41945379-41945489 273;47 K intron_retention CUFF.700 chr19 - chr19:41938314-41939441 chr19:41938313-41938314;chr19:41939441-41939442 73;10 K mutually_exclusive CUFF.731 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 32;4 N jcn_only_AA CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 3;9 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 101;441 N cassette CUFF.674 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 7;223 N jcn_only_AD CUFF.681 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 314;141 N jcn_only_AA CUFF.650,CUFF.705 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 36;221 K intron_retention CUFF.715 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 47;24 K cassette CUFF.728 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 131;34 K alternative_donor CUFF.705 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 45;28 K cassette CUFF.733 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 38;6 K intron_retention CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 127;50 N jcn_only_AD CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 390;29 K jcn_only_AD CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 62;41 N alternative_donor CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 40;26 K cassette CUFF.669 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 12;108 N jcn_only_AA CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888553-11888930 chr19:11888931-11889144 chr19:11889144-11889145 2;23 K intron_retention CUFF.676 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 23;78 N jcn_only_AD CUFF.674 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 254;13 K intron_retention CUFF.691 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 98;30 N jcn_only_AA CUFF.650 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 245;12 N jcn_only_AA CUFF.712 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 35;15 N alternative_acceptor CUFF.649 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 283;19 N jcn_only_AA chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 27;152 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 31;17 N intron_retention chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 38;188 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 48;3 K alternative_acceptor CUFF.705,CUFF.729 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 96;9 N cassette CUFF.683 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 43;49 N jcn_only_AA CUFF.668 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 130;145 N jcn_only_AA CUFF.681 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 141;230 K jcn_only_AA CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 9;39 K alternative_donor CUFF.691 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 13;79 N alternative_acceptor CUFF.735 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 60;14 N jcn_only_AA chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 22;98 K intron_retention CUFF.710 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 241;20 N intron_retention chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 154;11 N alternative_first_exon CUFF.710 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314352 chr19:49314066-49314216 12;71 N jcn_only_AA CUFF.649 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 528;14 N alternative_acceptor CUFF.649 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 294;8 N alternative_first_exon CUFF.700 chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41946386-41946714;chr19:41945379-41945489 chr19:41945787-41945815 68;252 N jcn_only_AA CUFF.684 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 18;57 K jcn_only_AA CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 21;175 K intron_retention CUFF.695 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 410;40 K jcn_only_AD CUFF.705 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 59;45 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 25;23 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 38;330 K intron_retention CUFF.683 chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 69;12 N alternative_donor CUFF.728 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 59;7 K alternative_donor CUFF.724 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 93;229 N alternative_acceptor CUFF.712 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 35;7 K intron_retention CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 98;21 N alternative_acceptor chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 184;7 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 43;345 K jcn_only_AD CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 175;155 N cassette CUFF.724 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 315;99 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 14;31 N jcn_only_AA CUFF.723 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 133;12 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 146;22 K alternative_first_exon CUFF.658 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217008 11;113 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 88;80 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 5;114 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963072-58965062 chr19:58964020-58964149;chr19:58963101-58963110 chr19:58962971-58963071 47;37 K intron_retention CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 390;5 N alternative_donor CUFF.705 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 30;11 N intron_retention chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 8;73 N cassette CUFF.680 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17447844-17448816 chr19:17447629-17447843 38;98 N coord_cassette CUFF.653 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 35;38 K jcn_only_AD CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 127;101 N alternative_first_exon CUFF.700,CUFF.723 chr19 - chr19:41944320-41945786;chr19:41944320-41945378 chr19:41944320-41946385 chr19:41945787-41945815;chr19:41945379-41945489 chr19:41946386-41946714 299;21 K jcn_only_AD CUFF.678 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 chr19:16593489-16593596;chr19:16594741-16594926 31;36 K jcn_only_AD CUFF.712 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 30;22 N intron_retention chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 4;10 K cassette CUFF.731 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 9;98 K intron_retention CUFF.672 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 163;17 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 57;11 K cassette CUFF.674 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 120;39 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 44;6 K cassette CUFF.653 chr19 - chr19:6047516-6110403 chr19:6047516-6072015;chr19:6072159-6110403 chr19:6072016-6072158 117;59 N intron_retention chr19 - chr19:41531571-41531572 chr19:41531570-41531571;chr19:41531572-41531573 2;40 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 72;34 N alternative_donor CUFF.664 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 29;11 K intron_retention CUFF.735 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 54;35 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 5;29 K alternative_acceptor CUFF.650 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 332;276 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 110;89 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 11;45 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 55;58 N jcn_only_AD CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888995-11889144 chr19:11888553-11888994 chr19:11888552-11888553 2;27 K intron_retention CUFF.728 chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 5;57 N intron_retention chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 72;68 K jcn_only_AA CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 19;17 N alternative_donor CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 33;33 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 364;44 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 214;26 K alternative_donor CUFF.650 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 325;52 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 12;31 N jcn_only_AD CUFF.681 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 272;184 N alternative_acceptor CUFF.723 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 33;290 K intron_retention CUFF.728 chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 4;55 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 29;7 K cassette CUFF.733 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 10;25 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58963072-58965062;chr19:58964150-58965062 chr19:58963111-58965062 chr19:58962971-58963071;chr19:58964020-58964149 chr19:58963101-58963110 76;8 K intron_retention CUFF.707 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 22;36 K intron_retention CUFF.686 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 56;3 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 119;80 K intron_retention CUFF.680 chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 72;164 N alternative_donor CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888995-11889144 chr19:11888553-11888994 chr19:11888552-11888553 2;11 N jcn_only_AD CUFF.728 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 80;10 N jcn_only_AA CUFF.735 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 81;14 K intron_retention CUFF.715 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 39;27 K intron_retention CUFF.695 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 101;43 K intron_retention CUFF.693 chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 13;23 K alternative_first_exon CUFF.681 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598269-17598338 chr19:17599534-17599748 14;193 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 102;66 K jcn_only_AD CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 98;454 K alternative_acceptor CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 19;10 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 38;57 K alternative_last_exon CUFF.652 chr19 - chr19:5901466-5903622;chr19:5897009-5903622 chr19:5902651-5903622 chr19:5896916-5897008 chr19:5902440-5902650 38;32 N jcn_only_AD CUFF.681 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 277;118 K intron_retention CUFF.650 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 64;108 K intron_retention CUFF.724 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 131;261 N alternative_acceptor chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 27;123 N alternative_acceptor chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 79;112 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54658996-54658999;chr19:54659047-54659419 chr19:54657681-54658984 191;60 N alternative_acceptor CUFF.686 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 23;6 K intron_retention CUFF.683 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 47;8 K intron_retention CUFF.696 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 139;60 N cassette CUFF.653 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 43;151 K alternative_last_exon CUFF.715,CUFF.725 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52092801-52092991 chr19:52089880-52090127 79;89 N alternative_acceptor CUFF.650 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 72;24 N alternative_donor CUFF.676 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 113;0 N alternative_acceptor CUFF.674 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 123;1 K alternative_donor CUFF.712 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 30;11 N alternative_donor CUFF.681 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 277;34 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 38;30 N coord_cassette CUFF.653 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 44;27 N alternative_donor CUFF.681 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 98;0 K jcn_only_AA CUFF.699 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 22;19 N jcn_only_AD CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 43;47 N jcn_only_AA CUFF.681 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 19;150 N intron_retention CUFF.728 chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 24;54 N jcn_only_AA CUFF.649 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 500;41 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 11;16 K intron_retention CUFF.649 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 454;13 N jcn_only_AD CUFF.681 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 9;131 N alternative_donor CUFF.690,CUFF.695 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 86;8 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 388;20 N jcn_only_AD CUFF.681 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 98;13 K intron_retention CUFF.705 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 45;19 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 170;29 N alternative_donor CUFF.681 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 198;69 K jcn_only_AD CUFF.650 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 540;52 N alternative_donor CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 390;15 N jcn_only_AD CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 9;7 K jcn_only_AA CUFF.732 chr19 + chr19:55255537-55275342 chr19:55255537-55258786 18;4 K intron_retention CUFF.729 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 26;20 N cassette CUFF.710 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 217;150 N jcn_only_AD CUFF.664 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 29;16 K alternative_donor CUFF.710 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 214;50 N alternative_donor CUFF.721 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 102;20 N cassette CUFF.690 chr19 - chr19:33984244-34003498 chr19:33984244-34001933;chr19:34002062-34003498 chr19:34001934-34002061 25;58 N cassette CUFF.611 chr18 + chr18:166820-180235;chr18:163454-180235 chr18:163454-178932,chr18:166820-178932;chr18:179038-180235 chr18:178933-179037 82;10 N jcn_only_AA CUFF.642 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 34;11 N alternative_first_exon CUFF.618 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658039-12658204 chr18:12658206-12658342 185;16 N jcn_only_AD CUFF.619 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 18;3 K cassette CUFF.611 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 13;75 N intron_retention chr18 + chr18:44336588-44336745 chr18:44336587-44336588;chr18:44336745-44336746 3;56 N cassette CUFF.631 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895121-55912658 chr18:55895062-55895120 145;378 N alternative_donor CUFF.631 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 166;2 K alternative_first_exon CUFF.639 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417488-63417616 chr18:63418196-63418386 2;11 K jcn_only_AD CUFF.630 chr18 - chr18:47329224-47340051 chr18:47329224-47339838 chr18:47339839-47340051 chr18:47340051-47340052 70;9 K jcn_only_AA CUFF.642 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 13;113 K intron_retention CUFF.611 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 191;23 N jcn_only_AA CUFF.618 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 55;74 K alternative_first_exon CUFF.646 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441436-77441517 chr18:77455225-77455308 71;10 K alternative_last_exon CUFF.613 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807934-4807994 12;39 N jcn_only_AD chr18 + chr18:61377596-61390228 chr18:61388221-61390228 chr18:61377596-61388220 chr18:61377595-61377596 22;39 K jcn_only_AD CUFF.647 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 140;117 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 2;13 N jcn_only_AD CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 239;60 N coord_cassette CUFF.631 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 22;57 N jcn_only_AA chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61378569-61390228 chr18:61390228-61390229 22;422 N alternative_acceptor CUFF.646 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 chr18:77455225-77455308 14;0 K intron_retention CUFF.624 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 87;36 N alternative_acceptor CUFF.631 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 103;9 K coord_cassette CUFF.624 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 31;19 K intron_retention CUFF.638 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 107;8 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67628828-67629074;chr18:67623991-67624434 chr18:67623850-67623940 33;9 K intron_retention CUFF.615 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 132;20 K jcn_only_AA CUFF.642 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 24;74 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44486189;chr18:44486279-44500021 chr18:44473394-44473494;chr18:44483490-44483596;chr18:44486190-44486278 9;26 K mutually_exclusive CUFF.611 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 8;67 N cassette CUFF.615 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 14;200 K cassette CUFF.634 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 84;4 N mutually_exclusive CUFF.626 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 73;68 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67623849;chr18:67614769-67623990 chr18:67614769-67628827 chr18:67623850-67623940;chr18:67623991-67624434 chr18:67628828-67629074 21;21 N cassette CUFF.631 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 54;39 N jcn_only_AD CUFF.631 chr18 + chr18:55895121-55912658;chr18:55895140-55912658 chr18:55865102-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 1240;6 N alternative_donor CUFF.631 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 3;9 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 37;5 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 37;25 N cassette CUFF.631 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895140-55912658 chr18:55895062-55895139 145;817 N jcn_only_AD CUFF.631 chr18 + chr18:55895121-55912658;chr18:55865102-55912658 chr18:55895140-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 77;1169 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 4;67 N jcn_only_AA CUFF.646 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 chr18:77455225-77455308 14;18 K jcn_only_AD CUFF.645 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 32;89 N alternative_acceptor CUFF.635 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 55;7 K alternative_first_exon CUFF.635 chr18 - chr18:61071060-61077522;chr18:61071060-61071741 chr18:61071060-61074664 chr18:61077523-61077679;chr18:61071742-61072022 chr18:61074665-61074732 81;17 N alternative_donor CUFF.631 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1230;4 N alternative_first_exon CUFF.626 chr18 - chr18:44486279-44500021;chr18:44486279-44497964 chr18:44486279-44497284 chr18:44497965-44498045 chr18:44497285-44497537 85;18 K cassette CUFF.615 chr18 + chr18:12014373-12028041 chr18:12014373-12021700;chr18:12021822-12028041 chr18:12021701-12021821 156;29 N jcn_only_AA CUFF.624 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 4;87 K mutually_exclusive CUFF.611 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 12;67 N cassette CUFF.611 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 7;12 K alternative_first_exon CUFF.611 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158309-158714 chr18:158885-159021 26;15 N alternative_acceptor CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 239;4 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 25;15 N jcn_only_AD CUFF.631 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1230;12 K alternative_acceptor CUFF.642 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 24;67 N jcn_only_AA CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 239;39 N jcn_only_AA CUFF.642 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 21;23 N jcn_only_AD CUFF.631 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 196;135 N alternative_first_exon chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624434 chr18:67613970-67614305 38;63 K jcn_only_AD CUFF.619 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 6;16 K cassette CUFF.615 chr18 + chr18:11999187-12009881 chr18:11999187-12008331;chr18:12008591-12009881 chr18:12008332-12008590 172;60 N cassette CUFF.626 chr18 - chr18:44483597-44500021 chr18:44483597-44486189;chr18:44486279-44500021 chr18:44486190-44486278 69;11 K alternative_donor CUFF.645 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 32;137 N alternative_donor CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 239;12 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 2;1 N alternative_donor CUFF.631 chr18 + chr18:55895121-55912658;chr18:55895140-55912658 chr18:55865102-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 17;6 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67623850-67623940;chr18:67628828-67629074 chr18:67623991-67624434 30;12 K alternative_donor CUFF.630 chr18 - chr18:47329224-47340051 chr18:47329224-47339838 chr18:47339839-47340051 chr18:47340051-47340052 70;8 N jcn_only_AA CUFF.639 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 19;82 N cassette CUFF.636 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 16;298 N cassette CUFF.626 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 63;276 N jcn_only_AD CUFF.631 chr18 + chr18:55895140-55912658;chr18:55865102-55912658 chr18:55895121-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 1175;71 N coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44486189;chr18:44486279-44497284 chr18:44473394-44473494;chr18:44483490-44483596;chr18:44486190-44486278 101;26 N jcn_only_AD CUFF.631 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 1061;34 N alternative_donor CUFF.631 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 1061;0 N cassette CUFF.631 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 22;112 K alternative_last_exon CUFF.639 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63476940-63477234 chr18:63470351-63471041 17;47 N jcn_only_AD CUFF.636 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 342;78 N alternative_donor chr18 + chr18:61377596-61390228 chr18:61388221-61390228 chr18:61377596-61388220 chr18:61377595-61377596 22;4 N alternative_donor CUFF.631 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 196;21 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44500021 chr18:44473394-44473494;chr18:44483490-44483596 9;83 K jcn_only_AA CUFF.641 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 27;12 N coord_cassette CUFF.626 chr18 - chr18:44483597-44500021 chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44484065-44484169;chr18:44486190-44486278 69;34 K alternative_last_exon CUFF.635 chr18 - chr18:61071060-61077522 chr18:61074733-61077522 chr18:61070940-61071059 chr18:61074623-61074732 31;19 N alternative_first_exon CUFF.631 chr18 + chr18:55758860-55833019,chr18:55816802-55833019,chr18:55816792-55833019,chr18:55713251-55833019,chr18:55712848-55833019,chr18:55722109-55833019,chr18:55714743-55833019;chr18:55711941-55833019 chr18:55713021-55833019 chr18:55711599-55711940 chr18:55712870-55713020 212;14 K alternative_donor CUFF.647 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 140;62 N intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 11;14 K alternative_first_exon CUFF.631 chr18 + chr18:55862966-55895061;chr18:55833094-55895061 chr18:55888990-55895061 chr18:55833020-55833093 chr18:55888767-55888989 73;888 N cassette CUFF.631 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 8;812 K alternative_first_exon CUFF.634,CUFF.645 chr18 - chr18:57147471-57363860 chr18:57147471-57333307 chr18:57363861-57363941 chr18:57333308-57333487 1;28 N cassette CUFF.611 chr18 + chr18:163454-178932;chr18:163454-180235 chr18:163454-166786;chr18:166820-180235,chr18:166820-178932 chr18:166787-166819 16;70 N alternative_donor CUFF.631 chr18 + chr18:55895140-55912658;chr18:55865102-55912658 chr18:55895121-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 22;1 K cassette CUFF.626 chr18 - chr18:44471018-44483489 chr18:44471018-44473393;chr18:44473495-44483489 chr18:44473394-44473494 237;125 N jcn_only_AA CUFF.631 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 103;19 N alternative_donor CUFF.636 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 342;0 K alternative_first_exon CUFF.647 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867581-77867905 89;106 N alternative_acceptor CUFF.624 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 4;93 N cassette CUFF.626 chr18 - chr18:44483597-44486189 chr18:44483597-44484064;chr18:44484170-44486189 chr18:44484065-44484169 11;74 K alternative_first_exon CUFF.645 chr18 - chr18:76737430-76738785,chr18:76737430-76738462 chr18:76737430-76737554 chr18:76738786-76738843 chr18:76737555-76737895 93;50 K cassette CUFF.635 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 37;36 K intron_retention CUFF.618 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 174;20 N alternative_acceptor CUFF.639 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 19;47 N cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 9;132 K cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483599-44497284 chr18:44483490-44483598 101;201 N coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44497284 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 101;71 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 37;15 N jcn_only_AA CUFF.635 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 55;14 K cassette CUFF.646 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 chr18:77477810-77478016;chr18:77496355-77496521 51;49 N cassette CUFF.624 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 24;38 K alternative_last_exon CUFF.647 chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77905318-77905406 chr18:77890986-77891075 22;79 K alternative_first_exon CUFF.630,CUFF.642 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47337765;chr18:47329224-47339094 chr18:47329224-47340051,chr18:47329224-47339838 chr18:47337766-47337801;chr18:47339095-47339377 chr18:47340052-47340330 72;85 K alternative_first_exon CUFF.635,CUFF.643 chr18 - chr18:61071060-61074664;chr18:61071060-61071741 chr18:61071060-61077522 chr18:61074665-61074732;chr18:61071742-61072022 chr18:61077523-61077679 63;35 K alternative_first_exon CUFF.630 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47339094 chr18:47329224-47337765 chr18:47340052-47340330;chr18:47339095-47339377 chr18:47337766-47337801 147;10 K jcn_only_AA CUFF.619 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 6;10 K alternative_first_exon CUFF.643 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72920375-72920507 chr18:72920316-72920370 377;135 K coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483599-44497284 chr18:44473394-44473494;chr18:44483490-44483598 101;111 N coord_cassette CUFF.624 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 24;24 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 9;70 N jcn_only_AA CUFF.642 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 51;19 K alternative_last_exon CUFF.626 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398154-44398410 147;127 K alternative_first_exon CUFF.630 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47337765 chr18:47329224-47339094 chr18:47340052-47340330;chr18:47337766-47337801 chr18:47339095-47339377 125;32 N alternative_donor CUFF.619 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 18;0 N jcn_only_AD CUFF.631 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 166;12 N alternative_acceptor CUFF.642 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 51;0 N alternative_donor CUFF.631 chr18 + chr18:55895121-55912658;chr18:55865102-55912658 chr18:55895140-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 7;16 K alternative_acceptor CUFF.641 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 27;8 K alternative_first_exon CUFF.615 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11980978-11981204 chr18:11981377-11981764 50;154 K cassette CUFF.611 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 94;56 N jcn_only_AA CUFF.642 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 35;10 K intron_retention CUFF.626 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 286;13 K intron_retention CUFF.631 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 277;9 K alternative_first_exon CUFF.635 chr18 - chr18:61071060-61074664;chr18:61071060-61077522 chr18:61071060-61071741 chr18:61074665-61074732;chr18:61077523-61077679 chr18:61071742-61072022 52;46 N alternative_acceptor chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61378569-61390228 chr18:61390228-61390229 22;10 N coord_cassette CUFF.611 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-178932;chr18:179038-180235 chr18:166787-166819;chr18:178933-179037 7;2 N intron_retention chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 17;47 N alternative_first_exon CUFF.631 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 44;195 N cassette CUFF.626 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 141;89 N jcn_only_AD CUFF.631 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 3;76 N mutually_exclusive CUFF.646 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 64;5 K alternative_first_exon CUFF.619 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728219-14728513 chr18:14796342-14796414 21;10 N cassette CUFF.624 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 3;24 N cassette CUFF.1401 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 33;102 N jcn_only_AD CUFF.1421 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 99;10 N jcn_only_AA CUFF.1391 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 76;25 N jcn_only_AD CUFF.1378,CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 30;6 K cassette CUFF.1394 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 279;61 K cassette CUFF.1413 chrX + chrX:114536689-114540769 chrX:114536689-114537864;chrX:114537984-114540769 chrX:114537865-114537983 21;14 K alternative_first_exon CUFF.1380 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645779 chrX:10588330-10588646 80;88 K alternative_acceptor CUFF.1380 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 16;28 K jcn_only_AD CUFF.1393 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 43;106 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715874 chrX:15720905-15721844 254;42 K intron_retention CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 34;209 K intron_retention CUFF.1378 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 111;7 N jcn_only_AD CUFF.1421 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 96;13 K intron_retention CUFF.1383 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 91;5 K intron_retention CUFF.1388 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 21;17 K alternative_acceptor CUFF.1387 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 71;46 K alternative_first_exon CUFF.1385,CUFF.1408 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955623-19955650 chrX:19955536-19955615 12;5 K intron_retention CUFF.1394 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 82;20 K intron_retention CUFF.1381 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 188;7 N jcn_only_AD CUFF.1402 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 26;105 N jcn_only_AA CUFF.1402 chrX - chrX:85219058-85233770 chrX:85226591-85233770 chrX:85219058-85226590 chrX:85219057-85219058 2;15 K cassette CUFF.1401 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 171;12 N alternative_donor CUFF.1385,CUFF.1387 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 13;6 N alternative_donor CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 96;12 K cassette CUFF.1383 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 91;110 N jcn_only_AD CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 96;15 N alternative_donor CUFF.1380,CUFF.1381 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 348;9 N intron_retention chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 55;24 K jcn_only_AA CUFF.1380 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 16;36 K intron_retention CUFF.1417 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 4;13 N alternative_acceptor CUFF.1378 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 27;0 K cassette CUFF.1393 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 116;30 N alternative_donor CUFF.1378 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 23;8 N alternative_donor CUFF.1421 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 6;86 K intron_retention CUFF.1425 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 1274;84 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 10;6 N jcn_only_AD CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 262;48 K intron_retention CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 30;12 N cassette CUFF.1411 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 41;63 N jcn_only_AA CUFF.1385 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 18;13 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 19;44 K jcn_only_AD CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 34;1302 K intron_retention CUFF.1402 chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 7;27 N intron_retention chrX - chrX:152988744-152989409 chrX:152988743-152988744;chrX:152989409-152989410 35;14 K jcn_only_AA CUFF.1387 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 71;71 K jcn_only_AD CUFF.1389 chrX + chrX:45129987-45184737 chrX:45184464-45184737 19;57 N jcn_only_AD CUFF.1411 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 56;24 N alternative_acceptor CUFF.1381 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 188;45 K jcn_only_AD CUFF.1424 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 10;38 K intron_retention CUFF.1378 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 107;6 N jcn_only_AA CUFF.1408 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 24;4 N alternative_acceptor CUFF.1391 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 9;1 N jcn_only_AD chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 5;13 K intron_retention CUFF.1385 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 145;7 K alternative_acceptor CUFF.1387 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 64;20 N jcn_only_AA CUFF.1408 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 14;13 K mutually_exclusive CUFF.1383 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 118;5 K intron_retention CUFF.1425 chrX + chrX:153608728-153609112 chrX:153608727-153608728;chrX:153609112-153609113 1347;57 K alternative_first_exon CUFF.1424 chrX + chrX:153238312-153247300,chrX:153238338-153247300 chrX:153246075-153247300 chrX:153237778-153238311 chrX:153245998-153246074 chrX:153247301-153248646 18;8 N alternative_donor CUFF.1378 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 25;41 N alternative_acceptor CUFF.1391 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 4;3 N intron_retention chrX - chrX:119374209-119378618 chrX:119374208-119374209;chrX:119378618-119378619 22;15 K coord_cassette CUFF.1381 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13830989;chrX:13831028-13834962 chrX:13825769-13825888;chrX:13830990-13831027 89;78 N jcn_only_AD CUFF.1421 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 23;86 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 10;19 K intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 120;26 N alternative_acceptor CUFF.1391 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 7;0 K alternative_first_exon CUFF.1389 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042496-45042589 chrX:45182792-45182892 23;40 N jcn_only_AD CUFF.1378,CUFF.1402 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 36;7 N intron_retention chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 25;30 N jcn_only_AD CUFF.1380,CUFF.1381 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 348;92 K alternative_acceptor CUFF.1389 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 35;10 N alternative_donor CUFF.1378,CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 30;8 N alternative_donor CUFF.1391 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46382372-46387769 chrX:46387769-46387770 9;10 N alternative_acceptor chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 26;0 N alternative_acceptor CUFF.1385 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 18;1 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 96;61 K cassette CUFF.1381 chrX - chrX:13825889-13834962 chrX:13825889-13830989;chrX:13831028-13834962 chrX:13830990-13831027 23;89 K jcn_only_AD CUFF.1384 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 23;63 N alternative_acceptor CUFF.1384,CUFF.1389 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 326;1 N jcn_only_AA CUFF.1408 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 17;11 N alternative_acceptor CUFF.1408 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 0;13 N alternative_donor CUFF.1411 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 130;10 N jcn_only_AD CUFF.1378 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 15;28 N cassette CUFF.1425 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 44;1007 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693902-15706783 chrX:15693092-15706783 chrX:15699124-15699170;chrX:15693813-15693901 chrX:15692965-15693091 114;55 K alternative_acceptor CUFF.1393,CUFF.1420 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 10;10 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699171-15706783,chrX:15699311-15706783 chrX:15692965-15693091;chrX:15693813-15693901 chrX:15699124-15699170 100;69 N jcn_only_AD CUFF.1387 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 113;21 K intron_retention CUFF.1402 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 11;19 N alternative_donor CUFF.1402 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 26;1 K alternative_first_exon CUFF.1418 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250790-134250852 11;8 N alternative_acceptor CUFF.1402 chrX - chrX:85219058-85233770 chrX:85226591-85233770 chrX:85219058-85226590 chrX:85219057-85219058 2;10 N jcn_only_AD CUFF.1411 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 130;8 K jcn_only_AA CUFF.1387 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 64;5 K cassette CUFF.1381 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 89;57 N jcn_only_AA chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 26;6 N intron_retention chrX - chrX:134257303-134257418 chrX:134257302-134257303;chrX:134257418-134257419 3;31 N alternative_donor CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 262;29 N jcn_only_AA CUFF.1378 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 27;12 N alternative_acceptor CUFF.1408 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 13;0 K cassette CUFF.1404 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 9;19 K intron_retention CUFF.1385 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 38;96 N jcn_only_AD CUFF.1391 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46382372-46387769 chrX:46387769-46387770 9;13 K alternative_donor CUFF.1393 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 43;53 K alternative_last_exon CUFF.1402 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85116179-85118099 chrX:85236741-85236813 96;8 N alternative_donor chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 5;0 N jcn_only_AA CUFF.1381 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 188;59 K jcn_only_AA CUFF.1393,CUFF.1420 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 10;20 K cassette CUFF.1385 chrX - chrX:19935453-19947902 chrX:19935453-19936189;chrX:19936218-19947902 chrX:19936190-19936217 19;8 K alternative_first_exon CUFF.1385,CUFF.1423 chrX - chrX:152988744-152989409,chrX:152988744-152989470,chrX:152988744-152989941;chrX:152988744-152989788,chrX:152988744-152989655 chrX:152988744-152988962 chrX:152989789-152989838 chrX:152988963-152988981 258;7 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 15;57 K intron_retention CUFF.1381 chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 77;21 N alternative_acceptor chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 6;0 K alternative_first_exon CUFF.1417 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594107-133594368 chrX:133594380-133594565 5;35 N jcn_only_AA CUFF.1391 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 29;72 N alternative_donor CUFF.1387 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 113;0 N jcn_only_AA CUFF.1384,CUFF.1389 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 326;14 K jcn_only_AD CUFF.1393 chrX + chrX:47035986-47040613 chrX:47039906-47040613 11;166 N alternative_donor CUFF.1378,CUFF.1402 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 28;3 K alternative_first_exon CUFF.1387 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237069 86;91 N jcn_only_AD CUFF.1378 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 25;55 N alternative_first_exon CUFF.1401 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003139-78003531 chrX:78006707-78006808 12;50 K alternative_first_exon CUFF.1402 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302488-85302625 chrX:85302251-85302365 64;9 K alternative_donor CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 34;785 K intron_retention CUFF.1385 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 113;11 N alternative_first_exon chrX - chrX:85219058-85302487 chrX:85219058-85233770 chrX:85302488-85302625 chrX:85233771-85233895 13;2 K intron_retention CUFF.1399 chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 2;13 N alternative_donor CUFF.1381 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 419;2 N cassette CUFF.1411 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 30;69 K intron_retention CUFF.1383 chrX - chrX:15338902-15339542 chrX:15338901-15338902;chrX:15339542-15339543 4;68 N alternative_acceptor CUFF.1408 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 13;0 N jcn_only_AD CUFF.1378 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 35;8 K intron_retention CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 96;8 K jcn_only_AA CUFF.1393 chrX + chrX:47035986-47040613 chrX:47035986-47038501 11;109 N intron_retention CUFF.1410 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 6;12 K alternative_first_exon CUFF.1378 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9050620-9050776 chrX:9001893-9002202 23;82 N intron_retention chrX + chrX:103358265-103359942 chrX:103358264-103358265;chrX:103359942-103359943 27;12 N alternative_donor CUFF.1421 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 91;1 K intron_retention CUFF.1385 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 106;11 N alternative_acceptor CUFF.1391 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 3;4 K alternative_donor CUFF.1424 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 10;20 K alternative_donor CUFF.1384 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 23;43 N jcn_only_AD CUFF.1381 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 419;16 K intron_retention CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 262;14 K alternative_last_exon CUFF.1417 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654542 chrX:133634060-133634698 9;15 K cassette CUFF.1383 chrX - chrX:15344169-15353622 chrX:15344169-15349711;chrX:15350115-15353622 chrX:15349712-15350114 4;203 K mutually_exclusive CUFF.1378 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 98;9 N jcn_only_AA CUFF.1391 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 9;55 K intron_retention CUFF.1419 chrX - chrX:134290954-134291240 chrX:134290953-134290954;chrX:134291240-134291241 12;48 K jcn_only_AA CUFF.1389 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 35;8 N intron_retention CUFF.1394 chrX - chrX:53569501-53570801 chrX:53569500-53569501;chrX:53570801-53570802 48;10 K alternative_last_exon CUFF.1414 chrX - chrX:119312412-119378618,chrX:119374209-119378618;chrX:119271100-119378618 chrX:119355498-119378618 chrX:119270952-119271099 chrX:119355194-119355497 36;153 N coord_cassette CUFF.1411 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 27;77 N intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 22;24 N jcn_only_AD CUFF.1385,CUFF.1387 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 13;9 K alternative_donor CUFF.1423 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 120;18 N alternative_last_exon CUFF.1402 chrX - chrX:85219058-85302487 chrX:85282562-85302487 chrX:85218670-85219057 chrX:85281953-85282561 23;107 N alternative_donor CUFF.1378 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 11;20 K intron_retention CUFF.1425 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 1479;20 N cassette ENSG00000130224.10 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 3;1 N jcn_only_AA CUFF.1391 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 97;4 K jcn_only_AD CUFF.1423 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 120;13 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693092-15706783 chrX:15693902-15706783 chrX:15699124-15699170;chrX:15692965-15693091 chrX:15693813-15693901 139;30 N alternative_donor CUFF.1421 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 87;5 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 29;15 N jcn_only_AA chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 6;85 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721844;chrX:15713794-15713856 chrX:15715363-15715874 107;189 N alternative_donor CUFF.1411 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 56;16 K cassette CUFF.1393 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 12;75 K cassette CUFF.1383 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 6;170 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721844;chrX:15715363-15715874 chrX:15713794-15713856 231;65 K mutually_exclusive CUFF.923 chr22 + chr22:47308085-47370185,chr22:47370296-47393529 chr22:47308085-47309229,chr22:47309343-47393529 chr22:47370186-47370295 chr22:47309230-47309342 50;45 K intron_retention CUFF.902 chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 chr22:20748405-20748952;chr22:20749623-20749708 29;3 N cassette CUFF.917 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 178;8 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 10;16 N alternative_donor chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 48;6 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 7;48 N cassette CUFF.923 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 24;86 K intron_retention chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 35;6 N mutually_exclusive CUFF.921 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 139;17 K jcn_only_AD CUFF.925 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 67;106 K jcn_only_AA CUFF.902,CUFF.921 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 71;21 K intron_retention CUFF.897 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 197;34 K intron_retention CUFF.911 chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 16;27 K jcn_only_AD CUFF.906 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 21;100 K cassette CUFF.897 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 80;107 K alternative_last_exon CUFF.908 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25915890-25916129 chr22:25856834-25857645 chr22:25855383-25855482 75;38 N jcn_only_AA CUFF.897 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 147;19 K intron_retention CUFF.914 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 60;57 K intron_retention CUFF.908 chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 chr22:25855383-25855482;chr22:25915890-25916129 13;74 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 21;4 K alternative_acceptor CUFF.911 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 28;296 K alternative_first_exon CUFF.902 chr22 + chr22:20748953-20759666;chr22:20755049-20759666 chr22:20755663-20759666 chr22:20748389-20748952;chr22:20754922-20755048 chr22:20755530-20755662 chr22:20759667-20761968 15;31 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 85;28 K intron_retention CUFF.908 chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 chr22:25855383-25855482;chr22:25856834-25857645 13;49 N alternative_acceptor CUFF.910 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 28;0 N alternative_donor CUFF.925 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 10;16 K jcn_only_AA CUFF.917 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 13;32 K alternative_donor CUFF.910 chr22 + chr22:29534771-29536269 chr22:29534822-29536269 chr22:29534771-29534821 chr22:29534770-29534771 2;27 N mutually_exclusive CUFF.923 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 21;7 K intron_retention CUFF.903 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 14;87 K alternative_first_exon CUFF.906 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700339-24700420 85;28 N alternative_acceptor CUFF.907 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 31;0 N alternative_acceptor chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 32;40 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 111;6 K intron_retention CUFF.925 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 81;11 N jcn_only_AD CUFF.925 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 96;16 K intron_retention CUFF.914 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 72;22 N cassette CUFF.917 chr22 + chr22:37697061-37699294 chr22:37697061-37697921;chr22:37698073-37699294 chr22:37697922-37698072 178;20 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 81;123 N jcn_only_AA CUFF.911 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 6;86 K alternative_donor CUFF.925 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 67;62 K intron_retention CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 73;14 K cassette CUFF.906 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 19;8 K cassette CUFF.903 chr22 + chr22:21056998-21057293 chr22:21056998-21057117;chr22:21057182-21057293 chr22:21057118-21057181 71;17 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 90;134 N intron_retention chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 42;6 N cassette CUFF.923 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 8;87 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 48;15 K jcn_only_AA CUFF.914 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 24;98 K intron_retention chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 32;15 K intron_retention CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 213;78 K alternative_donor CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 71;19 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 122;13 N jcn_only_AA chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 32;16 N intron_retention chr22 - chr22:21831031-21832078 chr22:21831030-21831031;chr22:21832078-21832079 8;28 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 14;31 N alternative_donor CUFF.917 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 163;0 N jcn_only_AD CUFF.917 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 163;2 N jcn_only_AA CUFF.904 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 174;9 N alternative_acceptor CUFF.917 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 207;7 K jcn_only_AD CUFF.910 chr22 + chr22:29534771-29536269 chr22:29534822-29536269 chr22:29534771-29534821 chr22:29534770-29534771 2;44 N jcn_only_AD CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 73;12 N alternative_acceptor CUFF.902 chr22 + chr22:20749709-20754921 chr22:20749709-20753884 chr22:20753885-20754921 chr22:20754921-20754922 chr22:20749623-20749708;chr22:20754922-20755048 39;8 N jcn_only_AD CUFF.925 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 21;111 K jcn_only_AA CUFF.907 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 54;18 N jcn_only_AA CUFF.917 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 217;29 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 330;162 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 32;103 N jcn_only_AD CUFF.925 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 44;69 N jcn_only_AA chr22 - chr22:21841217-21841853 chr22:21841265-21841853 56;26 K jcn_only_AA CUFF.911 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 28;601 K alternative_first_exon CUFF.917 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705253-37705364 chr22:37706057-37706073 121;15 K intron_retention CUFF.911 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 136;24 N jcn_only_AA CUFF.904 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 70;81 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 chr22:20754922-20755048 5;3 N alternative_donor CUFF.925 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 59;11 K alternative_first_exon CUFF.902 chr22 + chr22:20755663-20759666;chr22:20755049-20759666 chr22:20748953-20759666 chr22:20755530-20755662;chr22:20754922-20755048 chr22:20748389-20748952 chr22:20759667-20761968 35;11 K cassette CUFF.911 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 376;191 K alternative_donor CUFF.910 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 9;9 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 134;28 K cassette CUFF.921 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 454;153 N alternative_donor chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 42;28 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 13;14 K alternative_first_exon CUFF.925 chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51039579-51039675 chr22:51020987-51021463 12;59 N cassette CUFF.902 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 chr22:20748405-20748952;chr22:20754922-20755048 11;27 N jcn_only_AA CUFF.910 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 28;13 N intron_retention chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 54;10 K intron_retention chr22 + chr22:21057981-21058106 chr22:21057980-21057981;chr22:21058106-21058107 38;31 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45148508-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45131043-45182336 chr22:45148404-45148507;chr22:45161895-45162069;chr22:45122457-45122514 chr22:45130907-45131042 328;17 N jcn_only_AD CUFF.911 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 681;10 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 8;206 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21871613 chr22:21846384-21868422 54;22 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 389;103 K jcn_only_AD CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 71;26 N cassette CUFF.903 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 41;53 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 116;19 N alternative_acceptor CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 91;62 N jcn_only_AD CUFF.911 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 129;136 N intron_retention CUFF.925 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 12;13 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45162070-45182336 chr22:45122515-45182336 chr22:45130907-45131042;chr22:45148404-45148507;chr22:45161895-45162069 chr22:45122457-45122514 291;54 N jcn_only_AA CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 143;8 K alternative_last_exon CUFF.902 chr22 + chr22:20755049-20759666 chr22:20755049-20755566 chr22:20759667-20762749 chr22:20755567-20755662 chr22:20754922-20755048 10;29 N alternative_acceptor CUFF.907 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 35;0 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 19;24 K intron_retention CUFF.925 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 101;23 N intron_retention chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 chr22:20748405-20748624;chr22:20748853-20748952 3;24 N jcn_only_AA CUFF.917 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 235;11 K jcn_only_AD CUFF.923 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 117;61 K intron_retention CUFF.908 chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 chr22:25915890-25916129;chr22:25916649-25916821 12;83 N jcn_only_AA CUFF.925 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 19;101 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 14;123 K alternative_first_exon CUFF.903 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21055184-21056594 chr22:21056610-21056748 88;20 N alternative_donor CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 73;15 K intron_retention CUFF.903 chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 30;49 N alternative_donor CUFF.925 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 39;31 K intron_retention CUFF.925 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 73;59 K coord_cassette CUFF.911 chr22 + chr22:29683124-29688125 chr22:29683124-29684594;chr22:29684776-29687550;chr22:29687589-29688125 chr22:29684595-29684775;chr22:29687551-29687588 6;59 N jcn_only_AD CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 66;29 N alternative_first_exon CUFF.923 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158461-47158745 chr22:47159120-47159228 10;30 K alternative_acceptor CUFF.911 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 31;118 N intron_retention CUFF.921 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 24;104 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 13;111 K cassette CUFF.911 chr22 + chr22:29669854-29674018 chr22:29669854-29670256;chr22:29670272-29674018 chr22:29670257-29670271 376;94 K cassette CUFF.923 chr22 + chr22:47158746-47188416 chr22:47158746-47184876;chr22:47184935-47188416 chr22:47184877-47184934 141;41 N jcn_only_AD CUFF.902 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 6;29 N intron_retention chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 chr22:20748405-20748624;chr22:20749623-20749708 6;11 N intron_retention chr22 + chr22:21057981-21058255 chr22:21057980-21057981;chr22:21058255-21058256 41;36 N jcn_only_AA CUFF.911,CUFF.917 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 163;2 N intron_retention chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 129;26 N alternative_acceptor CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 66;14 K alternative_acceptor CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 114;58 K intron_retention CUFF.925 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 79;42 K alternative_acceptor CUFF.917 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 13;22 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 81;41 N alternative_donor CUFF.907 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 35;1 K alternative_first_exon CUFF.902 chr22 + chr22:20748953-20759666;chr22:20755663-20759666 chr22:20755049-20759666 chr22:20748389-20748952;chr22:20755530-20755662 chr22:20754922-20755048 chr22:20759667-20761968 42;4 K intron_retention CUFF.925 chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 34;24 N jcn_only_AA CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 89;62 K intron_retention CUFF.925 chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 27;84 K jcn_only_AD CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 213;14 K intron_retention CUFF.903 chr22 + chr22:21058040-21058255 chr22:21058039-21058040;chr22:21058255-21058256 199;36 K intron_retention CUFF.902 chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 chr22:20754922-20755048;chr22:20755567-20755662 43;8 K intron_retention CUFF.925 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 42;51 K alternative_acceptor CUFF.907 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 54;9 N intron_retention CUFF.902 chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 chr22:20748405-20748952;chr22:20754922-20755048 11;4 N alternative_donor CUFF.911 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 681;4 N jcn_only_AD chr22 - chr22:30738869-30748939 chr22:30738869-30740921 22;46 K intron_retention CUFF.904 chr22 - chr22:21831054-21832078 chr22:21831053-21831054;chr22:21832078-21832079 62;30 N jcn_only_AA CUFF.902 chr22 + chr22:20749709-20754921 chr22:20749709-20753884 chr22:20753885-20754921 chr22:20754921-20754922 chr22:20749623-20749708;chr22:20754922-20755048 39;11 N alternative_acceptor CUFF.925 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 19;52 K intron_retention CUFF.903 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 87;41 N alternative_donor CUFF.911 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 129;71 K cassette CUFF.911 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 90;320 K coord_cassette CUFF.925 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 34;66 N alternative_donor CUFF.925 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 21;17 N jcn_only_AD CUFF.914 chr22 - chr22:21846384-21871613;chr22:21846384-21868422 chr22:21846384-21868418 73;3 N jcn_only_AA chr22 - chr22:21832391-21832873 chr22:21832451-21832873 78;116 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 81;47 N jcn_only_AD CUFF.925 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 10;19 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 265;227 K cassette CUFF.923 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 174;131 N alternative_donor CUFF.902 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 6;36 N cassette CUFF.897 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 12;155 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 90;27 K alternative_donor CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 213;62 N alternative_donor CUFF.916 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 29;0 K cassette CUFF.923 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188565-47188701 174;108 N cassette CUFF.923 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 141;27 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 594;18 N alternative_acceptor CUFF.921 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 313;4 K alternative_donor CUFF.906 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 21;143 K alternative_donor CUFF.923 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 117;39 N jcn_only_AA CUFF.914 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 22;60 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 40;206 N cassette CUFF.921 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 43;511 K cassette CUFF.903 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 18;173 N jcn_only_AA CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 66;34 N alternative_acceptor CUFF.917 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 213;1 K intron_retention CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 114;25 N alternative_acceptor CUFF.911 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 6;74 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21868422 chr22:21846384-21871613 26;51 N alternative_acceptor CUFF.925 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 23;49 K intron_retention CUFF.917 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 187;3 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45148508-45182336 chr22:45130907-45131042;chr22:45161895-45162069;chr22:45122457-45122514 chr22:45148404-45148507 136;209 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45122515-45182336 chr22:45162070-45182336 chr22:45130907-45131042;chr22:45148404-45148507;chr22:45122457-45122514 chr22:45161895-45162069 325;20 N cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 14;137 K jcn_only_AA CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 114;101 N alternative_acceptor CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 143;10 N alternative_acceptor CUFF.904 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 174;5 N alternative_acceptor CUFF.897 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 147;1 K intron_retention CUFF.911 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 101;25 N alternative_acceptor CUFF.911,CUFF.917 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 163;0 N alternative_acceptor CUFF.904 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 72;81 K intron_retention CUFF.925 chr22 - chr22:51016364-51016977 chr22:51016363-51016364;chr22:51016977-51016978 28;7 N intron_retention chr22 - chr22:21830450-21830932 chr22:21830449-21830450;chr22:21830932-21830933 123;39 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 214;23 N jcn_only_AD CUFF.907 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 35;3 N jcn_only_AD CUFF.916 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 29;30 K intron_retention CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 71;18 N jcn_only_AA CUFF.907 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 31;3 N cassette CUFF.921 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 161;430 K cassette CUFF.925 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 8;41 K jcn_only_AD CUFF.910 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 9;19 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188417-47188473;chr22:47188565-47188701 14;108 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 11;64 N jcn_only_AA CUFF.925 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 23;100 K jcn_only_AA CUFF.911 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 31;237 N jcn_only_AA CUFF.907 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 35;4 N alternative_donor CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 66;8 N jcn_only_AA CUFF.921 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 313;48 K alternative_first_exon CUFF.907 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25170289-25170683 chr22:25165638-25165726 44;3 K intron_retention CUFF.925 chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 19;49 K alternative_donor CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 41;80 K intron_retention CUFF.870 chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 21;200 N jcn_only_AD CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 13;5 K alternative_last_exon CUFF.862 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303634-14308204 chr20:14309547-14309973 101;66 N alternative_acceptor CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 121;105 N jcn_only_AD CUFF.861,CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 14;4 N cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 26;271 K cassette CUFF.868 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 41;10 K jcn_only_AA CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 16;43 N alternative_donor CUFF.872 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 0;15 N alternative_acceptor CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 10;87 N jcn_only_AA CUFF.872 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 36;41 K cassette CUFF.870 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 326;275 K cassette CUFF.873 chr20 + chr20:33114149-33122431 chr20:33114149-33117655;chr20:33118039-33122431 chr20:33117656-33118038 93;30 K jcn_only_AD CUFF.869 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 15;16 N alternative_acceptor CUFF.872 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 2;41 K alternative_last_exon CUFF.872 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052579-31052920 83;90 N jcn_only_AD CUFF.872 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 15;15 K intron_retention CUFF.860 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 58;132 N alternative_donor CUFF.876 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 5;13 K intron_retention CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 121;57 K intron_retention CUFF.860 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 44;11 N jcn_only_AA chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;11 K jcn_only_AD CUFF.860 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 26;56 N jcn_only_AD CUFF.870 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 241;49 K alternative_last_exon CUFF.879 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570177 5;28 N jcn_only_AA chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 6;5 N cassette CUFF.870 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 19;588 K alternative_first_exon CUFF.867 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21283857-21284111 chr20:21284367-21284485 5;28 N alternative_donor CUFF.861,CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 19;7 N alternative_donor chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 15;0 N alternative_acceptor CUFF.872 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 42;1 K jcn_only_AA CUFF.870,CUFF.879 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 340;7 N alternative_donor CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246905-34252681 chr20:34252682-34252800 chr20:34252800-34252801 16;3 K intron_retention CUFF.876 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 190;116 N coord_cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136768-30136917;chr20:30137010-30137135 26;183 K jcn_only_AD CUFF.878 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 43;20 N alternative_acceptor chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 64;27 K coord_cassette CUFF.860 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 19;20 N alternative_donor CUFF.862,CUFF.878 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 13;1 K jcn_only_AA CUFF.860 chr20 + chr20:2842351-2843710 chr20:2842351-2842450 26;58 K jcn_only_AD CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 41;120 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 651;34 N alternative_acceptor chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 6;0 N jcn_only_AD CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246905-34252681 chr20:34252682-34252800 chr20:34252800-34252801 16;1 N cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137866 chr20:30136768-30136917 26;174 K cassette CUFF.867 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 18;20 N alternative_acceptor CUFF.870 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 chr20:16729908-16730119 23;32 N cassette CUFF.870 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 118;297 K alternative_donor CUFF.878 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 43;12 N alternative_donor CUFF.859,CUFF.869 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 29;98 N alternative_donor CUFF.876 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 303;76 K cassette CUFF.868 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 24;48 N alternative_acceptor CUFF.872 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 42;1 K alternative_donor CUFF.873 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 65;72 K alternative_acceptor CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 16;20 N jcn_only_AD chr20 - chr20:61982380-61987308;chr20:61982380-61986847 chr20:61982380-62005232 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 9;10 K jcn_only_AD CUFF.873 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 65;54 K coord_cassette CUFF.868 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 24;10 N jcn_only_AD CUFF.876 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 303;123 N jcn_only_AA CUFF.872 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 57;20 N jcn_only_AD CUFF.872 chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 24;6 N jcn_only_AA CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 121;160 N jcn_only_AD CUFF.859,CUFF.869 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 29;64 K intron_retention CUFF.870 chr20 + chr20:30126065-30132749 chr20:30126064-30126065;chr20:30132749-30132750 162;30 N jcn_only_AA CUFF.870 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 chr20:16729908-16730119 23;885 N jcn_only_AA CUFF.872 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 62;15 K alternative_first_exon CUFF.869 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011728 20;21 N alternative_donor CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 17;9 N alternative_acceptor chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;0 K alternative_donor CUFF.869 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 15;8 K jcn_only_AD CUFF.870 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 340;21 N jcn_only_AD CUFF.876 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 5;13 K alternative_acceptor CUFF.870,CUFF.879 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 340;94 N jcn_only_AA CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 10;62 K alternative_first_exon CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135407-30135409 chr20:30135461-30135495 10;9 N coord_cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 26;222 N cassette CUFF.870 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 15;165 K cassette CUFF.870 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 234;56 K intron_retention CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 10;44 N alternative_donor CUFF.872 chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 15;0 N intron_retention chr20 + chr20:30126163-30132749 chr20:30126162-30126163;chr20:30132749-30132750 90;3 K alternative_first_exon CUFF.872 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071411 28;84 K alternative_last_exon CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170992-3171465 chr20:3171836-3171884 61;58 N jcn_only_AD CUFF.862,CUFF.878 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 13;2 N alternative_donor CUFF.870 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 241;17 N alternative_donor chr20 - chr20:61982380-61987308;chr20:61982380-61986847 chr20:61982380-62005232 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 16;10 N jcn_only_AA chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 64;54 N jcn_only_AD chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 21;9 K intron_retention CUFF.861 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 73;18 N intron_retention CUFF.876 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 160;48 N jcn_only_AD CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 104;67 N cassette CUFF.883 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 4;10 N cassette CUFF.896 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 25;136 K jcn_only_AD CUFF.887,CUFF.891 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 97;26 N jcn_only_AA CUFF.883 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 15;2 N jcn_only_AA CUFF.896 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 103;6 K jcn_only_AA CUFF.896 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 157;72 K alternative_acceptor CUFF.892 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 3;3 N alternative_donor CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 70;67 K jcn_only_AA CUFF.892 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 3;6 K alternative_last_exon CUFF.888 chr21 - chr21:39471433-39492400;chr21:39427076-39492400 chr21:39325309-39492400 chr21:39471371-39471432;chr21:39426314-39427075 chr21:39325124-39325308 116;18 N alternative_first_exon chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 26;7 K intron_retention CUFF.886 chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 56;6 K alternative_last_exon CUFF.888 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39471371-39471432;chr21:39325124-39325308 chr21:39426314-39427075 57;77 N alternative_donor CUFF.883 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 2;1 N alternative_donor CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 100;13 K alternative_acceptor CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 100;17 K alternative_last_exon CUFF.888 chr21 - chr21:39427076-39492400;chr21:39325309-39492400 chr21:39471433-39492400 chr21:39426314-39427075;chr21:39325124-39325308 chr21:39471371-39471432 95;39 N jcn_only_AD CUFF.883 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 2;3 N jcn_only_AD CUFF.887,CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 71;99 K cassette CUFF.887 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 43;29 N alternative_last_exon chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 3;38 N alternative_donor CUFF.887,CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 70;67 K intron_retention chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 13;35 N alternative_acceptor CUFF.883 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 15;0 K jcn_only_AA CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 100;16 N jcn_only_AD CUFF.894 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 12;9 N alternative_donor CUFF.894 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 12;0 N cassette CUFF.896 chr21 - chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558967-47565330 chr21:47558794-47558966 16;73 N intron_retention chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 4;11 N alternative_donor CUFF.883 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 3;1 K alternative_last_exon CUFF.883 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15678017-15678163 chr21:15671759-15673717 13;48 K cassette CUFF.890 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 10;36 N alternative_donor CUFF.896 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 134;3 K alternative_acceptor CUFF.896 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 157;37 N alternative_donor CUFF.883 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 18;7 N jcn_only_AD CUFF.883 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 15;2 K cassette CUFF.887 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 58;53 N alternative_acceptor CUFF.896 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 103;3 N jcn_only_AD CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 100;34 N alternative_last_exon CUFF.891 chr21 - chr21:40978275-40981509;chr21:40969917-40981509 chr21:40977930-40981509 chr21:40969074-40969916 chr21:40977520-40977929 chr21:40981510-40981592 88;523 N alternative_donor CUFF.883 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 12;7 N jcn_only_AD CUFF.883 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 18;3 N alternative_donor CUFF.883 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 15;0 K alternative_first_exon CUFF.896 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47570033-47570164 chr21:47566705-47566886 95;33 N jcn_only_AD CUFF.896 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 166;4 N jcn_only_AD CUFF.883 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 3;44 N jcn_only_AA chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 32;13 N intron_retention chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 32;40 K alternative_last_exon CUFF.886 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981803-15981889 chr21:15984826-15984966 32;42 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 2;6 N alternative_acceptor chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 32;58 N jcn_only_AD CUFF.883 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 12;50 K alternative_last_exon CUFF.1234 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640423 chr7:93629609-93629684 11;19 N jcn_only_AA CUFF.1232 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 54;768 K alternative_acceptor CUFF.1204 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 13;78 N cassette CUFF.1230 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 chr7:86574215-86574362 23;654 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117511775;chr7:117514055-117514277 chr7:117512158-117512306 117;23 N coord_cassette CUFF.1222 chr7 + chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925 chr7:73101329-73101425;chr7:73105246-73105342 111;447 K alternative_first_exon CUFF.1200 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815305-16815509 7;21 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 14;160 N jcn_only_AA CUFF.1195 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 122;8 K intron_retention CUFF.1197 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 15;88 N cassette CUFF.1206 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 28;31 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 32;51 K intron_retention CUFF.1222 chr7 + chr7:73106977-73111934 chr7:73106976-73106977;chr7:73111934-73111935 37;64 N alternative_acceptor CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 437;14 N alternative_donor CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 10;73 N alternative_donor chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 24;169 K alternative_acceptor CUFF.1202 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 201;30 N alternative_donor CUFF.1230,CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 79;1 N alternative_donor CUFF.1255 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 77;8 K alternative_last_exon CUFF.1193 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197130 87;8 K cassette CUFF.1241 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 72;299 K intron_retention CUFF.1249 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 115;293 N jcn_only_AD CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 46;73 K intron_retention CUFF.1241 chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 22;36 N alternative_acceptor CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 29;27 N jcn_only_AA CUFF.1230 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 chr7:86542257-86542520;chr7:86541388-86541487 7;128 N jcn_only_AD CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 chr7:86569326-86569431;chr7:86571334-86571420 39;12 N jcn_only_AD CUFF.1230,CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 79;7 N alternative_donor CUFF.1248 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 4;2 K alternative_first_exon CUFF.1216 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54612315-54612481 chr7:54613801-54613909 122;172 K cassette CUFF.1254 chr7 + chr7:136554166-136676933 chr7:136554166-136635749;chr7:136635828-136676933 chr7:136635750-136635827 42;16 K alternative_first_exon CUFF.1254 chr7 + chr7:136553921-136554007;chr7:136553740-136554007 chr7:136553865-136554007 chr7:136553416-136553739 chr7:136553759-136553864 85;134 K intron_retention CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 14;60 N alternative_donor CUFF.1238 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 181;0 K intron_retention CUFF.1262 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 9;21 N cassette CUFF.1241 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 22;260 N jcn_only_AA CUFF.1197,CUFF.1226 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 11;11 K jcn_only_AA CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 260;52 N jcn_only_AD CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 278;28 K alternative_last_exon CUFF.1244 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603556-110603621 chr7:111123481-111123784 10;87 N intron_retention chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 77;6 N alternative_acceptor CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 79;1 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 44;33 K intron_retention CUFF.1208 chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 399;4 K cassette CUFF.1250 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 2;30 K intron_retention chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 285;20 N alternative_donor CUFF.1244 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 13;0 K alternative_last_exon CUFF.1257 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150831487-150831655 chr7:150828159-150828368 111;55 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54621559;chr7:54617864-54618445 chr7:54617864-54636823,chr7:54617864-54636701 chr7:54621560-54621619;chr7:54618446-54620224 chr7:54636824-54638776 68;131 N jcn_only_AA CUFF.1262 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 185;19 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 32;11 N cassette CUFF.1228 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 9;119 K intron_retention CUFF.1222 chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 132;54 N cassette CUFF.1238 chr7 - chr7:102462651-102495223 chr7:102462651-102462829;chr7:102462888-102495223 chr7:102462830-102462887 14;75 N alternative_donor chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 3;83 K cassette CUFF.1237 chr7 - chr7:102240836-102246304 chr7:102240836-102242770;chr7:102242853-102246304 chr7:102242771-102242852 2;13 K jcn_only_AA CUFF.1241 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 18;73 N alternative_acceptor CUFF.1201 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 87;3 N alternative_donor chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 4;185 K cassette CUFF.1222 chr7 + chr7:73108381-73111934 chr7:73108381-73111795;chr7:73111847-73111934 chr7:73111796-73111846 705;10 N alternative_acceptor chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 17;18 N coord_cassette CUFF.1226 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75043917;chr7:75044077-75044162 chr7:75040938-75041042;chr7:75042067-75042210;chr7:75043918-75044076 44;36 N jcn_only_AA CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 chr7:86541388-86541561;chr7:86539128-86539317 106;39 K alternative_donor CUFF.1233 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 10;29 N alternative_acceptor CUFF.1198 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 115;0 N jcn_only_AD CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 chr7:86539128-86539317;chr7:86541388-86541561 106;49 N alternative_acceptor CUFF.1232 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 54;78 N cassette CUFF.1219 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 11;2 K jcn_only_AA CUFF.1232 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 70;129 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38948865;chr7:38971878-38972085 chr7:38969072-38969236 87;38 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 47;219 N coord_cassette CUFF.1219 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 57;3 N jcn_only_AA CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 79;9 K alternative_last_exon CUFF.1225 chr7 - chr7:74953399-74982536 chr7:74981241-74982536 chr7:74953338-74953398 chr7:74981057-74981240 5;1 N jcn_only_AD CUFF.1262 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 306;18 K jcn_only_AD CUFF.1232 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 10;132 N alternative_donor CUFF.1238,CUFF.1244 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 13;0 N jcn_only_AD chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 28;34 K alternative_acceptor CUFF.1232 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 70;108 K cassette CUFF.1248 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 194;32 N alternative_first_exon CUFF.1219 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579591-65579957 chr7:65599267-65599361 18;66 N jcn_only_AD CUFF.1199,CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 66;6 K intron_retention CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 437;10 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 10;105 K intron_retention CUFF.1239 chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 195;84 N cassette CUFF.1226 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 25;53 N alternative_donor CUFF.1217,CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 84;2 N jcn_only_AD CUFF.1237 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 43;19 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 30;18 N alternative_donor CUFF.1208 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 2;0 N mutually_exclusive CUFF.1237 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 4;10 N jcn_only_AA CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 49;10 K alternative_first_exon CUFF.1257 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815592-150815719 chr7:150816255-150816341 183;10 N cassette CUFF.1219 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 57;15 N jcn_only_AA CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 278;23 N mutually_exclusive CUFF.1222 chr7 + chr7:73101231-73105245,chr7:73105343-73106925 chr7:73101231-73101328,chr7:73101426-73106925 chr7:73105246-73105342 chr7:73101329-73101425 8;36 N jcn_only_AA CUFF.1238 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 39;187 N cassette CUFF.1244 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 55;74 K alternative_first_exon CUFF.1199 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604020 14;9 N cassette CUFF.1238 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 14;106 N alternative_donor chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 5;2 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 25;13 K coord_cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845 chr7:44250441-44250530;chr7:44250622-44250723 81;21 K jcn_only_AD CUFF.1253 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 7;46 N jcn_only_AA CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 53;21 K intron_retention CUFF.1226 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 30;53 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 23;4 N alternative_acceptor CUFF.1262 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 185;1 N jcn_only_AD CUFF.1219 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 132;15 K cassette CUFF.1238 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 12;365 N jcn_only_AD CUFF.1237 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 52;9 K alternative_first_exon CUFF.1211,CUFF.1248 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 32;6 K alternative_donor CUFF.1253 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 7;48 K cassette CUFF.1262 chr7 - chr7:156626487-156629506 chr7:156626487-156627171;chr7:156627270-156629506 chr7:156627172-156627269 207;81 N alternative_acceptor CUFF.1230 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 chr7:86544039-86544176;chr7:86542257-86542381 3;135 K cassette CUFF.1248 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 109;16 N jcn_only_AD CUFF.1262 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 202;122 K alternative_first_exon CUFF.1222 chr7 + chr7:73098232-73100965,chr7:73098254-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098331-73100965 chr7:73097355-73097713 chr7:73098097-73098134 107;592 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 14;277 K jcn_only_AD CUFF.1233 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 10;29 K alternative_last_exon CUFF.1262 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589083-156589186 chr7:156616563-156616617 144;23 K alternative_first_exon CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100818093-100822377 chr7:100823323-100823557 chr7:100822378-100822516 72;31 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 89;505 N jcn_only_AA CUFF.1230 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 chr7:86544039-86544176;chr7:86542257-86542381 3;156 N jcn_only_AA CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 152;34 N coord_cassette CUFF.1222 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 37;236 K alternative_first_exon CUFF.1193 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:192969-193804 chr7:195186-195327 38;52 N jcn_only_AD chr7 - chr7:117424509-117431344;chr7:117424509-117426439 chr7:117424509-117431181 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 5;6 K alternative_acceptor CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 260;39 N cassette CUFF.1255 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 34;29 N cassette CUFF.1222 chr7 + chr7:73108000-73111934 chr7:73108000-73108321;chr7:73108381-73111934 chr7:73108322-73108380 88;694 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 43;37 N alternative_acceptor CUFF.1230 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 chr7:86542257-86542520;chr7:86541388-86541487 7;111 N alternative_acceptor CUFF.1216 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 15;41 N cassette CUFF.1208 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 43;55 N alternative_donor CUFF.1238 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 307;0 K cassette CUFF.1257 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 5;21 N jcn_only_AA CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 146;98 N cassette CUFF.1250 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 11;3 N jcn_only_AD CUFF.1237,CUFF.1262 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 326;68 N jcn_only_AA CUFF.1201 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 87;5 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54621559;chr7:54617864-54636823,chr7:54617864-54636701 chr7:54617864-54618445 chr7:54621560-54621619;chr7:54636824-54638776 chr7:54618446-54620224 142;57 K cassette CUFF.1215 chr7 + chr7:44247798-44250621 chr7:44247798-44250440;chr7:44250531-44250621 chr7:44250441-44250530 17;34 K jcn_only_AD CUFF.1197 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 36;15 N jcn_only_AA CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 49;13 N alternative_acceptor chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 4;47 N alternative_donor CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 152;26 N intron_retention chr7 + chr7:75042211-75044162 chr7:75042210-75042211;chr7:75044162-75044163 25;31 K coord_cassette CUFF.1222 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 37;630 K jcn_only_AD CUFF.1251 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 171;138 N alternative_donor CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 25;0 N alternative_acceptor CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 278;8 N alternative_first_exon CUFF.1266 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647221-157647567 chr7:157649982-157650240 55;108 N intron_retention chr7 - chr7:73118587-73118679 chr7:73118586-73118587;chr7:73118679-73118680 2;63 N intron_retention CUFF.1241 chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 76;6 K alternative_first_exon CUFF.1238 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715344 chr7:102714693-102715062 269;97 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 7;38 N intron_retention chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 16;20 N alternative_acceptor CUFF.1255 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 30;20 K cassette CUFF.1223 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 38;102 N coord_cassette CUFF.1232 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 5;54 N cassette CUFF.1206 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 28;47 K alternative_first_exon CUFF.1198 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222166-7222451 8;122 N cassette CUFF.1222 chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925 chr7:73105246-73105342 154;532 K intron_retention CUFF.1257 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 256;17 N jcn_only_AD CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 86;2 K intron_retention CUFF.1232 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 55;30 N alternative_acceptor CUFF.1197,CUFF.1226 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 11;6 N alternative_acceptor CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 66;0 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117512158-117512306;chr7:117514055-117514277 chr7:117511644-117511775 70;70 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 139;185 N alternative_donor chr7 - chr7:110603622-111030626;chr7:110603622-111031893 chr7:110603622-111127293 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 0;13 N jcn_only_AA chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 17;145 K intron_retention CUFF.1243 chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 43;66 K intron_retention CUFF.1226 chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 4;224 K cassette CUFF.1213 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 104;71 N alternative_donor CUFF.1262 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 189;0 K intron_retention CUFF.1222 chr7 + chr7:73111847-73111934 chr7:73111846-73111847;chr7:73111934-73111935 9;6 N jcn_only_AA CUFF.1255 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 30;56 N jcn_only_AA chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 2;3 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129017465-129019481 chr7:129008393-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 47;4 N alternative_acceptor CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 288;12 K jcn_only_AA CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 14;291 K intron_retention CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 260;31 N cassette CUFF.1257 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 55;190 K coord_cassette CUFF.1215 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 81;41 N coord_cassette CUFF.1255 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 45;33 N alternative_acceptor CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 25;0 K intron_retention CUFF.1215 chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 34;15 K intron_retention CUFF.1243 chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 58;9 N jcn_only_AD chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 24;160 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 86;18 N alternative_donor CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 278;1 N jcn_only_AD CUFF.1244 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 18;20 N alternative_acceptor CUFF.1262 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 187;0 N jcn_only_AD CUFF.1208 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 2;7 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 20;31 N jcn_only_AD CUFF.1238 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 181;9 N alternative_donor CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 46;39 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 89;249 K alternative_first_exon CUFF.1241 chr7 + chr7:107221023-107221203,chr7:107221091-107221203;chr7:107220747-107221203 chr7:107220812-107221203 chr7:107220422-107220746 chr7:107220772-107220811 199;18 N jcn_only_AA CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 288;20 N alternative_acceptor CUFF.1234 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 16;157 N alternative_acceptor chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 2;0 K intron_retention chr7 + chr7:75042211-75043917 chr7:75042210-75042211;chr7:75043917-75043918 35;13 N jcn_only_AD CUFF.1241 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 86;34 N alternative_donor CUFF.1237 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 42;0 N alternative_donor CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 chr7:86569326-86569431;chr7:86571334-86571420 39;2 N jcn_only_AD CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 194;32 K cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 81;18 K cassette CUFF.1204 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 222;12 N alternative_donor CUFF.1237,CUFF.1262 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 326;34 K cassette CUFF.1226 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 181;99 N cassette CUFF.1206 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 28;47 K cassette CUFF.1239 chr7 + chr7:107211712-107215632 chr7:107211712-107214148;chr7:107214267-107215632 chr7:107214149-107214266 240;33 N intron_retention chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 34;56 N jcn_only_AD CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 25;16 K cassette CUFF.1238 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 26;119 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38971878-38972085;chr7:38969072-38969236 chr7:38948754-38948865 66;59 K intron_retention CUFF.1257 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 17;14 K intron_retention CUFF.1241 chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 72;5 N jcn_only_AA CUFF.1256 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 20;40 N jcn_only_AA CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 25;16 K alternative_acceptor CUFF.1241 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 18;86 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 47;40 N alternative_acceptor CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 152;0 N jcn_only_AA CUFF.1198 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 115;27 N alternative_donor CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 chr7:86539128-86539317;chr7:86541388-86541561 106;20 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 37;9 N cassette CUFF.1222 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 121;511 K jcn_only_AD CUFF.1222 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 352;360 K cassette CUFF.1238 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 77;273 K alternative_donor CUFF.1222 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 352;226 N alternative_acceptor CUFF.1262 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 36;20 N alternative_donor CUFF.1199,CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 66;0 N jcn_only_AA CUFF.1262 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 22;40 K cassette CUFF.1206 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 70;15 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 14;97 K cassette CUFF.1213 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 57;55 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 8;34 N coord_cassette CUFF.1262 chr7 - chr7:156626487-156685621 chr7:156626487-156627171;chr7:156627270-156629506;chr7:156629580-156685621 chr7:156627172-156627269;chr7:156629507-156629579 46;74 K intron_retention CUFF.1226 chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 148;64 K mutually_exclusive CUFF.1238 chr7 - chr7:102669866-102695534,chr7:102695626-102696090 chr7:102669866-102687255,chr7:102687468-102696090 chr7:102695535-102695625 chr7:102687256-102687467 273;32 N jcn_only_AD CUFF.1232 chr7 + chr7:91670213-91671981 chr7:91671501-91671981 240;2 N jcn_only_AD CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 48;40 N cassette CUFF.1213 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 107;114 N jcn_only_AD CUFF.1248,CUFF.1262 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 8;3 N jcn_only_AA CUFF.1262 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 187;36 N cassette CUFF.1262 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 46;223 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 43;24 K cassette CUFF.1230 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 chr7:86577043-86577238;chr7:86688641-86689015 18;258 K cassette CUFF.1249 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 38;400 K coord_cassette CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 48;17 N jcn_only_AA CUFF.1237 chr7 - chr7:102228218-102232731 chr7:102230744-102232731 2;17 N alternative_donor CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 53;0 N jcn_only_AD chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 62;83 N alternative_donor CUFF.1213 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 41;11 N jcn_only_AA CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 437;13 N jcn_only_AA chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 4;94 N alternative_acceptor CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 53;5 K cassette CUFF.1266 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 154;37 K jcn_only_AD CUFF.1208 chr7 - chr7:36901342-36934613 chr7:36901342-36909997 399;60 N alternative_acceptor CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 49;0 N alternative_donor CUFF.1241 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 74;9 N jcn_only_AD CUFF.1202 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 26;6 N jcn_only_AD CUFF.1238 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 307;6 K intron_retention CUFF.1222 chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 14;12 N alternative_acceptor CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 98;123 N jcn_only_AD CUFF.1213 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 318;31 N alternative_acceptor CUFF.1249 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 136;351 N jcn_only_AA CUFF.1234 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 16;285 N alternative_donor CUFF.1237 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 34;8 K alternative_first_exon CUFF.1202,CUFF.1211 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22259485-22259610 chr7:22234188-22234402 96;93 K intron_retention CUFF.1262 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 10;23 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 80;24 K jcn_only_AA CUFF.1204 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 13;158 N jcn_only_AA CUFF.1235 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 9;191 N jcn_only_AA CUFF.1216 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 15;84 N alternative_donor chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 6;1 N alternative_donor CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 85;1 N alternative_donor CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 82;1 K cassette CUFF.1238 chr7 - chr7:102669866-102696090 chr7:102669866-102687255;chr7:102687468-102696090 chr7:102687256-102687467 77;31 K intron_retention CUFF.1215 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 17;21 K intron_retention CUFF.1251 chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 138;8 N jcn_only_AD CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 126;20 N alternative_acceptor CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 47;9 N jcn_only_AD CUFF.1213 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 41;18 N jcn_only_AA CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 98;18 K intron_retention CUFF.1241 chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 382;30 N alternative_donor chr7 - chr7:117424509-117431344;chr7:117424509-117426439 chr7:117424509-117431181 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 2;4 N cassette CUFF.1213 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 13;274 N jcn_only_AD CUFF.1255 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 77;8 N jcn_only_AD CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 288;22 N jcn_only_AA CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 chr7:86571334-86571420;chr7:86569326-86569431 39;11 K intron_retention CUFF.1248 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 175;8 K alternative_last_exon CUFF.1241 chr7 + chr7:107253878-107254098,chr7:107253878-107256705,chr7:107253878-107269266;chr7:107253878-107262074,chr7:107253878-107258772 chr7:107253878-107255690 chr7:107262075-107262315 chr7:107255691-107255736 148;21 N alternative_donor CUFF.1202 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 26;3 N alternative_donor CUFF.1208 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 17;57 K intron_retention CUFF.1216 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 57;16 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 5;6 K intron_retention CUFF.1239 chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 39;28 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54618445;chr7:54617864-54636823,chr7:54617864-54636701 chr7:54617864-54621559 chr7:54618446-54620224;chr7:54636824-54638776 chr7:54621560-54621619 188;11 K intron_retention CUFF.1233 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 6;6 K alternative_first_exon CUFF.1239 chr7 + chr7:107204693-107205032,chr7:107204655-107205032;chr7:107204192-107205032 chr7:107204505-107205032 chr7:107203929-107204191 chr7:107204336-107204504 50;148 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 42;62 K intron_retention CUFF.1226 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 56;39 N intron_retention CUFF.1215 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 10;35 N alternative_donor CUFF.1262 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 185;4 K coord_cassette CUFF.1254 chr7 + chr7:136554166-136699566 chr7:136554166-136635749;chr7:136635828-136676933;chr7:136677012-136699566 chr7:136635750-136635827;chr7:136676934-136677011 108;19 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 16;22 K cassette CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 48;12 K intron_retention CUFF.1215 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 50;18 K cassette CUFF.1215 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 23;57 K intron_retention CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 146;20 N cassette CUFF.1262 chr7 - chr7:156619439-156685621 chr7:156619439-156626432;chr7:156626487-156685621 chr7:156626433-156626486 27;77 K cassette CUFF.1235 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 59;78 K alternative_first_exon CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617527-54617863 chr7:54621691-54621766 338;9 N coord_cassette CUFF.1226 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 44;19 N alternative_acceptor CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 chr7:86541388-86541561;chr7:86539128-86539317 106;4 N jcn_only_AD CUFF.1238,CUFF.1244 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 34;5 K alternative_first_exon CUFF.1208 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 109;5 K cassette CUFF.1254 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 108;56 N intron_retention CUFF.1222 chr7 + chr7:73108381-73110735 chr7:73108380-73108381;chr7:73110735-73110736 14;12 N jcn_only_AA CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 66;12 K alternative_last_exon CUFF.1232 chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 16;164 N cassette CUFF.1232 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 22;7 N alternative_acceptor CUFF.1195 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 122;12 N alternative_acceptor CUFF.1235 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 9;3 K jcn_only_AA CUFF.1226 chr7 + chr7:75039744-75044162 chr7:75039744-75039888 104;45 N coord_cassette CUFF.1225 chr7 - chr7:74981241-74984789 chr7:74981241-74982536;chr7:74982650-74982811;chr7:74982903-74984789 chr7:74982537-74982649;chr7:74982812-74982902 31;10 K alternative_first_exon CUFF.1199,CUFF.1217 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 9;7 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 18;30 N jcn_only_AA CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 53;9 N jcn_only_AA CUFF.1249 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 136;402 K intron_retention CUFF.1222 chr7 + chr7:73108381-73111934 chr7:73108380-73108381;chr7:73111934-73111935 705;12 K alternative_acceptor CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 14;183 N jcn_only_AD CUFF.1217,CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 103;43 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38948865;chr7:38969072-38969236 chr7:38971878-38972085 97;28 N mutually_exclusive CUFF.1230 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 chr7:86574215-86574362;chr7:86688641-86689015 2;21 N alternative_donor CUFF.1219 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 39;46 K intron_retention CUFF.1262 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 17;38 N alternative_acceptor CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 146;56 N jcn_only_AD CUFF.1238 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 221;11 K alternative_first_exon CUFF.1244 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202520-111202639 chr7:111202500-111202519 65;10 K alternative_first_exon CUFF.1251 chr7 + chr7:129015768-129019478,chr7:128991503-129019478;chr7:128865281-129019478 chr7:129008393-129019478 chr7:128864864-128865280 chr7:129007889-129008392 93;118 K intron_retention CUFF.1222 chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 697;187 K intron_retention CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 98;19 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 67;39 K cassette CUFF.1197 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 26;9 N jcn_only_AD CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 53;13 N alternative_acceptor CUFF.1202 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 chr7:22357657-22396230 chr7:22357656-22357657 17;3 N alternative_donor CUFF.1248,CUFF.1262 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 6;0 K alternative_first_exon CUFF.1208 chr7 - chr7:36934623-37024519;chr7:36934623-37052903 chr7:36934623-37025527 chr7:37052904-37053040 chr7:37025528-37025826 75;419 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117511775;chr7:117512158-117512306 chr7:117514055-117514277 93;47 N coord_cassette CUFF.1257 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 55;86 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 48;0 N alternative_donor CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 288;4 N jcn_only_AD chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 36;15 K alternative_first_exon CUFF.1208,CUFF.1248 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117450819-117451043 chr7:117433467-117433563 180;32 N jcn_only_AA CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 194;39 N intron_retention CUFF.1257 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 98;13 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 13;7 K coord_cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 81;39 K alternative_first_exon CUFF.1257 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879,chr7:150787635-150813879;chr7:150783148-150813879 chr7:150809332-150813879 chr7:150782843-150783147 chr7:150809210-150809331 286;28 N alternative_donor CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 85;0 N jcn_only_AA CUFF.1202 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 chr7:22357657-22396230 chr7:22357656-22357657 17;130 N cassette CUFF.1243 chr7 - chr7:107642179-107643293 chr7:107642179-107642571;chr7:107642830-107643293 chr7:107642572-107642829 30;23 N cassette CUFF.1237 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 8;42 K alternative_first_exon CUFF.1199,CUFF.1248 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594787-7594820 chr7:7594319-7594463 14;46 K alternative_last_exon CUFF.1201 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152670-19152763 35;32 N alternative_acceptor CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 194;2 N jcn_only_AD CUFF.1248 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 9;2 N jcn_only_AD CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 152;16 N alternative_donor CUFF.1219 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 132;1 N alternative_donor CUFF.1238 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 221;0 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 33;30 N alternative_donor chr7 + chr7:129015768-129019481;chr7:129017465-129019481 chr7:129008393-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 3;4 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 6;64 N cassette CUFF.1257 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 94;179 N alternative_donor CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 194;0 N alternative_donor CUFF.1213 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 318;0 N jcn_only_AD CUFF.1208 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 17;31 N jcn_only_AD CUFF.1219 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 42;46 N cassette CUFF.1238 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 16;165 N cassette CUFF.1208 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 25;154 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 13;33 N alternative_acceptor CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 chr7:86571334-86571420;chr7:86569326-86569431 39;1 N jcn_only_AD CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 106;13 K jcn_only_AA CUFF.1202 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 201;15 N coord_cassette CUFF.1152 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 14;36 N alternative_acceptor CUFF.1175 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 52;0 N alternative_acceptor CUFF.1157 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 18;133 K intron_retention CUFF.1146 chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 11;108 K intron_retention CUFF.1142 chr6 + chr6:31936867-31937056 chr6:31936866-31936867;chr6:31937056-31937057 334;54 N alternative_acceptor CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 60;0 N jcn_only_AD CUFF.1188 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161413116-161443259 chr6:161413115-161413116 2;28 K intron_retention CUFF.1144 chr6 - chr6:31937802-31937885 chr6:31937801-31937802;chr6:31937885-31937886 400;18 N jcn_only_AD chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 161;11 K alternative_first_exon CUFF.1136 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109666-28109807 chr6:28109907-28110041 4;28 K alternative_acceptor CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 264;97 N alternative_donor CUFF.1174 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 11;31 K cassette CUFF.1173 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 24;22 K intron_retention CUFF.1142 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 11;122 N jcn_only_AD chr6 + chr6:112375365-112375537 chr6:112375374-112375537 60;8 N jcn_only_AD CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 97;70 N alternative_acceptor CUFF.1157 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 168;14 K intron_retention CUFF.1144 chr6 - chr6:31939459-31939705 chr6:31939458-31939459;chr6:31939705-31939706 46;120 N alternative_acceptor CUFF.1157 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 111;71 K alternative_first_exon CUFF.1144 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31939872 chr6:31939097-31939462 117;341 K alternative_donor CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 113;32 N jcn_only_AA CUFF.1146,CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 128;37 K alternative_acceptor CUFF.1177 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 40;90 N jcn_only_AA CUFF.1157 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 134;86 K jcn_only_AD CUFF.1185 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 10;18 K intron_retention ENSG00000227455.2 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 59;3 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 6;24 N jcn_only_AD chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 86;15 K intron_retention CUFF.1157 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 204;78 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 32;29 K alternative_first_exon CUFF.1149 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812549-32812647;chr6:32811870-32812051 chr6:32821895-32822066 37;51 N alternative_donor CUFF.1158 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 16;1 K jcn_only_AD CUFF.1136 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 6;45 N jcn_only_AA CUFF.1175 chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 41;51 N jcn_only_AA CUFF.1157 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 206;14 N jcn_only_AD CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 13;11 K intron_retention CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 113;19 K alternative_first_exon CUFF.1127 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291556-291700 chr6:292306-292560 52;625 K intron_retention chr6 + chr6:31928872-31928972 chr6:31928871-31928872;chr6:31928972-31928973 10;9 N jcn_only_AA CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 331;22 K alternative_first_exon CUFF.1138 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29942889-29943294 chr6:29945182-29945280 83;18 K intron_retention CUFF.1150 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 328;72 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122024-32122363 chr6:32121973-32122023 44;7 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123464;chr6:32122555-32123544 chr6:32122555-32122806 140;183 K alternative_acceptor CUFF.1158,CUFF.1169 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 55;61 N intron_retention chr6 - chr6:30711974-30712085 chr6:30711973-30711974;chr6:30712085-30712086 10;15 N mutually_exclusive CUFF.1177 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 20;25 K intron_retention CUFF.1132 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 16;19 K alternative_acceptor CUFF.1146 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 12;73 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 199;128 N jcn_only_AA CUFF.1171 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 160;40 K jcn_only_AA CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 37;261 K cassette CUFF.1163 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 13;221 N alternative_acceptor CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 5;55 K intron_retention CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 331;8 N alternative_acceptor chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 28;8 K intron_retention CUFF.1144 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 322;41 K jcn_only_AA CUFF.1146 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 5;69 N alternative_acceptor CUFF.1188 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 78;0 N alternative_acceptor CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 132;28 N alternative_donor CUFF.1175 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 63;5 K alternative_last_exon CUFF.1132 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5240759-5240956;chr6:5102827-5109725 chr6:5216851-5216971 66;58 N jcn_only_AD CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 393;50 N coord_cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311915-345853 chr6:304628-304661;chr6:311880-311914 112;622 N alternative_first_exon CUFF.1156 chr6 - chr6:41491964-41513737,chr6:41491964-41515198;chr6:41491964-41516115 chr6:41491964-41513826 chr6:41516116-41516157 chr6:41513827-41513981 72;65 K intron_retention CUFF.1144 chr6 - chr6:31938925-31939096 chr6:31938924-31938925;chr6:31939096-31939097 261;23 K cassette CUFF.1188 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 79;152 N jcn_only_AA CUFF.1157 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 142;78 K jcn_only_AA CUFF.1190 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 28;69 K cassette CUFF.1183 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 609;323 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 22;8 N jcn_only_AD CUFF.1146 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 192;11 N jcn_only_AD CUFF.1183 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 29;12 N mutually_exclusive CUFF.1163 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 108;4 N jcn_only_AD CUFF.1169 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 102;61 N jcn_only_AD CUFF.1175 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 63;35 K cassette CUFF.1136 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 7;12 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 159;14 N alternative_last_exon CUFF.1175 chr6 - chr6:128563748-128718710 chr6:128643456-128718710 chr6:128563666-128563747 chr6:128642947-128643455 5;145 N jcn_only_AA CUFF.1170 chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 chr6:112664600-112664980;chr6:112668494-112668609 47;17 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122182-32122363 chr6:32121776-32122181 44;197 N alternative_acceptor CUFF.1146,CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 393;57 N jcn_only_AA CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 13;19 K cassette CUFF.1169 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 97;93 N alternative_acceptor CUFF.1175 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 63;0 K alternative_acceptor CUFF.1131 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 18;208 N cassette CUFF.1177 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 37;98 K jcn_only_AA CUFF.1158,CUFF.1169 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 55;26 K cassette CUFF.1158 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 18;116 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 36;16 N alternative_donor CUFF.1144,CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116980088-116981395 chr6:116981396-116981898 chr6:116981898-116981899 28;3 N cassette CUFF.1163 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 118;474 K cassette CUFF.1188 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 30;177 K intron_retention CUFF.1157 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 188;67 N jcn_only_AD CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 197;6 N alternative_donor CUFF.1163 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 254;19 N jcn_only_AD CUFF.1163 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 85;445 K cassette CUFF.1186 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 135;57 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 16;0 N alternative_last_exon CUFF.1142 chr6 + chr6:32125498-32130344 chr6:32125498-32125616 chr6:32130345-32130399 chr6:32125617-32125710 4;201 N jcn_only_AD CUFF.1160 chr6 - chr6:128563748-128718710 chr6:128563748-128643183 7;59 K intron_retention CUFF.1149 chr6 + chr6:32823983-32825781 chr6:32823982-32823983;chr6:32825781-32825782 20;6 K intron_retention CUFF.1144 chr6 - chr6:31938925-31939705 chr6:31938924-31938925;chr6:31939705-31939706 128;54 N cassette CUFF.1167 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 5;327 N intron_retention chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 151;395 N jcn_only_AA CUFF.1144 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 208;119 N alternative_acceptor CUFF.1146,CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 128;31 N alternative_donor chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 34;2 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 17;35 N jcn_only_AA CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 88;8 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 292;35 K alternative_first_exon CUFF.1151 chr6 + chr6:34452922-34494019;chr6:34434048-34494019 chr6:34482846-34494019 chr6:34433916-34434047 chr6:34482606-34482845 71;23 N jcn_only_AD CUFF.1158 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 16;12 K intron_retention CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 187;15 N alternative_donor CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 26;11 N jcn_only_AA CUFF.1174 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 2;13 N jcn_only_AD CUFF.1154 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 6;22 K intron_retention CUFF.1157 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 235;35 K jcn_only_AA CUFF.1188 chr6 + chr6:161413116-161491639 chr6:161413116-161455290 18;2 N alternative_donor CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 13;0 N jcn_only_AA chr6 - chr6:133050119-133055391 chr6:133052667-133055391 91;80 K intron_retention CUFF.1158 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 80;31 N jcn_only_AA CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 26;12 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 44;130 N jcn_only_AA CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 132;39 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 164;8 K alternative_last_exon CUFF.1169 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112382194-112382497 chr6:112375826-112376094 130;68 N alternative_acceptor CUFF.1142 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 290;36 N intron_retention chr6 - chr6:31939503-31939705 chr6:31939502-31939503;chr6:31939705-31939706 119;85 N jcn_only_AA CUFF.1157 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 18;204 N alternative_acceptor CUFF.1175 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 55;5 K alternative_donor CUFF.1186 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 162;27 K intron_retention CUFF.1177 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 44;35 K intron_retention CUFF.1144 chr6 - chr6:31939359-31939705 chr6:31939358-31939359;chr6:31939705-31939706 35;173 K intron_retention CUFF.1142 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 244;61 K cassette CUFF.1149 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 20;85 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 chr6:112557980-112558117 34;29 N cassette CUFF.1190 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 3;22 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 105;17 N alternative_acceptor CUFF.1175 chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 41;8 N alternative_donor CUFF.1188 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161413116-161443259 chr6:161413115-161413116 2;0 K cassette CUFF.1162 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 263;15 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 36;12 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486486;chr6:13486870-13486935 chr6:13472213-13472329 22;11 N alternative_acceptor CUFF.1173 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 4;35 K alternative_last_exon CUFF.1132 chr6 - chr6:5216972-5260880;chr6:5109726-5260880 chr6:5240957-5260880 chr6:5216851-5216971;chr6:5102827-5109725 chr6:5240759-5240956 64;60 K intron_retention CUFF.1146 chr6 + chr6:32122182-32122363 chr6:32122181-32122182;chr6:32122363-32122364 186;21 N jcn_only_AA CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 28;8 N jcn_only_AD CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 128;65 N alternative_acceptor CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 26;49 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 35;17 K alternative_first_exon CUFF.1160 chr6 - chr6:75977465-75982179;chr6:75977465-75994117 chr6:75977465-75993935 chr6:75994118-75994684 chr6:75993936-75994059 20;21 N alternative_donor CUFF.1169 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 102;51 K intron_retention CUFF.1171 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 206;35 N jcn_only_AD CUFF.1144,CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116980088-116981395 chr6:116981396-116981898 chr6:116981898-116981899 28;8 K cassette CUFF.1174 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 73;10 K alternative_acceptor CUFF.1174 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 21;32 N alternative_donor CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 119;18 K jcn_only_AA CUFF.1142 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 36;10 N alternative_acceptor CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 187;9 N alternative_first_exon CUFF.1133 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114292021-114292449 chr6:114291644-114291742 88;64 K cassette CUFF.1175 chr6 - chr6:128718834-128841403 chr6:128718834-128730438;chr6:128730478-128841403 chr6:128730439-128730477 73;98 K alternative_first_exon CUFF.1182 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665153-144665440 8;701 K jcn_only_AD CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 130;43 K alternative_first_exon CUFF.1162 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066019-88066221 chr6:88068843-88068919 348;10 N coord_cassette CUFF.1158 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 11;67 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 29;72 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 15;1 K cassette CUFF.1174 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 112;14 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 117;5 K jcn_only_AD CUFF.1186 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 162;27 K intron_retention CUFF.1157 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 156;53 N intron_retention CUFF.1150 chr6 + chr6:33239900-33240363 chr6:33239899-33239900;chr6:33240363-33240364 39;5 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 92;9 N intron_retention CUFF.1171 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 11;10 K intron_retention CUFF.1142 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 39;16 K jcn_only_AD CUFF.1188 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 28;127 N alternative_acceptor CUFF.1170 chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 chr6:112604378-112604394;chr6:112627531-112627885 29;1 K cassette CUFF.1146 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 47;43 N cassette CUFF.1127 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 136;682 N alternative_donor CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 128;8 N alternative_donor CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 393;10 K intron_retention CUFF.1142 chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 51;13 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472329;chr6:13486870-13486935 chr6:13486243-13486486 17;16 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 21;70 N cassette CUFF.1160 chr6 - chr6:75975055-75994117 chr6:75975055-75977356;chr6:75977465-75994117 chr6:75977357-75977464 5;22 K alternative_donor CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 130;61 N jcn_only_AA CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 187;19 N alternative_donor CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 67;70 N jcn_only_AA CUFF.1170 chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 chr6:112604378-112604394;chr6:112627531-112627885 29;32 N alternative_acceptor CUFF.1174 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 2;1 K intron_retention CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 264;91 N jcn_only_AA CUFF.1175 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 94;29 K intron_retention CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 130;103 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 chr6:112557980-112558117 18;0 N alternative_acceptor CUFF.1171 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 160;3 K intron_retention CUFF.1154 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 16;4 N alternative_acceptor CUFF.1157 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 176;6 K jcn_only_AD CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 113;51 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 8;52 N jcn_only_AD CUFF.1183 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 442;502 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 18;101 K intron_retention CUFF.1142 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 14;52 N jcn_only_AA CUFF.1146,CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 393;21 K alternative_last_exon CUFF.1132 chr6 - chr6:5113652-5216850,chr6:5144497-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5138942-5138973 chr6:5186848-5187214 37;45 N jcn_only_AD CUFF.1127 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 81;7 N alternative_donor CUFF.1183 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 442;77 K intron_retention CUFF.1127 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 290;613 N cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-311879;chr6:311915-345853 chr6:311880-311914 112;69 K alternative_first_exon CUFF.1170 chr6 + chr6:112604730-112627530,chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112557939-112558117 chr6:112604378-112604394 chr6:112627531-112627885 54;26 K alternative_acceptor CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 37;147 K intron_retention CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239899-33239900;chr6:33240404-33240405 132;13 N cassette CUFF.1163 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 15;268 N jcn_only_AD CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 18;186 N alternative_donor CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 3;0 N alternative_acceptor CUFF.1157 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 155;27 N jcn_only_AA CUFF.1142 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 290;45 N jcn_only_AA chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 28;24 N alternative_acceptor CUFF.1157 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 118;64 N alternative_donor chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 1;15 N alternative_donor CUFF.1174 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 88;49 N alternative_first_exon CUFF.1146 chr6 + chr6:32122555-32123544 chr6:32122961-32123544 chr6:32122364-32122554 chr6:32122784-32122960 11;10 K jcn_only_AA CUFF.1131 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 18;287 K alternative_first_exon CUFF.1149 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812549-32812647;chr6:32821895-32822066 chr6:32811870-32812051 70;18 N alternative_donor chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 91;18 N cassette CUFF.1142 chr6 + chr6:31928872-31929323 chr6:31928872-31929117;chr6:31929164-31929323 chr6:31929118-31929163 39;22 N jcn_only_AA CUFF.1175 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 63;34 N cassette CUFF.1174 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 15;168 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 16;0 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 52;0 N jcn_only_AD CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 26;32 K alternative_first_exon CUFF.1188 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 19;76 K alternative_last_exon CUFF.1132 chr6 - chr6:5216972-5260880;chr6:5240957-5260880 chr6:5109726-5260880 chr6:5216851-5216971;chr6:5240759-5240956 chr6:5102827-5109725 118;6 N alternative_donor CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 131;5 N jcn_only_AD chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 91;27 N jcn_only_AD CUFF.1174 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 11;56 K intron_retention CUFF.1183 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 62;43 K alternative_first_exon CUFF.1149 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821895-32822066;chr6:32811870-32812051 chr6:32812549-32812647 69;19 K intron_retention CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938916-31938917;chr6:31939096-31939097 37;30 K alternative_acceptor CUFF.1142 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 36;13 N cassette CUFF.1127 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 684;104 K alternative_acceptor CUFF.1146 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 5;132 N alternative_donor CUFF.1183 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 3;0 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 51;71 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 chr6:112557980-112558117 18;13 N jcn_only_AD CUFF.1174 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 91;76 K jcn_only_AA CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 264;97 N cassette CUFF.1177 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 37;138 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 49;123 N jcn_only_AA CUFF.1175 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 63;24 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 4;111 N jcn_only_AD CUFF.1167 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 279;37 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123464;chr6:32122555-32122806 chr6:32122555-32123544 312;12 K intron_retention CUFF.1144 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 97;51 N alternative_donor CUFF.1146 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 125;11 N jcn_only_AA CUFF.1157 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 213;7 K jcn_only_AA CUFF.1177 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 40;88 K cassette CUFF.1157 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 43;152 N alternative_acceptor CUFF.1170 chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 chr6:112664600-112664980;chr6:112668494-112668609 47;3 K intron_retention CUFF.1149 chr6 + chr6:32825172-32825781 chr6:32825171-32825172;chr6:32825781-32825782 103;5 N jcn_only_AD chr6 - chr6:128540242-128551876;chr6:128540242-128643183 chr6:128540242-128561179 26;63 N jcn_only_AD CUFF.1175 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 55;61 K alternative_donor CUFF.1136 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 6;24 N alternative_donor CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 16;120 N alternative_donor CUFF.1163 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 85;255 N coord_cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 112;701 K jcn_only_AA CUFF.1146 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 12;178 K cassette CUFF.1175 chr6 - chr6:128313855-128316606 chr6:128313855-128316393;chr6:128316412-128316606 chr6:128316394-128316411 68;26 N jcn_only_AD CUFF.1175 chr6 - chr6:128540242-128561179;chr6:128540242-128551876 chr6:128540242-128643183 76;13 K alternative_acceptor CUFF.1190 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 28;34 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486486;chr6:13472213-13472329 chr6:13486870-13486935 27;6 N mutually_exclusive CUFF.1177 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 20;30 K intron_retention CUFF.1177 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 246;6 N cassette CUFF.1177 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 53;113 N jcn_only_AD CUFF.1175 chr6 - chr6:128540242-128561179;chr6:128540242-128643183 chr6:128540242-128551876 76;13 N jcn_only_AD CUFF.1163 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 254;68 K alternative_donor CUFF.1188 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 28;61 N jcn_only_AD CUFF.1146 chr6 + chr6:32125498-32130344 chr6:32125702-32130344 5;213 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 156;16 N jcn_only_AD chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 34;18 N intron_retention chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 60;48 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 18;62 K intron_retention CUFF.1169 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 14;39 N alternative_donor CUFF.1127 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 81;3 N intron_retention chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 65;18 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123544;chr6:32122555-32122806 chr6:32122555-32123464 195;129 N alternative_donor CUFF.1154 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 6;1 K intron_retention CUFF.1188 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 174;37 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 chr6:112557980-112558117 34;0 N cassette CUFF.1163 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 3;235 K intron_retention CUFF.1149 chr6 + chr6:32823983-32825039 chr6:32823982-32823983;chr6:32825039-32825040 82;6 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 21;86 N jcn_only_AD CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 15;26 N cassette CUFF.1152 chr6 - chr6:35478788-35479956 chr6:35478788-35479424;chr6:35479584-35479956 chr6:35479425-35479583 14;57 N alternative_acceptor CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 331;16 N intron_retention CUFF.1157 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 12;24 N alternative_donor CUFF.1167 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 279;27 K intron_retention chr6 + chr6:31928872-31929117 chr6:31928871-31928872;chr6:31929117-31929118 36;11 N cassette CUFF.1171 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 122;173 N jcn_only_AA CUFF.1173 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 4;32 N alternative_last_exon CUFF.1156 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491633-41491963 5;88 N alternative_donor CUFF.1175 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 55;3 N jcn_only_AA CUFF.1175 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 13;59 K alternative_first_exon CUFF.1146 chr6 + chr6:32122555-32123464 chr6:32122961-32123464 chr6:32122364-32122554 chr6:32122784-32122960 120;149 N jcn_only_AA CUFF.1157 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 184;36 K cassette CUFF.1175 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 22;59 N alternative_donor CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 0;3 N intron_retention chr6 + chr6:31928872-31929323 chr6:31928871-31928872;chr6:31929323-31929324 39;49 N cassette CUFF.1170 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 chr6:112557980-112558117;chr6:112668494-112668609 10;70 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 95;5 N cassette CUFF.1127 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 19;902 K intron_retention CUFF.1150 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 311;36 N jcn_only_AD CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 146;21 K intron_retention CUFF.1163 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 280;16 N alternative_acceptor CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 28;1 N jcn_only_AD CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 38;3 K jcn_only_AA CUFF.1174 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 21;70 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 281;46 N jcn_only_AA CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 41;55 K intron_retention CUFF.1142 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 43;99 K intron_retention CUFF.1150 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 243;97 K cassette CUFF.1163 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 14;223 K jcn_only_AA CUFF.1139 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 34;56 N jcn_only_AA CUFF.1188 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 78;3 N coord_cassette CUFF.1177 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 17;55 N cassette CUFF.1142 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 39;15 N alternative_acceptor CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 13;5 N cassette CUFF.1154 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 11;15 N jcn_only_AD CUFF.1142 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 4;135 K intron_retention CUFF.1144 chr6 - chr6:31937981-31938119 chr6:31937980-31937981;chr6:31938119-31938120 354;29 K cassette CUFF.1163 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 122;258 K cassette CUFF.1111 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 chr5:139886420-139886562;chr5:139889222-139889397 13;33 K jcn_only_AD CUFF.1074,CUFF.1086 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 16;155 N alternative_donor CUFF.1123 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 6;17 N jcn_only_AD CUFF.1088 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 137;64 K coord_cassette CUFF.1091 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56517202;chr5:56517224-56526672 chr5:56509901-56510020;chr5:56517203-56517223 6;18 N alternative_donor CUFF.1120 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 16;44 K alternative_first_exon CUFF.1118 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616861-145616995 chr5:145631420-145631438 54;1 N cassette CUFF.1110 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 10;55 N jcn_only_AD CUFF.1121,CUFF.1125 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 172;22 K alternative_first_exon CUFF.1075,CUFF.1120 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783851 chr5:148758768-148758837 29;8 K intron_retention CUFF.1115 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 95;7 N jcn_only_AA chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 53;15 K alternative_last_exon CUFF.1122 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683119-162683276 19;16 K cassette CUFF.1075 chr5 - chr5:37309370-37310653 chr5:37309370-37309505;chr5:37309675-37310653 chr5:37309506-37309674 7;15 K intron_retention CUFF.1115 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 164;23 N jcn_only_AA CUFF.1078,CUFF.1083 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 72;11 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 11;9 K alternative_first_exon CUFF.1090,CUFF.1125 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54579031-54579639 chr5:54578944-54578982 27;4 K jcn_only_AA CUFF.1077,CUFF.1115 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 17;20 K intron_retention CUFF.1115 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 21;3 K cassette CUFF.1125 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 56;78 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 107;27 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149784744-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 241;188 N alternative_donor CUFF.1110 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 196;15 N cassette CUFF.1073 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 137;76 K intron_retention CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;50 K intron_retention CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 31;56 K alternative_last_exon CUFF.1096,CUFF.1106 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 13;53 K cassette CUFF.1086 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 163;170 N alternative_donor CUFF.1121 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 131;22 N alternative_donor CUFF.1121,CUFF.1125 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 141;12 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 20;26 N jcn_only_AA CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 24;14 K cassette CUFF.1086 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 127;41 K cassette CUFF.1090 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 7;10 K intron_retention CUFF.1121 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 203;7 K cassette CUFF.1093 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 20;181 K alternative_first_exon CUFF.1097 chr5 - chr5:82969369-82971106,chr5:82969369-82978143;chr5:82969369-82970344 chr5:82969369-82969951 chr5:82970345-82970437 chr5:82969952-82970139 158;64 K cassette CUFF.1088 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 25;188 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195422 chr5:134182353-134182553 1;59 K coord_cassette CUFF.1125 chr5 - chr5:178032384-178039416 chr5:178032384-178032825;chr5:178032867-178035376;chr5:178035460-178039416 chr5:178032826-178032866;chr5:178035377-178035459 56;19 N jcn_only_AA CUFF.1111 chr5 + chr5:149779794-149781420 chr5:149779794-149781193 2;3 K cassette CUFF.1091 chr5 + chr5:56510021-56526672 chr5:56510021-56517202;chr5:56517224-56526672 chr5:56517203-56517223 13;22 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178047675-178050256;chr5:178049461-178050256 chr5:178045780-178050256 94;313 N alternative_acceptor CUFF.1111 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 chr5:139876105-139876863;chr5:139884406-139884551 2;1 N jcn_only_AA CUFF.1097 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 61;234 K intron_retention CUFF.1072 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 34;44 K intron_retention CUFF.1125 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 116;80 K cassette CUFF.1106 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 36;18 N alternative_donor CUFF.1117 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 5;26 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127302269-127302620;chr5:127359827-127359990 chr5:127292496-127292613 158;45 K alternative_first_exon CUFF.1081 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681971-50682460 chr5:50683324-50683583 11;26 K jcn_only_AD CUFF.1071 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 3;21 K jcn_only_AA CUFF.1081,CUFF.1091 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 6;23 N alternative_acceptor CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 18;8 K alternative_last_exon CUFF.1078 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980452 41;183 N alternative_donor CUFF.1071,CUFF.1093 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 240;1 N alternative_acceptor CUFF.1073,CUFF.1118 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 chr5:145664185-145694458 chr5:145694458-145694459 120;1 K alternative_acceptor CUFF.1077,CUFF.1115 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 17;11 N alternative_donor CUFF.1100,CUFF.1122 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 21;8 K alternative_first_exon CUFF.1115 chr5 + chr5:140027748-140028055,chr5:140027593-140028055;chr5:140026895-140028055 chr5:140027510-140028055 chr5:140026643-140026894 chr5:140027286-140027509 100;118 N alternative_acceptor CUFF.1078,CUFF.1083 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 72;11 K alternative_acceptor CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 8;11 K alternative_donor CUFF.1094 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 103;31 N jcn_only_AD CUFF.1104 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 2;14 K jcn_only_AA CUFF.1090 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 36;37 K intron_retention CUFF.1094 chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 11;18 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782189-149785821 chr5:149782876-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 424;5 K intron_retention CUFF.1121 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 832;182 K alternative_first_exon CUFF.1079 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809027-44809665 chr5:44809865-44810094 52;97 K jcn_only_AD CUFF.1100,CUFF.1117 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 5;68 K intron_retention CUFF.1116 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 chr5:140705755-140706204;chr5:140707337-140708924 17;12 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178047675-178050256;chr5:178045780-178050256 chr5:178049461-178050256 357;49 K alternative_donor CUFF.1100,CUFF.1117 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 5;38 K cassette CUFF.1091 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 6;16 N alternative_donor chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 34;119 N alternative_donor CUFF.1088 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 137;42 N jcn_only_AA CUFF.1081,CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;49 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 42;22 N jcn_only_AD CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 81;166 K coord_cassette CUFF.1075 chr5 - chr5:37309370-37314299 chr5:37309370-37309505;chr5:37309675-37310653;chr5:37310846-37314299 chr5:37309506-37309674;chr5:37310654-37310845 29;12 K cassette CUFF.1091 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 48;22 K alternative_first_exon CUFF.1122 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684021 46;36 N alternative_first_exon CUFF.1107 chr5 + chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181778-134181902 chr5:134181916-134182553 4;80 K intron_retention CUFF.1125 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 195;51 K intron_retention CUFF.1091 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 23;7 K intron_retention CUFF.1117 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 45;13 K alternative_last_exon CUFF.1098 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411236 chr5:121362637-121364314 97;63 K alternative_acceptor CUFF.1115 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 203;58 K alternative_last_exon CUFF.1086 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54432467-54433464 116;85 N alternative_donor CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 181;30 K alternative_last_exon CUFF.1106 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656656 30;17 N jcn_only_AD CUFF.1120 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 16;18 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821 chr5:149782189-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 310;119 N jcn_only_AA CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 24;14 N alternative_acceptor CUFF.1121 chr5 - chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149781568-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 97;89 K jcn_only_AA CUFF.1122 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 59;29 K cassette CUFF.1111 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 chr5:139866543-139866645;chr5:139884406-139884551 21;15 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149785235-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 401;28 K alternative_first_exon CUFF.1104 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795958-128796175 chr5:128796795-128797450 52;8 K alternative_first_exon CUFF.1074,CUFF.1125 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705823-36705953 chr5:36705782-36705797 27;22 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 chr5:139815689-139815842;chr5:139818088-139818202 29;10 K cassette CUFF.1117 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 7;89 N alternative_acceptor chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 53;8 K alternative_donor CUFF.1071 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 3;21 N cassette CUFF.1100 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 14;48 K intron_retention CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 8;24 N intron_retention chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 6;26 N cassette CUFF.1100 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 75;47 N alternative_acceptor CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 12;14 K intron_retention CUFF.1125 chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 34;142 K jcn_only_AD CUFF.1093,CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 31;34 K cassette CUFF.1125 chr5 - chr5:178032384-178035376 chr5:178032384-178032825;chr5:178032867-178035376 chr5:178032826-178032866 87;21 N jcn_only_AA CUFF.1073,CUFF.1118 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 chr5:145664185-145694458 chr5:145694458-145694459 120;3 K intron_retention CUFF.1125 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 28;28 K alternative_acceptor CUFF.1090 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 36;21 K intron_retention CUFF.1088 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 44;164 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127292614-127396835;chr5:127359991-127396835 chr5:127302621-127396835 chr5:127292496-127292613;chr5:127359827-127359990 chr5:127302269-127302620 122;81 K jcn_only_AA CUFF.1115 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 203;123 N jcn_only_AD chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 76;119 K alternative_acceptor CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 31;233 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782189-149785821 chr5:149782876-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 185;1 K alternative_last_exon CUFF.1082 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 18;115 K intron_retention CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 14;24 K alternative_donor CUFF.1075,CUFF.1094 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 18;28 K jcn_only_AD CUFF.1104 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 6;72 K alternative_donor CUFF.1074,CUFF.1086 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 16;82 K intron_retention CUFF.1115 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 29;13 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466239-466641;chr5:472218-472708 chr5:471071-471938 102;60 N jcn_only_AA CUFF.1108 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 40;37 K alternative_donor CUFF.1111 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 35;99 N cassette CUFF.1100 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398065;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398066-127398192 142;14 K alternative_last_exon CUFF.1111 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139921757-139921866 chr5:139918944-139919441 chr5:139918504-139918668 17;293 K jcn_only_AD CUFF.1111 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 35;171 K intron_retention CUFF.1125 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 126;113 N alternative_donor CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 45;166 K alternative_first_exon CUFF.1106 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630136-131630702 chr5:131631098-131631314 40;30 N jcn_only_AA CUFF.1121 chr5 - chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149781568-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 339;89 N cassette CUFF.1123 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 29;37 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466239-466641;chr5:471071-471938 chr5:472218-472708 143;19 N jcn_only_AD CUFF.1100,CUFF.1122 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 21;46 N intron_retention chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 89;175 K cassette CUFF.1111 chr5 + chr5:139909382-139916973 chr5:139909382-139914946;chr5:139915124-139916973 chr5:139914947-139915123 chr5:139907769-139909381;chr5:139916974-139917174 47;103 N jcn_only_AD CUFF.1121 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 141;53 N intron_retention CUFF.1088 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 16;36 N jcn_only_AA CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 144;4 K intron_retention CUFF.1111 chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 chr5:139865174-139865317;chr5:139866543-139866645 19;28 K alternative_last_exon CUFF.1073 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184416 chr5:36181920-36182603 56;178 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 11;100 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:471071-471938;chr5:472218-472708 chr5:466239-466641 84;78 K alternative_donor CUFF.1093,CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 31;94 K cassette CUFF.1075 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 29;13 N coord_cassette CUFF.1100 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 40;44 K alternative_last_exon CUFF.1082,CUFF.1083 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52183647-52183797 chr5:52178712-52178757 9;18 K jcn_only_AA CUFF.1091,CUFF.1098 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 12;97 K jcn_only_AD CUFF.1094 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 103;30 N jcn_only_AA CUFF.1111 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 chr5:139876105-139876863;chr5:139884406-139884551 2;10 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127302269-127302620;chr5:127292496-127292613 chr5:127359827-127359990 145;58 N jcn_only_AD CUFF.1123 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 6;29 N cassette CUFF.1100 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 53;84 K alternative_first_exon CUFF.1093 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214419 151;71 N jcn_only_AD CUFF.1117 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 5;15 N jcn_only_AD CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 14;6 N alternative_donor CUFF.1090,CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 144;1 K intron_retention CUFF.1094 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 29;32 K cassette CUFF.1093 chr5 - chr5:60224787-60240758 chr5:60224787-60227933;chr5:60227976-60240758 chr5:60227934-60227975 124;44 N alternative_donor CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 14;23 N jcn_only_AD CUFF.1110 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 212;36 K cassette CUFF.1086 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 11;153 K alternative_first_exon CUFF.1097,CUFF.1125 chr5 - chr5:178045780-178050256 chr5:178045780-178046838 chr5:178050257-178050417 chr5:178046839-178047036 233;53 K jcn_only_AD CUFF.1075,CUFF.1094 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 18;27 K cassette CUFF.1073 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 110;68 K jcn_only_AA CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 31;195 N jcn_only_AD CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 202;46 K alternative_donor CUFF.1104 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 6;49 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 chr5:139862165-139862252 14;15 K jcn_only_AA CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 8;19 K jcn_only_AA CUFF.1074 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 36;63 N jcn_only_AD CUFF.1071,CUFF.1093 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 240;2 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 21;103 K alternative_last_exon CUFF.1083 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52177705-52177853 chr5:52162872-52163049 57;48 K intron_retention CUFF.1117 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 95;3 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149785235-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 178;8 N alternative_acceptor CUFF.1108 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 40;2 K intron_retention CUFF.1123 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 59;16 K alternative_acceptor CUFF.1081,CUFF.1091 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 6;17 K alternative_last_exon CUFF.1122 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465072-162465479 13;43 K cassette CUFF.1117 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 23;124 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 5;6 N jcn_only_AA CUFF.1125 chr5 - chr5:178047675-178050256;chr5:178045780-178050256;chr5:178049461-178050256 chr5:178046898-178050256 379;28 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 20;291 N cassette CUFF.1121 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 24;568 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149784744-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 156;30 N alternative_donor CUFF.1104 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 2;2 K cassette CUFF.1094 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 131;10 K intron_retention CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 16;16 N intron_retention chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 46;23 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821 chr5:149782189-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 128;58 N alternative_acceptor CUFF.1097 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 61;116 K alternative_acceptor CUFF.1091,CUFF.1098 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 12;64 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178045780-178050256;chr5:178049461-178050256 chr5:178047675-178050256 390;16 K alternative_donor CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 16;11 K alternative_first_exon CUFF.1072 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2752780 chr5:2751279-2751776 25;126 K intron_retention CUFF.1090 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 38;22 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 49;30 K cassette CUFF.1093 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 27;106 K alternative_last_exon CUFF.1094 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902746-64902994 38;17 N alternative_last_exon CUFF.1121 chr5 - chr5:149785885-149786714 chr5:149786524-149786714 chr5:149785596-149785884 chr5:149786273-149786523 51;570 K cassette CUFF.1093 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 155;101 N alternative_acceptor CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 144;2 K cassette CUFF.1094 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 71;46 N intron_retention chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 36;43 N intron_retention CUFF.1111 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 chr5:139914947-139915123 49;45 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 chr5:139815689-139815842;chr5:139818088-139818202 22;4 K jcn_only_AA CUFF.1073,CUFF.1078 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 27;76 K jcn_only_AD CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 16;11 N jcn_only_AD CUFF.1090,CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 144;4 K cassette CUFF.1115 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 143;86 N alternative_acceptor CUFF.1081,CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;53 K jcn_only_AA CUFF.1047 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 18;84 N alternative_acceptor CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 33;14 N jcn_only_AA CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 174;14 K jcn_only_AA CUFF.1065 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 23;11 N alternative_acceptor chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 99;27 N alternative_acceptor CUFF.1025 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 11;4 K intron_retention CUFF.1013 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 198;62 K intron_retention CUFF.1050 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 291;65 K cassette CUFF.1065 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 21;39 K intron_retention CUFF.1016 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 40;29 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;25 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 21;103 N cassette CUFF.1017 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 44;190 K alternative_last_exon CUFF.1039 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464357-74464435 chr4:74469801-74470304 6;41 K intron_retention CUFF.1034 chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 6;60 N jcn_only_AA CUFF.1025 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 11;5 K intron_retention CUFF.1013 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 154;11 K intron_retention CUFF.1024 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 17;9 K intron_retention CUFF.1032 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 136;21 K cassette CUFF.1033 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 119;191 K alternative_first_exon CUFF.1034 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57301907-57302094 chr4:57302106-57302141 24;5 K cassette CUFF.1016 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 135;98 N jcn_only_AA CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 38;9 K alternative_first_exon CUFF.1049 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419651 chr4:85417646-85418103 34;4 K jcn_only_AD CUFF.1039 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 57;12 N jcn_only_AA CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 60;37 K cassette CUFF.1016 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951277-3952865 chr4:3951175-3951276 176;41 K cassette CUFF.1024 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 42;25 N cassette CUFF.1051 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 10;34 K alternative_acceptor CUFF.1010 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 65;8 K alternative_first_exon CUFF.1016,CUFF.1039 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3957051-3957218 chr4:3956687-3956789 133;87 N jcn_only_AA CUFF.1062 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 11;2 N alternative_first_exon CUFF.1040 chr4 - chr4:77979789-77985865;chr4:77979789-77996624 chr4:77979789-77987401 chr4:77996625-77997158 chr4:77987402-77987558 43;130 K cassette CUFF.1017 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 50;195 K jcn_only_AD CUFF.1067 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 7;17 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 201;44 K cassette CUFF.1033 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 107;207 K alternative_first_exon CUFF.1043 chr4 - chr4:77987559-77996251;chr4:77987559-77996624 chr4:77987559-77995942 chr4:77996625-77997158 chr4:77995943-77996062 102;47 N alternative_donor CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 38;0 K jcn_only_AA CUFF.1032 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 76;73 N jcn_only_AA CUFF.1039 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 3;79 K alternative_last_exon CUFF.1065 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416338-162416632 52;16 N alternative_donor CUFF.1018 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 201;147 K intron_retention CUFF.1013 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 176;8 N jcn_only_AA CUFF.1067 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 21;53 N jcn_only_AA CUFF.1016 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 229;12 N alternative_donor chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 9;4 N jcn_only_AD chr4 - chr4:83816928-83821229 chr4:83816928-83819141 36;80 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6473290 chr4:6382822-6383503 chr4:6525170-6525358;chr4:6473291-6473491 chr4:6383504-6383597 268;63 K alternative_donor CUFF.1041 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 9;11 N alternative_acceptor chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 95;27 N jcn_only_AD CUFF.1018 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 201;253 N alternative_donor CUFF.1067 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 23;1 N cassette CUFF.1018 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 131;119 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:647497-647640;chr4:629759-647640 chr4:645547-647640 chr4:647399-647496;chr4:629669-629758 chr4:645257-645546 291;12 K alternative_last_exon CUFF.1059 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849858 chr4:130829789-130829858 13;14 K jcn_only_AD CUFF.1041 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 9;16 K cassette CUFF.1041 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 14;10 K jcn_only_AD CUFF.1057 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 9;63 K cassette CUFF.1065 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 65;54 N cassette CUFF.1039 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 6;58 K cassette CUFF.1038 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 32;12 N alternative_donor CUFF.1054 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 22;110 N alternative_donor CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 53;0 K intron_retention CUFF.1016 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 194;56 N alternative_acceptor CUFF.1062 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 11;1 N jcn_only_AA CUFF.1043 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 13;114 N alternative_donor CUFF.1043,CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 174;0 K alternative_last_exon CUFF.1060 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240599-142241054 chr4:142242290-142242535 94;21 N alternative_donor CUFF.1017 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6196218-6201979 chr4:6201979-6201980 210;0 K alternative_last_exon CUFF.1023 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 30;149 K intron_retention CUFF.1036 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 5;8 N alternative_donor CUFF.1054 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 25;12 K alternative_first_exon CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525637-20525800 chr4:20526782-20526795 12;2 N alternative_donor CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 4;7 N jcn_only_AD CUFF.1017 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6196218-6201979 chr4:6201979-6201980 210;16 N jcn_only_AD CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 51;26 K jcn_only_AA CUFF.1059 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 11;29 N jcn_only_AA CUFF.1024,CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 51;28 K cassette CUFF.1013 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 38;161 N alternative_acceptor CUFF.1030 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 12;1 N jcn_only_AA CUFF.1054 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 130;10 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:645547-647640;chr4:629759-647640 chr4:647497-647640 chr4:645257-645546;chr4:629669-629758 chr4:647399-647496 275;28 N jcn_only_AD CUFF.1067 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 23;14 N alternative_acceptor CUFF.1013 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 22;101 K intron_retention CUFF.1034 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 12;60 K jcn_only_AD CUFF.1025 chr4 - chr4:36014454-36047600 chr4:36014454-36017007 7;15 N jcn_only_AD CUFF.1054 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 22;223 K cassette CUFF.1017 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 120;144 N alternative_acceptor CUFF.1013 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 8;141 K coord_cassette CUFF.1045 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 8;50 N jcn_only_AD chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 61;77 N cassette CUFF.1043 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 10;36 N cassette CUFF.1033 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 68;223 N jcn_only_AA chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 99;28 K alternative_donor CUFF.1057 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 9;31 N jcn_only_AD CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 38;15 N alternative_acceptor CUFF.1016 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 28;19 N jcn_only_AD CUFF.1022,CUFF.1037 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 190;14 N alternative_acceptor CUFF.1043 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 13;13 K alternative_first_exon CUFF.1024 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256459-20256698 5;39 K intron_retention chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 95;2 N alternative_donor CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 32;1 N jcn_only_AA CUFF.1013 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 8;219 K intron_retention CUFF.1013 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 209;21 N coord_cassette CUFF.1033 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 68;175 N alternative_acceptor CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 174;1 N alternative_acceptor CUFF.1038 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 12;13 K cassette CUFF.1016 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 81;146 N jcn_only_AA CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 53;21 N jcn_only_AD CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 32;6 K alternative_first_exon CUFF.1018,CUFF.1065 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162680563-162680683 chr4:162585968-162586084 34;48 K alternative_donor CUFF.1067 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 13;28 N jcn_only_AA CUFF.1008 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 12;41 K intron_retention CUFF.1013 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 38;17 N alternative_acceptor CUFF.1054 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 130;9 N jcn_only_AA CUFF.1038 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 12;10 N jcn_only_AA chr4 - chr4:152065203-152069073 chr4:152065441-152069073 26;8 N jcn_only_AD chr4 - chr4:6537105-6565286 chr4:6537105-6557260 14;14 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 23;2 N cassette CUFF.1008 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 21;41 K alternative_last_exon CUFF.1063 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143651-153143911 97;22 N jcn_only_AA chr4 - chr4:152091944-152095821;chr4:152080505-152095821 chr4:152086849-152095821 21;12 N intron_retention chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 23;56 N alternative_acceptor CUFF.1008 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 12;20 N jcn_only_AA CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 14;2 N jcn_only_AA CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 22;16 N alternative_donor CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 51;9 N jcn_only_AD chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 48;78 N jcn_only_AA CUFF.1016 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 52;45 K alternative_first_exon CUFF.1053 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133826 chr4:120116866-120116996 5;30 N alternative_donor chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 5;0 N jcn_only_AD chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 9;6 N jcn_only_AD CUFF.1054 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 25;12 N jcn_only_AA chr4 - chr4:152080505-152095821;chr4:152086849-152095821 chr4:152091944-152095821 24;9 N jcn_only_AA chr4 - chr4:152091944-152095821;chr4:152086849-152095821 chr4:152080505-152095821 21;12 K alternative_last_exon CUFF.1025 chr4 - chr4:36014454-36047600 chr4:36020909-36047600 chr4:36014185-36014453 chr4:36020766-36020908 7;10 N alternative_acceptor CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 22;3 K cassette CUFF.1045 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 65;47 K coord_cassette CUFF.1050 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 103;74 N coord_cassette CUFF.1013 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 50;145 N jcn_only_AD chr4 - chr4:152065203-152069073 chr4:152065203-152065371 26;9 K alternative_last_exon CUFF.1028 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152522-36152666 chr4:36159032-36159172 9;19 N jcn_only_AA CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 32;9 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 12;21 N intron_retention chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 9;12 N alternative_acceptor CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 14;0 N alternative_acceptor CUFF.1016 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 229;2 N jcn_only_AA CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 9;4 N jcn_only_AA CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 4;47 K intron_retention CUFF.1008 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 66;12 N jcn_only_AA CUFF.1050 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 7;161 K intron_retention CUFF.1060 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 12;15 N alternative_donor CUFF.1062,CUFF.1065 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 5;0 N jcn_only_AA CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 82;14 N alternative_acceptor CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 38;31 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 26;82 N cassette CUFF.1021 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 14;96 K intron_retention CUFF.1037 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 8;105 N cassette CUFF.1012 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 41;80 K alternative_acceptor CUFF.1047 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 18;61 K alternative_donor CUFF.1067 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 7;11 N jcn_only_AA CUFF.1013 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 22;210 N jcn_only_AD CUFF.1043,CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 174;13 K intron_retention CUFF.1066 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 22;9 N coord_cassette CUFF.1032 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 9;68 N jcn_only_AA CUFF.1030 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 12;111 N jcn_only_AA CUFF.1037 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 18;136 K jcn_only_AA CUFF.1010 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 65;12 N alternative_acceptor CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 4;21 N alternative_acceptor CUFF.1013 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 15;120 K alternative_first_exon CUFF.1019 chr4 + chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910969-6911232 chr4:6911959-6912328 21;12 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;23 N coord_cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3952865;chr4:3952947-3954837 chr4:3948871-3949734;chr4:3949817-3949947;chr4:3952866-3952946 6;102 N alternative_last_exon CUFF.1043 chr4 - chr4:77979789-77996624 chr4:77987559-77996624 chr4:77979660-77979788 chr4:77987322-77987558 18;103 K alternative_first_exon CUFF.1033,CUFF.1048 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502946 chr4:56502248-56502522 75;281 K mutually_exclusive CUFF.1033 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 79;80 K cassette CUFF.1041 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 35;11 K alternative_first_exon CUFF.1045 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81105033-81105209 chr4:81106455-81106672 42;38 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 253;24 N alternative_donor CUFF.1062 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 0;5 N jcn_only_AD CUFF.1062,CUFF.1065 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 82;44 K coord_cassette CUFF.1033 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 22;101 K alternative_last_exon CUFF.1057 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124846339-124846492 chr4:124784730-124784940 74;57 N alternative_donor CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 9;0 K cassette CUFF.1037 chr4 - chr4:69071816-69083623 chr4:69071816-69078079;chr4:69078196-69083623 chr4:69078080-69078195 49;125 K cassette CUFF.1040 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 31;18 N jcn_only_AD CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 4;52 N jcn_only_AA CUFF.1013 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 15;154 K cassette CUFF.1038 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 81;25 K cassette CUFF.1067 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 27;39 K alternative_acceptor CUFF.1065 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 23;6 K cassette CUFF.1048 chr4 - chr4:83819216-83821229 chr4:83819216-83820865;chr4:83820891-83821229 chr4:83820866-83820890 163;272 K intron_retention CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 22;15 K alternative_last_exon CUFF.1024 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554340 60;26 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6383503 chr4:6382822-6473290 chr4:6525170-6525358;chr4:6383504-6383597 chr4:6473291-6473491 245;86 K intron_retention CUFF.1013 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 218;24 N alternative_donor CUFF.1022,CUFF.1037 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 190;1 K cassette CUFF.1050 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 291;92 N jcn_only_AD chr4 - chr4:152080505-152095821 chr4:152080505-152086740 12;20 K alternative_first_exon CUFF.1040 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 chr4:77116860-77117031 chr4:77097590-77097681 20;7 K alternative_first_exon CUFF.1057 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582908-124582988 chr4:124695353-124695530 59;46 N alternative_acceptor CUFF.1037 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 18;3 N jcn_only_AD CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 53;20 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 15;69 N cassette CUFF.1048 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83821229 chr4:83816845-83816927 12;24 K intron_retention CUFF.1051 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 56;28 N jcn_only_AA chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 95;10 N cassette CUFF.1054 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 88;102 K jcn_only_AD CUFF.1067 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 13;43 K alternative_first_exon CUFF.1023 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821716-13821895 58;39 N alternative_acceptor CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 32;0 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6473290;chr4:6382822-6383503 chr4:6382822-6525169 chr4:6473291-6473491;chr4:6383504-6383597 chr4:6525170-6525358 209;122 K cassette CUFF.1016 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 176;51 N alternative_acceptor CUFF.1067 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 21;100 N cassette CUFF.1012 chr4 - chr4:1705428-1713856 chr4:1705428-1713600;chr4:1713718-1713856 chr4:1713601-1713717 34;57 K cassette CUFF.1033 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 138;319 N alternative_acceptor CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 9;1 N intron_retention chr4 - chr4:36161128-36162080 chr4:36161127-36161128;chr4:36162080-36162081 4;14 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:647497-647640;chr4:645547-647640 chr4:629759-647640 chr4:647399-647496;chr4:645257-645546 chr4:629669-629758 299;4 K cassette CUFF.1008 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 70;26 K alternative_first_exon CUFF.1031 chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245313-36245583 chr4:36245231-36245274 15;9 N alternative_acceptor CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 53;1 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 12;0 N jcn_only_AD CUFF.1062 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 121;5 N alternative_donor chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 61;34 N cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 6;127 K alternative_last_exon CUFF.1041,CUFF.1059 chr4 + chr4:77184997-77230296 chr4:77184997-77189812 chr4:77230297-77232284 chr4:77189813-77189966 26;24 N jcn_only_AD CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 9;5 K alternative_first_exon CUFF.1021 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969031-6969151 chr4:6988863-6989076 4;5 N alternative_acceptor CUFF.1024,CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 51;7 K alternative_first_exon CUFF.1067 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131305-186131409 13;14 N alternative_acceptor CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 33;14 K cassette CUFF.1032 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 14;97 N coord_cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 6;78 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 12;11 K mutually_exclusive CUFF.1012 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 25;29 K alternative_last_exon CUFF.1010,CUFF.1067 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186290982 chr4:186284539-186285125 15;64 N alternative_acceptor CUFF.1050 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 7;80 K alternative_first_exon CUFF.1035 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774995-57775205 chr4:57775347-57775753 17;21 N jcn_only_AD CUFF.945 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 65;14 K alternative_last_exon CUFF.983 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743650-125743748 199;26 N jcn_only_AD chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125075820 chr3:125050083-125093945 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 103;55 K jcn_only_AA CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 85;9 K cassette CUFF.941 chr3 - chr3:33602464-33612218 chr3:33602464-33605455;chr3:33605459-33612218 chr3:33605456-33605458 15;10 N alternative_acceptor CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 82;1 K intron_retention CUFF.942 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 14;20 K intron_retention CUFF.940 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 12;25 K cassette CUFF.967 chr3 - chr3:107595034-107596159 chr3:107595034-107595301;chr3:107595379-107596159 chr3:107595302-107595378 55;23 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692517 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 49;107 K alternative_first_exon CUFF.951,CUFF.995 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377917-49378190 chr3:49377357-49377561 9;18 K intron_retention CUFF.940 chr3 - chr3:33434107-33434803 chr3:33434106-33434107;chr3:33434803-33434804 75;2 K cassette CUFF.940 chr3 - chr3:33454320-33458249 chr3:33454320-33457497;chr3:33457593-33458249 chr3:33457498-33457592 38;11 K alternative_last_exon CUFF.954,CUFF.960 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501781 16;36 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301;chr3:73453547-73523605 chr3:73453547-73610601 chr3:73605851-73606140;chr3:73618302-73618634;chr3:73523606-73523825 chr3:73610602-73610793 117;8 N jcn_only_AA CUFF.967 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 45;21 N jcn_only_AA CUFF.930 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 141;38 N cassette CUFF.988 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 60;15 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27409013 chr3:27394411-27410521 101;3 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 98;216 N mutually_exclusive CUFF.987 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 19;23 N jcn_only_AD CUFF.995 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 358;51 N alternative_donor CUFF.981 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 55;0 N alternative_acceptor CUFF.950 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 59;0 N jcn_only_AA CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 77;212 K alternative_first_exon CUFF.932,CUFF.950 chr3 - chr3:25657078-25659908;chr3:25657078-25660144 chr3:25657078-25657271 chr3:25660145-25660340 chr3:25657272-25657457 56;30 N alternative_donor CUFF.963 chr3 - chr3:93646252-93677354;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 50;0 N alternative_donor CUFF.981,CUFF.987 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 39;0 N jcn_only_AD CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 72;11 K alternative_donor CUFF.930 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 80;85 K intron_retention CUFF.985 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 94;43 N cassette CUFF.987 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 88;62 N jcn_only_AD CUFF.995 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 495;19 K intron_retention CUFF.945 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 177;32 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 132;26 K alternative_donor CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 159;46 N jcn_only_AD CUFF.941 chr3 - chr3:33626413-33633886 chr3:33626413-33630196 chr3:33630197-33633886 chr3:33633886-33633887 14;2 N mutually_exclusive CUFF.967 chr3 - chr3:107576050-107591814,chr3:107591874-107594976 chr3:107576050-107586157,chr3:107586273-107594976 chr3:107591815-107591873 chr3:107586158-107586272 92;32 K alternative_last_exon CUFF.951 chr3 - chr3:49350047-49362134;chr3:49349088-49362134 chr3:49354912-49362134 chr3:49348947-49349087 chr3:49354538-49354911 18;12 K intron_retention CUFF.940 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 25;34 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73610602-73610793;chr3:73605851-73606140;chr3:73618302-73618634 chr3:73523606-73523825 109;16 N alternative_donor CUFF.935 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 222;18 K intron_retention CUFF.935 chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 216;8 N jcn_only_AA CUFF.930 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 79;101 K alternative_first_exon CUFF.940,CUFF.967 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 11;22 K alternative_acceptor CUFF.940 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 42;34 N jcn_only_AA CUFF.942 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 174;21 N alternative_donor CUFF.988 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 0;239 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692517 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 2;48 K cassette CUFF.967 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 148;133 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141747883 chr3:141724387-141772956 86;39 K jcn_only_AA CUFF.977 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 9;105 N alternative_donor CUFF.951,CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 83;0 N jcn_only_AD CUFF.935 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 287;23 N mutually_exclusive CUFF.991 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 133;11 N alternative_acceptor CUFF.933 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 70;18 N jcn_only_AD CUFF.980 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 43;7 N jcn_only_AD CUFF.980 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 80;26 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 131;26 K alternative_donor CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 125;80 N alternative_first_exon CUFF.951 chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49362135-49362196 chr3:49355742-49356217 9;25 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73618301;chr3:73453547-73523605 chr3:73453547-73605850 chr3:73610602-73610793;chr3:73618302-73618634;chr3:73523606-73523825 chr3:73605851-73606140 75;50 N jcn_only_AD CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 59;24 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125797816;chr3:125787090-125820271 chr3:125787090-125802935 chr3:125802897-125802924;chr3:125797817-125797906;chr3:125820272-125820503 chr3:125802936-125803107 179;184 N cassette CUFF.991 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 15;69 K cassette CUFF.950 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 16;11 N cassette CUFF.933 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 25;91 K alternative_first_exon CUFF.940 chr3 - chr3:33437773-33438536 chr3:33437773-33438236 chr3:33438537-33438627 chr3:33438237-33438510 18;55 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141772956 chr3:141724387-141747883 45;80 N cassette CUFF.991 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 30;596 N jcn_only_AD CUFF.932 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;40 K intron_retention CUFF.953 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 7;34 N jcn_only_AD CUFF.935 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 240;71 N alternative_donor CUFF.971 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 868;4 N jcn_only_AD CUFF.930 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 101;47 K cassette CUFF.940 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 24;84 N alternative_acceptor CUFF.963 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 2;2 N mutually_exclusive CUFF.991 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 133;11 N jcn_only_AD CUFF.988 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 312;9 K alternative_last_exon CUFF.940 chr3 - chr3:33437773-33438536 chr3:33438371-33438536 chr3:33437654-33437772 chr3:33438068-33438370 21;61 N alternative_donor CUFF.988 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 239;0 N jcn_only_AA CUFF.980 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 17;65 N jcn_only_AD chr3 - chr3:27394411-27410715;chr3:27394411-27409013;chr3:27394411-27410521 chr3:27394411-27405177 80;24 N jcn_only_AA CUFF.967 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 280;9 N mutually_exclusive CUFF.983 chr3 - chr3:125745323-125769740,chr3:125769894-125786789 chr3:125745323-125752449,chr3:125752522-125786789 chr3:125769741-125769893 chr3:125752450-125752521 143;83 K intron_retention CUFF.983 chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 84;153 N alternative_donor CUFF.941 chr3 - chr3:33614847-33617660;chr3:33614847-33614931 chr3:33614847-33615964 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 110;2 K alternative_last_exon CUFF.988,CUFF.989 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 20;15 K coord_cassette CUFF.974 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 14;11 K alternative_acceptor CUFF.977 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 9;52 N alternative_acceptor CUFF.933 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 556;1 N alternative_last_exon CUFF.951 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49348947-49349087 chr3:49354538-49354911 18;21 N cassette CUFF.1003 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 32;222 K alternative_first_exon CUFF.984 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073143 13;27 N alternative_acceptor CUFF.967 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 63;17 N intron_retention CUFF.930 chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 24;25 K cassette CUFF.967 chr3 - chr3:107572902-107573976 chr3:107572902-107573500;chr3:107573542-107573976 chr3:107573501-107573541 57;11 N alternative_donor CUFF.980 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 3;17 N alternative_donor CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 82;0 K alternative_last_exon CUFF.933 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203790-27204092 224;206 N jcn_only_AA CUFF.991 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 673;78 N alternative_acceptor CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 77;212 K cassette CUFF.994 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 43;64 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 71;10 N jcn_only_AD CUFF.980 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 43;63 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125797816;chr3:125787090-125802935 chr3:125787090-125820271 chr3:125802897-125802924;chr3:125797817-125797906;chr3:125802936-125803107 chr3:125820272-125820503 317;46 N jcn_only_AD CUFF.951 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 31;18 K coord_cassette CUFF.977 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 15;10 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 9;20 N jcn_only_AD CUFF.933,CUFF.958 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 75;8 N jcn_only_AD CUFF.960 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 5;23 N jcn_only_AD CUFF.976 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 92;10 K alternative_last_exon CUFF.928 chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8819163-8819222 chr3:8787212-8788451 8;72 N jcn_only_AA CUFF.930 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 163;16 N jcn_only_AD CUFF.954 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 340;39 N alternative_donor CUFF.971 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 728;58 N alternative_acceptor CUFF.930 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 82;14 N jcn_only_AD CUFF.935 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 46;49 K alternative_first_exon CUFF.954 chr3 + chr3:51743450-51746488 chr3:51745736-51746488 chr3:51742864-51743449 chr3:51745600-51745735 420;19 N jcn_only_AD CUFF.988 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 164;15 N cassette CUFF.983 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 108;275 K intron_retention CUFF.954 chr3 + chr3:51747327-51747979 chr3:51747326-51747327;chr3:51747979-51747980 363;3 N alternative_last_exon CUFF.951 chr3 - chr3:49315885-49318176 chr3:49316336-49318176 chr3:49315264-49315884 chr3:49316247-49316335 16;21 N intron_retention CUFF.956 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 31;259 K alternative_first_exon CUFF.999 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178865902-178866007 chr3:178867426-178867504 8;4 N jcn_only_AA CUFF.967 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 29;36 N alternative_donor CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 55;28 K intron_retention CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 32;113 K alternative_first_exon CUFF.951 chr3 - chr3:49349088-49351303;chr3:49349088-49362134 chr3:49349088-49355741 chr3:49362135-49362196 chr3:49355742-49356217 17;22 N jcn_only_AD chr3 - chr3:141724387-141747883;chr3:141724387-141772956 chr3:141724387-141809633 119;6 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 8;13 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 15;4 K jcn_only_AD CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 218;46 N alternative_donor CUFF.969 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 33;1 N jcn_only_AD CUFF.964 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 52;19 K jcn_only_AD CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 22;70 K intron_retention CUFF.928 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 17;22 N coord_cassette CUFF.1003 chr3 + chr3:186648624-186769036 chr3:186648624-186660135;chr3:186660216-186681572;chr3:186681715-186756529;chr3:186756662-186769036 chr3:186660136-186660215;chr3:186681573-186681714;chr3:186756530-186756661 13;169 K intron_retention CUFF.993 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 38;9 K intron_retention CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 22;38 K coord_cassette CUFF.977 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 15;17 K intron_retention CUFF.983 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 40;7 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 116;41 N cassette CUFF.956 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 20;82 N jcn_only_AD chr3 - chr3:124951499-124953143 chr3:124951499-124951952 27;18 K cassette CUFF.941 chr3 - chr3:33592888-33600798 chr3:33592888-33600616;chr3:33600668-33600798 chr3:33600617-33600667 19;19 K coord_cassette CUFF.967 chr3 - chr3:107595034-107596748 chr3:107595034-107595301;chr3:107595379-107596159;chr3:107596345-107596748 chr3:107595302-107595378;chr3:107596160-107596344 148;30 K alternative_last_exon CUFF.977 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120351994-120352175 chr3:120352185-120352437 23;19 K intron_retention CUFF.953 chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 9;61 N coord_cassette CUFF.967 chr3 - chr3:107586425-107596748 chr3:107586425-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 24;42 N alternative_first_exon chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023488 chr3:47020964-47021095 14;44 K intron_retention CUFF.940 chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 17;2 N alternative_donor chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125075820 chr3:125050083-125093945 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 0;55 N alternative_donor CUFF.988 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 239;0 N alternative_acceptor chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 37;216 N jcn_only_AD CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 110;28 N jcn_only_AA CUFF.950 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 59;38 K cassette CUFF.967 chr3 - chr3:107574077-107575926 chr3:107574077-107574159;chr3:107574273-107575926 chr3:107574160-107574272 223;40 N jcn_only_AD CUFF.981,CUFF.987 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 39;13 N coord_cassette CUFF.991 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 24;133 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 431;24 N cassette CUFF.967 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 118;222 N cassette CUFF.991 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 52;353 N alternative_donor CUFF.956 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 13;37 N coord_cassette CUFF.967 chr3 - chr3:107591874-107596748 chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107594306-107594421;chr3:107594977-107595033 12;41 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 62;116 K cassette CUFF.967 chr3 - chr3:107576050-107586157 chr3:107576050-107585498;chr3:107585601-107586157 chr3:107585499-107585600 274;28 N alternative_acceptor CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 45;49 N cassette CUFF.991 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 19;195 N alternative_acceptor CUFF.942 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 174;11 N jcn_only_AD CUFF.941,CUFF.950 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 43;16 N jcn_only_AA CUFF.971 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 743;77 K cassette CUFF.996 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 82;60 N jcn_only_AA chr3 - chr3:124996654-125042231 chr3:125032501-125042231 33;28 N cassette CUFF.1003 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 36;79 K cassette CUFF.972 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 27;64 N alternative_donor CUFF.985 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 91;17 N alternative_donor CUFF.991 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 143;0 N alternative_acceptor CUFF.990 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 139;10 N jcn_only_AD CUFF.933,CUFF.996 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 113;21 K alternative_first_exon CUFF.950 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47018127-47018333 chr3:47017843-47018015 452;71 N jcn_only_AD ENSG00000163961.4 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 21;11 N jcn_only_AA CUFF.932 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 38;18 N jcn_only_AD CUFF.967 chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 54;5 K cassette CUFF.998 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 44;19 K intron_retention CUFF.954 chr3 + chr3:51747327-51749077 chr3:51747326-51747327;chr3:51749077-51749078 19;5 K cassette CUFF.994 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 46;95 N jcn_only_AA chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 93;3 K alternative_last_exon CUFF.985 chr3 + chr3:126135352-126137300;chr3:126135352-126137297 chr3:126135352-126135614 chr3:126137298-126137368 chr3:126135615-126135708 59;68 N alternative_acceptor CUFF.967 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 37;4 N alternative_donor CUFF.935 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 25;1 N intron_retention chr3 + chr3:49460959-49461733 chr3:49460958-49460959;chr3:49461733-49461734 7;84 N cassette CUFF.985 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 76;271 N alternative_donor CUFF.951 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 31;5 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93692517 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 48;2 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 26;57 N alternative_donor CUFF.988 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 164;1 N intron_retention CUFF.935 chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 54;7 N intron_retention chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 156;18 N jcn_only_AD CUFF.951,CUFF.983 chr3 - chr3:125752522-125769785 chr3:125752522-125769740 chr3:125769741-125769785 chr3:125769785-125769786 344;20 K jcn_only_AA CUFF.1006 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 24;4 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93677354;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 136;21 K alternative_donor CUFF.972 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 126;79 K alternative_first_exon CUFF.955 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263688 chr3:52259543-52260179 chr3:52255096-52258328 6;8 K alternative_donor CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 22;48 N alternative_acceptor CUFF.981 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 98;1 N jcn_only_AA CUFF.963 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 2;21 K cassette CUFF.977 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 39;39 N alternative_donor CUFF.960 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 5;3 N alternative_first_exon CUFF.988 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911572-132911671 31;52 K cassette CUFF.954 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 19;322 K intron_retention CUFF.950 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 177;52 N jcn_only_AA CUFF.967 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 57;9 N jcn_only_AD CUFF.964 chr3 + chr3:97652352-97652537;chr3:97643256-97652537 chr3:97634581-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 66;4 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 23;136 N alternative_donor CUFF.995 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 461;13 K intron_retention CUFF.945 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 185;5 N cassette CUFF.951 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 78;24 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 57;12 K cassette CUFF.951 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 27;39 K jcn_only_AD CUFF.957 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 21;142 K alternative_acceptor CUFF.1006 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 24;2 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 34;454 K jcn_only_AA CUFF.954 chr3 + chr3:51741184-51749077 chr3:51741184-51742863 66;340 N jcn_only_AD CUFF.988 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 248;73 N jcn_only_AD CUFF.964 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 23;47 K cassette CUFF.977 chr3 - chr3:120394711-120400943 chr3:120394711-120396750;chr3:120396839-120400943 chr3:120396751-120396838 87;40 N jcn_only_AA CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 82;30 N jcn_only_AA CUFF.941 chr3 - chr3:33626413-33633886 chr3:33633732-33633886 chr3:33626413-33633731 chr3:33626412-33626413 14;1 N alternative_acceptor CUFF.932 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 38;3 K intron_retention CUFF.945 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 142;18 N alternative_donor CUFF.980 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 19;1 K jcn_only_AA CUFF.976,CUFF.985 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 7;88 N alternative_acceptor CUFF.971 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 743;6 K intron_retention CUFF.940 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 63;11 N jcn_only_AA chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 66;12 N alternative_donor CUFF.959 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 136;2 N alternative_donor CUFF.941,CUFF.950 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 43;2 N jcn_only_AD CUFF.935 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 91;4 N alternative_acceptor CUFF.991 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 711;1 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73605850;chr3:73453547-73523605 chr3:73453547-73618301 chr3:73610602-73610793;chr3:73605851-73606140;chr3:73523606-73523825 chr3:73618302-73618634 97;28 K alternative_last_exon CUFF.969 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474486-108474752 18;24 K intron_retention CUFF.964 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 41;43 K intron_retention CUFF.959 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 27;89 N cassette CUFF.987 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 90;54 N alternative_acceptor CUFF.935 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 237;16 N alternative_donor CUFF.995 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 358;49 K jcn_only_AA CUFF.990 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 20;61 K alternative_first_exon CUFF.989 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407027-133407208 chr3:133418289-133418467 44;178 N jcn_only_AA CUFF.981 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 98;13 K cassette CUFF.946 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 21;11 N alternative_acceptor CUFF.980 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 48;58 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125802935;chr3:125787090-125820271 chr3:125787090-125797816 chr3:125802897-125802924;chr3:125802936-125803107;chr3:125820272-125820503 chr3:125797817-125797906 342;21 K intron_retention CUFF.940 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 45;41 K intron_retention CUFF.954 chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 14;460 N cassette CUFF.982 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 4;286 N jcn_only_AD CUFF.935 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 53;42 N jcn_only_AD CUFF.995 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 468;20 N intron_retention chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 26;12 K cassette CUFF.941 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 46;59 N alternative_donor CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 55;0 N jcn_only_AA CUFF.956 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 124;12 K cassette CUFF.967 chr3 - chr3:107591874-107594976 chr3:107591874-107594305;chr3:107594422-107594976 chr3:107594306-107594421 268;46 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 138;40 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 20;454 N jcn_only_AA CUFF.980 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 48;104 K cassette CUFF.987 chr3 - chr3:127299007-127309252 chr3:127299007-127306912;chr3:127307004-127309252 chr3:127306913-127307003 153;15 N jcn_only_AA chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 43;35 N alternative_donor CUFF.980 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 18;2 N cassette CUFF.983 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 39;394 N jcn_only_AD CUFF.971 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 728;119 K alternative_first_exon CUFF.933,CUFF.963 chr3 - chr3:27233734-27236027;chr3:27233734-27243000 chr3:27233734-27235551 chr3:27243001-27243071 chr3:27235552-27235635 319;41 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27410521 chr3:27394411-27409013 62;42 K cassette CUFF.941 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 16;19 K cassette CUFF.983 chr3 - chr3:125769894-125786789 chr3:125769894-125786328;chr3:125786430-125786789 chr3:125786329-125786429 321;27 N alternative_acceptor CUFF.956 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 87;7 N alternative_acceptor chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122880727-122928045 chr3:122928045-122928046 11;1 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27257966 59;73 N alternative_donor CUFF.935 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 234;6 N alternative_donor chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 20;14 N alternative_acceptor CUFF.941 chr3 - chr3:33626413-33633886 chr3:33633732-33633886 chr3:33626413-33633731 chr3:33626412-33626413 14;0 N cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 118;170 K alternative_first_exon CUFF.987 chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127317039-127317069 chr3:127314295-127314533 16;39 N jcn_only_AD chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 43;40 K jcn_only_AD CUFF.930 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 80;70 N jcn_only_AA CUFF.935 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 270;44 N jcn_only_AA CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 87;49 N jcn_only_AA chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 47;31 K cassette CUFF.987 chr3 - chr3:127299007-127313642 chr3:127299007-127310732;chr3:127310794-127313642 chr3:127310733-127310793 39;16 N intron_retention CUFF.991 chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 10;38 N jcn_only_AA CUFF.933 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 70;122 N mutually_exclusive CUFF.956 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 18;50 N jcn_only_AA CUFF.991 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 711;12 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 57;1 N alternative_acceptor CUFF.930 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 80;16 N jcn_only_AD CUFF.941,CUFF.995 chr3 - chr3:33614847-33617660;chr3:33614847-33615964 chr3:33614847-33614931 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 134;2 N jcn_only_AA chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 82;52 K alternative_last_exon CUFF.996 chr3 - chr3:165495584-165503932;chr3:165491295-165503932 chr3:165496527-165503932 chr3:165490692-165491294 chr3:165496443-165496526 142;31 N jcn_only_AA CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 220;69 N jcn_only_AD CUFF.951,CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 126;12 N jcn_only_AD CUFF.933,CUFF.983 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 70;426 K cassette CUFF.994 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 50;56 N alternative_donor CUFF.935 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 24;216 N jcn_only_AA chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122880727-122928045 chr3:122928045-122928046 11;95 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 122;36 N coord_cassette CUFF.967 chr3 - chr3:107586273-107596159 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596159 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 106;42 N jcn_only_AD CUFF.959 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 136;16 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 157;21 K intron_retention CUFF.930 chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 16;40 K intron_retention CUFF.945 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 88;39 K cassette CUFF.990 chr3 - chr3:133894884-133901845 chr3:133894884-133896784;chr3:133896918-133901845 chr3:133896785-133896917 43;72 N alternative_donor CUFF.988 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 57;0 N alternative_donor CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 23;11 N alternative_acceptor CUFF.991 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 673;39 N cassette CUFF.956 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 239;104 N jcn_only_AD CUFF.985 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 91;34 N alternative_donor CUFF.932 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;34 N cassette CUFF.1003 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 13;100 N coord_cassette CUFF.991 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 15;156 N alternative_donor CUFF.964 chr3 + chr3:97652352-97652537;chr3:97643256-97652537 chr3:97634581-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 2;4 N jcn_only_AD CUFF.951,CUFF.995 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 474;14 N cassette CUFF.933 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 152;114 N jcn_only_AD CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 82;23 N jcn_only_AA CUFF.935 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 261;54 N cassette CUFF.953 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 54;150 N jcn_only_AD CUFF.988 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 57;93 N alternative_donor CUFF.941,CUFF.995 chr3 - chr3:33614847-33617660;chr3:33614847-33615964 chr3:33614847-33614931 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 112;0 K intron_retention CUFF.950 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 115;14 N alternative_donor CUFF.964 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 6;0 N cassette CUFF.991 chr3 - chr3:141712428-141724282;chr3:141697525-141747420;chr3:141697525-141724282 chr3:141697525-141713861,chr3:141712428-141713861;chr3:141713984-141724282,chr3:141713984-141747420 chr3:141713862-141713983 248;295 K alternative_acceptor CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 85;17 K jcn_only_AA CUFF.987 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 209;19 K jcn_only_AD CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 160;104 N cassette CUFF.977 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 51;93 N jcn_only_AA CUFF.967 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 63;8 N alternative_acceptor CUFF.930 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 34;62 K jcn_only_AD CUFF.972 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 151;113 N jcn_only_AA CUFF.996 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 32;23 N alternative_acceptor CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 56;38 N jcn_only_AD CUFF.988 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 82;239 N jcn_only_AD chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 39;98 K alternative_last_exon CUFF.988 chr3 + chr3:132948196-133022047,chr3:132948196-133097185;chr3:132948196-133109023 chr3:132948196-133098595 chr3:133109024-133109178 chr3:133098596-133099055 137;261 N jcn_only_AA CUFF.953 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 22;115 K coord_cassette CUFF.987 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 66;36 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125797816;chr3:125787090-125802935;chr3:125787090-125820271 chr3:125787090-125802896 chr3:125797817-125797906;chr3:125802936-125803107;chr3:125820272-125820503 chr3:125802897-125802924 346;17 K intron_retention CUFF.950 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 309;139 N cassette CUFF.935 chr3 + chr3:28283304-28357823 chr3:28283304-28304781;chr3:28304872-28357823 chr3:28304782-28304871 9;53 N alternative_first_exon chr3 - chr3:49315885-49318176 chr3:49315885-49316246 chr3:49318177-49318280 chr3:49316247-49316699 13;67 N jcn_only_AD CUFF.951,CUFF.967 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 41;18 N jcn_only_AA CUFF.990 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 139;19 K intron_retention CUFF.976 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 77;18 K alternative_first_exon CUFF.949,CUFF.984 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730643 chr3:45729868-45730374 13;3475 N alternative_donor chr3 - chr3:33614847-33614931;chr3:33614847-33615964 chr3:33614847-33617660 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 2;110 N alternative_acceptor chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 82;7 N alternative_donor CUFF.980 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 43;4 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 50;0 K intron_retention chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 95;19 N jcn_only_AA CUFF.951 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 26;139 N coord_cassette CUFF.991 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 13;113 N coord_cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814 chr3:107585499-107585600;chr3:107586158-107586272 118;28 N jcn_only_AA CUFF.930 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 155;24 N jcn_only_AD CUFF.971 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 868;82 N alternative_donor CUFF.933,CUFF.996 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 113;3 N alternative_acceptor CUFF.980 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 17;4 K alternative_first_exon CUFF.969 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476284 chr3:108475667-108475862 29;15 N coord_cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814 chr3:107585499-107585600;chr3:107586158-107586424 118;22 N intron_retention chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 18;84 K intron_retention CUFF.940 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 26;24 K intron_retention CUFF.983 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 245;29 N cassette CUFF.981 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 2;91 N cassette CUFF.985 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 79;345 K intron_retention CUFF.929 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 10;7 K alternative_first_exon CUFF.983,CUFF.995 chr3 - chr3:156271571-156272525;chr3:156271571-156272745 chr3:156271571-156271781 chr3:156272746-156272973 chr3:156271782-156271982 177;185 N alternative_first_exon CUFF.955 chr3 - chr3:196214450-196229743 chr3:196214450-196215477 chr3:196229744-196230639 chr3:196215478-196215554 14;2 N jcn_only_AD CUFF.956 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 13;31 N alternative_donor CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 55;0 K jcn_only_AD CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 32;245 N jcn_only_AA CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 61;76 N jcn_only_AD CUFF.991 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 143;5 N intron_retention chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 27;50 K jcn_only_AD CUFF.982 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 20;487 N coord_cassette CUFF.991 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 20;246 N jcn_only_AA CUFF.933 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 556;29 K cassette CUFF.974 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 14;41 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 23;10 N alternative_donor CUFF.933,CUFF.983 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 70;136 N jcn_only_AD CUFF.980 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 89;17 N jcn_only_AD CUFF.969 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 33;54 N cassette CUFF.983 chr3 - chr3:125752522-125786789 chr3:125752522-125769740;chr3:125769894-125786789 chr3:125769741-125769893 108;144 N alternative_donor CUFF.941 chr3 - chr3:33626413-33633886 chr3:33626413-33630196 chr3:33630197-33633886 chr3:33633886-33633887 14;0 K intron_retention CUFF.947 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 5;6 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27409013;chr3:27394411-27410521 chr3:27394411-27410715 69;35 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838228 3;48 N alternative_acceptor CUFF.941 chr3 - chr3:33614847-33617660 chr3:33615989-33617660 chr3:33614847-33615988 chr3:33614846-33614847 110;3 N cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 118;209 N alternative_acceptor CUFF.930 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 92;4 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 4;28 N intron_retention CUFF.935 chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 44;4 N cassette CUFF.967 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 63;242 N coord_cassette CUFF.983 chr3 - chr3:125769894-125820271 chr3:125769894-125786328;chr3:125786430-125786789;chr3:125787090-125820271 chr3:125786329-125786429;chr3:125786790-125787089 39;37 N alternative_acceptor CUFF.967 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 289;0 N alternative_donor CUFF.930 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 101;0 N cassette CUFF.956 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 201;90 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 15;16 K intron_retention CUFF.930 chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 101;27 N coord_cassette CUFF.958 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 35;155 N alternative_donor CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 25;9 N alternative_acceptor chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 93;9 N mutually_exclusive CUFF.991 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 133;11 N alternative_donor CUFF.964 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 4;2 N alternative_acceptor CUFF.996 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 32;0 N alternative_donor CUFF.935 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 5;21 N intron_retention chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 40;53 K cassette CUFF.1003 chr3 + chr3:186648624-186681572 chr3:186648624-186660135;chr3:186660216-186681572 chr3:186660136-186660215 166;363 N jcn_only_AD chr3 - chr3:33614847-33614931;chr3:33614847-33615964 chr3:33614847-33617660 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 27;110 N alternative_donor ENSG00000163961.4 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 21;1 K cassette CUFF.942 chr3 - chr3:33686396-33700998 chr3:33686396-33700465;chr3:33700502-33700998 chr3:33700466-33700501 28;28 N cassette CUFF.982 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 12;314 N alternative_donor CUFF.995 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 495;3 N jcn_only_AA CUFF.941 chr3 - chr3:33614847-33617660 chr3:33615989-33617660 chr3:33614847-33615988 chr3:33614846-33614847 110;27 N alternative_acceptor CUFF.953 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 22;76 N jcn_only_AD CUFF.941 chr3 - chr3:33614847-33617660;chr3:33614847-33614931 chr3:33614847-33615964 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 112;24 K intron_retention CUFF.950 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 102;38 N alternative_donor chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 28;55 N cassette CUFF.983 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 41;173 N jcn_only_AD CUFF.935 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 94;216 N alternative_acceptor CUFF.935 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 232;21 K coord_cassette CUFF.994 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 50;55 K intron_retention CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 85;65 K alternative_donor CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 32;184 N alternative_acceptor CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 212;77 K coord_cassette CUFF.967 chr3 - chr3:107586273-107594976 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976 chr3:107591815-107591873;chr3:107594306-107594421 39;46 K intron_retention CUFF.972 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 105;37 N alternative_donor CUFF.945 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 65;2 N alternative_donor CUFF.951,CUFF.983 chr3 - chr3:125752522-125769785 chr3:125752522-125769740 chr3:125769741-125769785 chr3:125769785-125769786 344;17 K jcn_only_AA CUFF.940 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 42;62 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93692517 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 155;2 N jcn_only_AD CUFF.967 chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 23;36 N alternative_donor CUFF.951,CUFF.995 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 467;7 N alternative_donor CUFF.935 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 22;4 K alternative_last_exon CUFF.942 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638203-33638226 chr3:33643903-33644081 12;20 N alternative_donor CUFF.976 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 92;7 K alternative_acceptor CUFF.976,CUFF.985 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 7;75 K alternative_first_exon CUFF.982 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635463-125635562 chr3:125635632-125635660 285;4 N alternative_acceptor CUFF.967 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 5;36 N alternative_acceptor CUFF.967 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 40;1 K alternative_first_exon CUFF.945 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071330 chr3:38065647-38066084 85;53 N alternative_donor CUFF.933,CUFF.958 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 34;0 N alternative_donor CUFF.954 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 340;26 K cassette CUFF.974 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 25;8 N alternative_donor CUFF.857 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 58;38 N jcn_only_AA CUFF.817 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 7;19 N alternative_donor CUFF.742 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 153;1 N alternative_donor CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 555;2 K alternative_acceptor CUFF.739 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 342;14 N jcn_only_AD CUFF.758 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 24;18 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 115;13 N jcn_only_AD chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 118;84 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 29;202 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 15;144 K intron_retention CUFF.788 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 23;20 N alternative_acceptor CUFF.774 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 37;28 K intron_retention CUFF.856 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 10;20 N jcn_only_AA CUFF.743,CUFF.851 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 499;43 N jcn_only_AD CUFF.766 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 4;5 K alternative_donor CUFF.774 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 360;29 K jcn_only_AD CUFF.794 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 115;31 N alternative_donor CUFF.753 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 50;2 N alternative_acceptor chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 5;6 N alternative_acceptor CUFF.736 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 13;44 N jcn_only_AA CUFF.851 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 61;65 N alternative_donor chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 9;0 N jcn_only_AD CUFF.794 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 23;40 N alternative_donor CUFF.766 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 4;0 N intron_retention chr2 - chr2:262787-264781 chr2:262786-262787;chr2:264781-264782 10;5 N alternative_donor CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 10;547 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 49;21 N coord_cassette CUFF.814 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169674681;chr2:169674807-169681143 chr2:169668077-169668162;chr2:169674682-169674806 20;201 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 207;12 K cassette CUFF.753 chr2 - chr2:27668317-27668611 chr2:27668317-27668419;chr2:27668497-27668611 chr2:27668420-27668496 157;27 K alternative_acceptor CUFF.786 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 39;37 K cassette CUFF.806 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 79;145 N jcn_only_AA CUFF.769 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 14;12 N alternative_acceptor CUFF.796 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 32;0 N alternative_donor CUFF.856 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42180867-42181155 chr2:42181155-42181156 86;1 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 14;12 K jcn_only_AA CUFF.821 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 49;10 N cassette CUFF.780 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 36;167 K alternative_donor CUFF.755,CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 61;328 N alternative_donor CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 48;48 N jcn_only_AD CUFF.846 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 264;2 N jcn_only_AD CUFF.739 chr2 - chr2:175689247-175711042 chr2:175689247-175711036 20;15 K intron_retention CUFF.796 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 2;12 N alternative_donor chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 9;0 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 99;5 N alternative_acceptor CUFF.736 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 56;1 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 100;49 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 27;0 K intron_retention CUFF.846 chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 95;91 N mutually_exclusive CUFF.835 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 29;11 N alternative_donor CUFF.846 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 258;2 K jcn_only_AD CUFF.755,CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 73;335 N intron_retention chr2 - chr2:253116-264781 chr2:253115-253116;chr2:264781-264782 71;6 N intron_retention chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 26;17 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 18;29 N jcn_only_AA CUFF.857 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 547;10 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 27;0 K alternative_acceptor CUFF.796,CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 49;169 N coord_cassette CUFF.794 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 20;84 N alternative_donor CUFF.742 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 186;0 K intron_retention CUFF.824 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 423;40 K alternative_first_exon CUFF.739 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:287163-287261;chr2:287583-287892 chr2:286870-286951 88;168 N jcn_only_AD CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 245;21 K intron_retention CUFF.796 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 13;33 K intron_retention CUFF.855 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 119;13 N jcn_only_AA CUFF.736 chr2 - chr2:242177-243502;chr2:234273-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 56;214 K alternative_donor CUFF.794 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 115;15 K jcn_only_AA CUFF.743,CUFF.796 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 30;7 N cassette CUFF.736 chr2 - chr2:262787-264781;chr2:253116-264083;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263373-264781,chr2:263373-264083 chr2:263211-263372 106;244 N jcn_only_AA chr2 + chr2:1079342-1204788 chr2:1079342-1093881 12;173 K alternative_last_exon CUFF.742,CUFF.756 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1263142-1263213 chr2:1260177-1260378 117;441 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241375502-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241396887-241398446 chr2:241392428-241392511;chr2:241375088-241375501;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241396815-241396886 75;12 N alternative_donor chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 0;9 K alternative_first_exon CUFF.739 chr2 - chr2:286344-287162;chr2:286344-286869 chr2:286344-287582 chr2:287163-287261;chr2:286870-286951 chr2:287583-287892 191;65 N jcn_only_AD chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 31;9 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241394438-241398446 chr2:241397535-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241375088-241375501;chr2:241394416-241394437 chr2:241397375-241397534 73;14 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 40;54 K intron_retention CUFF.748 chr2 - chr2:11593849-11597304 chr2:11593848-11593849;chr2:11597304-11597305 5;109 K intron_retention CUFF.856 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 246;25 K alternative_acceptor CUFF.753 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 4;35 K alternative_last_exon CUFF.844 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458831-219461803 chr2:219458251-219458574 42;12 N jcn_only_AA CUFF.794 chr2 + chr2:101565943-101579216;chr2:101565943-101580519 chr2:101565943-101584742 228;23 N alternative_acceptor CUFF.792 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 210;22 N cassette CUFF.856 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441215-242447420 chr2:242440893-242441214 21;433 K cassette CUFF.750 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 7;16 K jcn_only_AD CUFF.827 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 10;32 N cassette CUFF.856 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 18;273 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 5;12 K cassette CUFF.851 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927408-231931619 chr2:231927220-231927407 6;33 N cassette CUFF.814 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 20;165 K alternative_donor CUFF.796 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 60;11 N alternative_donor CUFF.806 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 154;27 N cassette CUFF.736 chr2 - chr2:253116-263210;chr2:253116-262630 chr2:253116-260084;chr2:260703-262630,chr2:260703-263210 chr2:260085-260702 199;307 K alternative_first_exon CUFF.854 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476430-237476484 chr2:237478486-237478567 32;9 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 39;19 N jcn_only_AA CUFF.798 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 48;5 N jcn_only_AD chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 19;21 N alternative_donor CUFF.796 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 32;0 N jcn_only_AA CUFF.736 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 237;7 K intron_retention CUFF.856 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 355;93 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 11;12 K coord_cassette CUFF.844 chr2 + chr2:219433702-219445283 chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283 chr2:219438444-219438514;chr2:219438714-219438956 64;97 K intron_retention CUFF.846 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 43;136 K intron_retention CUFF.784 chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 352;177 N cassette CUFF.825 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 15;61 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 95;10 N alternative_acceptor CUFF.741,CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 17;23 K alternative_donor CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 357;32 N jcn_only_AD CUFF.821 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 49;10 N alternative_acceptor CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 32;8 N jcn_only_AA CUFF.736 chr2 - chr2:263369-264781;chr2:263763-264781 chr2:263373-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 118;202 K cassette CUFF.818 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 13;34 N jcn_only_AA CUFF.830,CUFF.844 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 385;12 N jcn_only_AA chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 5;6 K alternative_last_exon CUFF.742,CUFF.804 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328645 chr2:139326565-139326796 16;28 N jcn_only_AA CUFF.741,CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 20;35 K alternative_first_exon CUFF.788 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893682 11;67 K alternative_first_exon CUFF.834 chr2 + chr2:200496619-200512396 chr2:200511903-200512396 chr2:200494969-200496618 chr2:200511816-200511902 102;9 N cassette CUFF.736 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 85;116 K intron_retention CUFF.846 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 65;76 K alternative_first_exon CUFF.838 chr2 + chr2:207630472-207631367,chr2:207630243-207631367;chr2:207630379-207631367 chr2:207630487-207631367 chr2:207630081-207630378 chr2:207630477-207630486 41;10 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73298732;chr2:73285726-73302708 chr2:73285726-73286222,chr2:73285726-73286136 chr2:73298169-73298261;chr2:73298733-73298955;chr2:73302709-73302841 chr2:73286223-73286301 453;33 K intron_retention CUFF.856 chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 19;19 K alternative_acceptor CUFF.851 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 27;14 N alternative_donor CUFF.805 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 3;0 K intron_retention CUFF.838 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 64;60 N alternative_donor CUFF.830 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 385;3 N cassette CUFF.835 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 90;33 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 26;6 N jcn_only_AA chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 26;5 N alternative_donor CUFF.794 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 173;25 K intron_retention CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 136;38 K jcn_only_AA CUFF.835 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 21;181 N alternative_acceptor CUFF.784 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 109;350 K intron_retention CUFF.798 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 175;31 K jcn_only_AA CUFF.739 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 342;28 N jcn_only_AD CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 38;48 N cassette CUFF.756 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 137;45 N jcn_only_AD CUFF.763 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 12;51 N alternative_acceptor CUFF.798 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 362;4 K cassette CUFF.833 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 86;15 N coord_cassette CUFF.857 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 11;98 K alternative_last_exon CUFF.742,CUFF.818 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171300477-171300556 chr2:171268211-171268928 32;109 N cassette CUFF.806 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 143;95 N jcn_only_AD CUFF.780 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 137;101 N jcn_only_AA chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 5;113 K intron_retention CUFF.763 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 52;25 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 19;71 K alternative_first_exon CUFF.830 chr2 + chr2:191334376-191334483;chr2:191302288-191334483 chr2:191307732-191334483 chr2:191300703-191302287 chr2:191307282-191307731 298;95 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 91;13 N jcn_only_AD CUFF.736 chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 34;36 K alternative_donor CUFF.780 chr2 - chr2:73285726-73286222 chr2:73285726-73286136 chr2:73286137-73286222 chr2:73286222-73286223 29;17 N alternative_donor CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 17;243 K intron_retention CUFF.857 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 159;20 N alternative_acceptor CUFF.758,CUFF.805 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 3;0 K alternative_last_exon CUFF.754 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732659 21;56 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031481-208031566;chr2:208031718-208032063 chr2:208030637-208030715 106;26 N alternative_acceptor CUFF.769 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 14;21 N jcn_only_AA CUFF.752 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 24;10 N jcn_only_AA CUFF.736 chr2 - chr2:263763-264781;chr2:263373-264781 chr2:263369-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 218;102 K intron_retention CUFF.769 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 55;40 N jcn_only_AA CUFF.796 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 10;15 K intron_retention CUFF.857 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 96;69 K alternative_first_exon CUFF.774,CUFF.840 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089589 103;57 K mutually_exclusive CUFF.786 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 5;82 N alternative_acceptor CUFF.817 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 7;15 N alternative_donor CUFF.756 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 32;9 K cassette CUFF.834 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 43;48 K alternative_last_exon CUFF.742 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1251099-1251215 chr2:1246510-1246549 190;4 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 35;202 N alternative_donor CUFF.847 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 1;3 K jcn_only_AD CUFF.777 chr2 - chr2:69870407-69870923 chr2:69870407-69870706 chr2:69870707-69870923 chr2:69870923-69870924 32;116 K intron_retention CUFF.841 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 334;44 N coord_cassette CUFF.748 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 42;188 K alternative_acceptor CUFF.736 chr2 - chr2:262751-263210 chr2:262787-263210 chr2:262751-262786 chr2:262750-262751 39;180 N cassette CUFF.846 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981 chr2:220096650-220096762 65;267 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 26;75 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 78;152 K coord_cassette CUFF.769 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 34;77 K coord_cassette CUFF.835 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 54;21 K jcn_only_AA CUFF.753 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 4;41 N alternative_acceptor CUFF.736 chr2 - chr2:263369-264781;chr2:263373-264781 chr2:263763-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 219;41 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73298732;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73302708 chr2:73298169-73298261;chr2:73298733-73298955;chr2:73286223-73286301 chr2:73302709-73302841 373;113 N alternative_donor CUFF.794 chr2 + chr2:101565943-101580519 chr2:101579296-101580519 chr2:101565943-101579295 chr2:101565942-101565943 213;0 K intron_retention CUFF.856 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 7;16 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 57;13 N jcn_only_AA CUFF.798 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 362;30 K alternative_first_exon CUFF.794 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436577-101436876 chr2:101437400-101437661 9;92 K coord_cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 15;26 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 39;11 N intron_retention chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 43;42 N jcn_only_AD CUFF.769 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 157;17 N coord_cassette CUFF.806 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 35;4 K intron_retention CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 58;51 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 116;115 K alternative_first_exon CUFF.806 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585520-160585686 chr2:160590509-160590593 112;17 N coord_cassette CUFF.824 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 19;482 K intron_retention CUFF.753 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 151;29 N jcn_only_AD CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 564;11 N jcn_only_AD CUFF.805 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 3;7 N jcn_only_AA CUFF.736 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 227;44 K jcn_only_AA CUFF.856 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 197;52 N alternative_donor CUFF.839 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 92;50 N alternative_donor chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 25;2 N cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 52;117 N jcn_only_AD CUFF.857 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 559;17 N jcn_only_AA CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 47;8 K alternative_last_exon CUFF.743 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3464034-3464107 chr2:3461566-3461942 260;213 N alternative_donor CUFF.740,CUFF.752 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 24;0 N jcn_only_AA chr2 + chr2:101565943-101579216;chr2:101565943-101584742 chr2:101565943-101580519 37;213 K intron_retention CUFF.846 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 136;11 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 20;3 N jcn_only_AD CUFF.825,CUFF.835 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 101;47 K cassette CUFF.825 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 52;331 N cassette CUFF.806 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 32;11 K alternative_acceptor CUFF.856 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 197;49 N jcn_only_AA CUFF.792 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 210;41 K cassette CUFF.751 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 10;92 N coord_cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 52;71 K intron_retention CUFF.753 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 69;8 N jcn_only_AD chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 26;81 K intron_retention CUFF.846 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 247;120 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 476;7 N alternative_acceptor CUFF.830,CUFF.844 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 385;4 N alternative_donor CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 245;15 K intron_retention CUFF.753 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 47;11 N alternative_acceptor CUFF.742 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 61;5 N cassette CUFF.753 chr2 - chr2:27676381-27676848 chr2:27676381-27676496;chr2:27676607-27676848 chr2:27676497-27676606 10;51 N alternative_acceptor CUFF.857 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 547;0 K jcn_only_AA CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 62;39 K coord_cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007227-4007505 chr2:4006842-4006985;chr2:4007154-4007226 15;24 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 13;28 K jcn_only_AA CUFF.786 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 39;51 K jcn_only_AD CUFF.796 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 60;22 K intron_retention CUFF.736 chr2 - chr2:263373-264781 chr2:263372-263373;chr2:264781-264782 202;19 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3481462;chr2:3481567-3482616 chr2:3481463-3481566 40;167 K jcn_only_AA CUFF.787 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 94;53 K alternative_donor CUFF.777 chr2 - chr2:69870407-69870923 chr2:69870407-69870706 chr2:69870707-69870923 chr2:69870923-69870924 32;87 N jcn_only_AD CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 28;547 K intron_retention CUFF.784 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 200;80 N alternative_donor CUFF.796 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 14;32 N intron_retention chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 5;3 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 5;491 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 26;79 N intron_retention CUFF.736 chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 17;31 K intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 155;8 K intron_retention CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 51;35 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 25;2 N intron_retention chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 9;15 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 14;3 N alternative_acceptor CUFF.736 chr2 - chr2:242177-243502;chr2:234273-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 45;12 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 15;71 K alternative_acceptor CUFF.855 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 81;38 N jcn_only_AD CUFF.777,CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 136;9 K cassette CUFF.751 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 12;53 N cassette CUFF.851 chr2 + chr2:232026224-232029913 chr2:232026224-232028348;chr2:232028442-232029913 chr2:232028349-232028441 16;31 K alternative_first_exon CUFF.786 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422683 chr2:86422045-86422125 114;27 N cassette CUFF.857 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 504;96 K intron_retention CUFF.792 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 7;116 N jcn_only_AA CUFF.794 chr2 + chr2:101565943-101584742;chr2:101565943-101580519 chr2:101565943-101579216 236;14 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241394438-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241375088-241375501;chr2:241397375-241397534 chr2:241394416-241394437 78;9 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 13;66 N alternative_acceptor CUFF.758 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 44;5 N intron_retention chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 24;5 N jcn_only_AD CUFF.788 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 5;5 N jcn_only_AA CUFF.784 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 109;710 K alternative_donor CUFF.743 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 3;29 K intron_retention CUFF.841 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 31;31 K cassette CUFF.743 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 331;121 N alternative_acceptor CUFF.756 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 31;9 K intron_retention CUFF.758 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 38;34 N coord_cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 52;116 K cassette CUFF.780 chr2 - chr2:73268061-73285656 chr2:73268061-73269616;chr2:73269715-73285656 chr2:73269617-73269714 379;14 K mutually_exclusive CUFF.743 chr2 + chr2:3469467-3481462,chr2:3481567-3482616 chr2:3469467-3470024,chr2:3470165-3482616 chr2:3481463-3481566 chr2:3470025-3470164 168;48 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194425-25194486;chr2:25194285-25194376 chr2:25194687-25194963 164;22 K alternative_first_exon CUFF.814 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169658891-169659183 chr2:169667853-169667935 199;9 N jcn_only_AA CUFF.824 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 5;423 N alternative_donor CUFF.857 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 549;8 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 14;53 N jcn_only_AD CUFF.857 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 56;30 N cassette CUFF.857 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 432;151 N jcn_only_AA CUFF.758,CUFF.805 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 3;6 N cassette CUFF.796 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 8;15 K cassette CUFF.763 chr2 - chr2:46808731-46819613 chr2:46808731-46818941;chr2:46819065-46819613 chr2:46818942-46819064 47;19 N alternative_donor CUFF.840 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 5;434 K alternative_last_exon CUFF.796 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091991-109092091 chr2:109091245-109091853 1;140 N alternative_acceptor CUFF.824 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 2118;2 N cassette CUFF.856 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 21;521 N jcn_only_AA CUFF.796 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 32;11 K alternative_first_exon CUFF.825 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177053147-177053344 chr2:177052793-177053066 39;79 N alternative_donor CUFF.814 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 73;32 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208031481-208031566;chr2:208030637-208030715 chr2:208031718-208032063 36;96 N alternative_donor CUFF.769 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 157;24 N intron_retention chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 48;12 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194425-25194486;chr2:25194687-25194963 chr2:25194285-25194376 38;148 N alternative_acceptor CUFF.754 chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 118;6 N jcn_only_AD CUFF.758 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 87;60 K mutually_exclusive CUFF.743 chr2 + chr2:3469467-3481465,chr2:3481567-3482616 chr2:3469467-3470024,chr2:3470165-3482616 chr2:3481466-3481566 chr2:3470025-3470164 194;48 K intron_retention CUFF.739 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 301;15 K intron_retention CUFF.857 chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 48;45 N intron_retention CUFF.736 chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 12;19 N jcn_only_AA CUFF.821 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 73;14 K cassette CUFF.742 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 114;27 K alternative_last_exon CUFF.823 chr2 - chr2:175234743-175243650;chr2:175216454-175243650 chr2:175223265-175243650 chr2:175216347-175216453 chr2:175222893-175223264 31;76 N alternative_donor CUFF.788 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 5;24 N cassette CUFF.736 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 81;203 K mutually_exclusive CUFF.808 chr2 - chr2:166714915-166721493,chr2:166721588-166727306 chr2:166714915-166719453,chr2:166719576-166727306 chr2:166721494-166721587 chr2:166719454-166719575 48;9 K intron_retention CUFF.745 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 39;140 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298732;chr2:73285726-73302708;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73298168 chr2:73298733-73298955;chr2:73302709-73302841;chr2:73286223-73286301 chr2:73298169-73298261 402;84 K cassette CUFF.736 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 88;447 N cassette CUFF.780 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 27;406 K intron_retention CUFF.753 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 28;13 N jcn_only_AD CUFF.856 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42180867-42181155 chr2:42181155-42181156 86;4 K intron_retention CUFF.846 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 127;48 K intron_retention CUFF.808 chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 74;17 N jcn_only_AA CUFF.847 chr2 + chr2:228158034-228159205 chr2:228158034-228158458 chr2:228158459-228159205 chr2:228159205-228159206 2;26 N jcn_only_AD CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 22;243 K intron_retention CUFF.763 chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 39;5 N jcn_only_AD CUFF.736 chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 219;12 N alternative_acceptor CUFF.798 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 136;56 N alternative_acceptor chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 5;55 K alternative_first_exon CUFF.742 chr2 + chr2:1159412-1161233;chr2:1133496-1161233 chr2:1158976-1161233 chr2:1133454-1133495 chr2:1158928-1158975 135;106 K jcn_only_AD CUFF.786 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 169;142 K cassette CUFF.742 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 9;130 K jcn_only_AD CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 376;32 K intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 36;68 N jcn_only_AD CUFF.796 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 14;6 N jcn_only_AD CUFF.758 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 36;6 K intron_retention CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 73;19 N jcn_only_AD CUFF.794 chr2 + chr2:101565943-101580519 chr2:101579296-101580519 chr2:101565943-101579295 chr2:101565942-101565943 213;21 K jcn_only_AD CUFF.803 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 9;11 K cassette CUFF.752 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 156;148 K intron_retention CUFF.740 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 19;85 K intron_retention CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 157;3 N jcn_only_AD chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 29;11 K mutually_exclusive CUFF.806 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 112;65 K intron_retention CUFF.856 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 188;88 K cassette CUFF.844 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 21;17 K alternative_last_exon CUFF.808 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732675-166732742 chr2:166736150-166736477 55;23 N alternative_donor CUFF.742 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 20;1 N cassette CUFF.857 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 11;357 K cassette CUFF.786 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 8;126 N jcn_only_AD CUFF.753 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 50;36 N intron_retention CUFF.798 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 9;37 N jcn_only_AD CUFF.756 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 32;18 K alternative_last_exon CUFF.835 chr2 - chr2:204306804-204309590;chr2:204259813-204309590 chr2:204306137-204309590 chr2:204306192-204306803;chr2:204259068-204259812 chr2:204306092-204306136 74;9 N alternative_donor CUFF.777,CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 136;44 K intron_retention CUFF.769 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 36;63 N alternative_acceptor CUFF.752 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 24;1 K intron_retention CUFF.769 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 78;475 N alternative_donor CUFF.758 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 2;18 N mutually_exclusive CUFF.780 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 29;8 K alternative_last_exon CUFF.754 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27726381-27726486 chr2:27724557-27724676 33;14 K alternative_acceptor CUFF.787 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 94;82 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 84;20 N jcn_only_AD CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 78;8 K mutually_exclusive CUFF.786 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 4;82 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 27;0 K cassette CUFF.847 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 39;3 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 21;24 N jcn_only_AA CUFF.774 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 37;62 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 53;75 N jcn_only_AD CUFF.742 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 12;198 N jcn_only_AD CUFF.805 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 2;1 N alternative_donor chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 26;30 N mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042550-177042742 chr2:177041421-177042059,chr2:177042223-177042742 chr2:177042439-177042549 chr2:177042060-177042222 32;118 N jcn_only_AA CUFF.798 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 12;298 N jcn_only_AD CUFF.798 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 362;20 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 22;40 K intron_retention CUFF.763 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 21;9 N jcn_only_AD CUFF.758 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 214;14 K mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042550-177042730 chr2:177041421-177042059,chr2:177042223-177042730 chr2:177042439-177042549 chr2:177042060-177042222 32;118 N coord_cassette CUFF.766 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 15;28 N jcn_only_AD CUFF.806 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 154;50 K intron_retention CUFF.786 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 56;33 N jcn_only_AD chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 16;7 K cassette CUFF.814 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 18;130 N alternative_donor CUFF.753 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 21;41 N alternative_donor chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 16;3 N alternative_donor CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 34;2 N jcn_only_AD CUFF.743 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 362;17 N alternative_donor CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 86;10 K intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 67;59 K intron_retention CUFF.743 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 349;53 K alternative_donor CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927408-231931619 chr2:231927390-231927407 chr2:231927389-231927390 12;13 N coord_cassette CUFF.857 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 11;62 N alternative_donor CUFF.824 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 2118;5 K coord_cassette CUFF.846 chr2 + chr2:220094623-220097211 chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211 chr2:220096650-220096762;chr2:220096982-220097084 83;273 N mutually_exclusive CUFF.824 chr2 - chr2:175689247-175742567,chr2:175742857-175779785 chr2:175689247-175711607,chr2:175711686-175779785 chr2:175742568-175742856 chr2:175711608-175711685 675;282 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 237;8 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 10;21 K intron_retention CUFF.789 chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 6;2 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 8;38 N cassette CUFF.856 chr2 - chr2:242441124-242447857 chr2:242441124-242443452;chr2:242443512-242447857 chr2:242443453-242443511 32;10 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 5;20 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241375502-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241375088-241375501 71;16 K jcn_only_AD CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927408-231931619 chr2:231927390-231927407 chr2:231927389-231927390 12;22 N jcn_only_AA CUFF.818 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 31;1 K alternative_first_exon CUFF.755 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440498 6;105 N alternative_donor CUFF.798 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 362;1 K cassette CUFF.839 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 130;29 K cassette CUFF.814 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 93;12 K alternative_donor CUFF.736 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 184;430 N alternative_acceptor CUFF.736 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 365;7 N intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 61;130 K cassette CUFF.743 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 48;73 N jcn_only_AD CUFF.742 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 186;10 N jcn_only_AD chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 90;14 N alternative_donor chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 118;1 N jcn_only_AA CUFF.742 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 61;36 N alternative_donor CUFF.821 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 49;0 N coord_cassette CUFF.818 chr2 + chr2:171300557-171371430 chr2:171300557-171319877;chr2:171319956-171323015;chr2:171323222-171355101;chr2:171355214-171356155;chr2:171356319-171371430 chr2:171319878-171319955;chr2:171323016-171323221;chr2:171355102-171355213;chr2:171356156-171356318 4;30 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73302708;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73298732 chr2:73298169-73298261;chr2:73302709-73302841;chr2:73286223-73286301 chr2:73298733-73298955 281;205 N alternative_acceptor CUFF.736 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 237;4 K cassette CUFF.748 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 104;124 K alternative_donor CUFF.803 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 9;6 N jcn_only_AA CUFF.756 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 43;12 N coord_cassette CUFF.830 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 8;33 K cassette CUFF.787 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 44;77 N alternative_acceptor CUFF.847 chr2 + chr2:228158034-228159205 chr2:228158034-228158458 chr2:228158459-228159205 chr2:228159205-228159206 2;20 N alternative_acceptor CUFF.753 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 114;4 K jcn_only_AA CUFF.763 chr2 - chr2:46839484-46842075 chr2:46840925-46842075 39;24 N cassette CUFF.856 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 125;182 N jcn_only_AD CUFF.736 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 365;66 N jcn_only_AA CUFF.824 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 2118;87 N intron_retention CUFF.856 chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 20;28 N jcn_only_AD CUFF.824 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 2118;85 K jcn_only_AD CUFF.780 chr2 - chr2:73285726-73286222 chr2:73285726-73286136 chr2:73286137-73286222 chr2:73286222-73286223 29;18 K cassette CUFF.846 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 95;167 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 22;19 K cassette CUFF.844 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 64;68 N coord_cassette CUFF.736 chr2 - chr2:253116-264781 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263373-264781 chr2:260085-260702;chr2:262631-262786;chr2:263211-263372 71;99 K intron_retention CUFF.840 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 5;43 K jcn_only_AA CUFF.796,CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 49;334 N alternative_donor CUFF.780 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 137;4 N cassette CUFF.736 chr2 - chr2:260703-263210;chr2:253116-264781;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262787-264781,chr2:262787-263210 chr2:262631-262786 156;235 K cassette CUFF.824 chr2 - chr2:175809672-175816891 chr2:175809672-175809897;chr2:175809990-175816891 chr2:175809898-175809989 592;7 K alternative_first_exon CUFF.796 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085436-109085540 chr2:109085683-109085788 22;47 K cassette CUFF.818 chr2 + chr2:171400499-171508137 chr2:171400499-171503418;chr2:171503450-171508137 chr2:171503419-171503449 29;7 N jcn_only_AD CUFF.788 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 5;5 N jcn_only_AD CUFF.753 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 21;53 N cassette CUFF.753 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 14;157 K alternative_first_exon CUFF.756 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516688-33516854 33;29 N jcn_only_AA CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 73;17 N cassette CUFF.824 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 19;298 K alternative_first_exon CUFF.826 chr2 - chr2:177497854-177502189 chr2:177497854-177498092 chr2:177502190-177502659 chr2:177498093-177498367 15;11 K intron_retention CUFF.786 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 14;26 N jcn_only_AD CUFF.740,CUFF.752 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 24;6 N coord_cassette CUFF.736 chr2 - chr2:253116-264083 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263373-264083 chr2:260085-260702;chr2:262631-262786;chr2:263211-263372 26;46 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 40;218 K cassette CUFF.763 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 47;20 K intron_retention CUFF.740 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 2;44 N cassette CUFF.780 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 10;55 K intron_retention CUFF.853 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 22;29 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 3;2 N alternative_acceptor chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 9;0 N alternative_acceptor chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 26;9 N cassette CUFF.824 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 70;548 N jcn_only_AD CUFF.742 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 153;13 K cassette CUFF.786 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 8;130 K coord_cassette CUFF.857 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 376;48 K cassette CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 51;26 N alternative_acceptor CUFF.736 chr2 - chr2:263763-264781;chr2:263373-264781 chr2:263369-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 158;102 N jcn_only_AD CUFF.758 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 24;18 N alternative_acceptor CUFF.796,CUFF.834 chr2 + chr2:200496619-200512396 chr2:200496619-200511776 chr2:200511777-200512396 chr2:200512396-200512397 66;2 N jcn_only_AD CUFF.830 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 385;10 N jcn_only_AA CUFF.754 chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 118;198 K alternative_first_exon CUFF.743 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464034-3464107 chr2:3466835-3466842 352;11 K cassette CUFF.856 chr2 - chr2:242435950-242437030 chr2:242435950-242436714;chr2:242436794-242437030 chr2:242436715-242436793 246;11 K intron_retention CUFF.754 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 88;24 K cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007227-4007505 chr2:4007154-4007226 15;124 N intron_retention chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 57;82 N alternative_acceptor CUFF.798 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 415;15 K cassette CUFF.808 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 36;9 N coord_cassette CUFF.736 chr2 - chr2:253116-264781 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263369-264781 chr2:260085-260702;chr2:262631-262786;chr2:263211-263368 71;89 N alternative_acceptor CUFF.753 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 50;4 K cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 15;163 K alternative_acceptor CUFF.817 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 10;14 N alternative_acceptor CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 73;36 N alternative_donor CUFF.825,CUFF.835 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 101;5 K jcn_only_AA CUFF.817 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 10;3 K alternative_last_exon CUFF.743 chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3488491-3488865 chr2:3482990-3483343 138;425 K intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 70;61 K intron_retention CUFF.754 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 104;14 K intron_retention CUFF.857 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 8;39 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 2;24 N cassette CUFF.740 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 30;118 K alternative_first_exon CUFF.750 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535524-16535568 chr2:16536421-16536535 6;20 N alternative_donor CUFF.758 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 20;0 N jcn_only_AD CUFF.736 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 26;48 K alternative_last_exon CUFF.742,CUFF.743 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 108;28 N alternative_acceptor CUFF.851 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 61;2 K intron_retention CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 49;52 K cassette CUFF.851 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 6;29 K cassette CUFF.745 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 236;33 N alternative_donor CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 67;75 K intron_retention CUFF.846 chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 243;25 K jcn_only_AD CUFF.736 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 184;279 N alternative_acceptor CUFF.798 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 48;10 N mutually_exclusive CUFF.824 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 37;22 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 51;491 N alternative_donor CUFF.788 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 5;0 K intron_retention CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 34;43 K jcn_only_AA CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 58;22 K intron_retention CUFF.846 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 212;81 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 67;152 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 164;55 K alternative_last_exon CUFF.835 chr2 - chr2:204306137-204309590;chr2:204306804-204309590 chr2:204259813-204309590 chr2:204306092-204306136;chr2:204306192-204306803 chr2:204259068-204259812 74;9 N alternative_acceptor CUFF.736 chr2 - chr2:263369-264781;chr2:263763-264781 chr2:263373-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 143;117 N alternative_donor CUFF.805 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 2;0 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 172;57 N jcn_only_AA CUFF.798 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 136;18 K cassette CUFF.818 chr2 + chr2:171376051-171399415 chr2:171376051-171381014;chr2:171381137-171399415 chr2:171381015-171381136 30;20 K intron_retention CUFF.841 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 515;247 N jcn_only_AD CUFF.847 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 1;7 N alternative_acceptor CUFF.743 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 495;1 K jcn_only_AA CUFF.855 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 81;63 N intron_retention chr2 - chr2:48873754-48874167 chr2:48873753-48873754;chr2:48874167-48874168 2;32 N alternative_donor CUFF.758 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 214;4 N jcn_only_AA CUFF.736 chr2 - chr2:263369-264781;chr2:263373-264781 chr2:263763-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 304;16 N alternative_donor CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 157;10 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 5;17 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3470024;chr2:3470165-3482616 chr2:3470025-3470164 40;48 K intron_retention CUFF.846 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 237;13 K intron_retention CUFF.753 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 11;43 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 2;2 K cassette CUFF.856 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 10;210 N alternative_acceptor CUFF.796 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 10;11 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 12;53 K cassette CUFF.792 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 16;185 N cassette CUFF.780 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 141;80 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 88;40 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 2;0 K jcn_only_AA CUFF.736 chr2 - chr2:262751-263210 chr2:262787-263210 chr2:262751-262786 chr2:262750-262751 39;237 K jcn_only_AA CUFF.851 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 27;14 K intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 110;63 N intron_retention chr2 + chr2:169712721-169713199 chr2:169712720-169712721;chr2:169713199-169713200 29;20 N intron_retention CUFF.736 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 11;77 N alternative_donor CUFF.743 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 362;83 K cassette CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 51;38 N jcn_only_AD CUFF.794 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 173;182 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 211;12 K alternative_first_exon CUFF.763,CUFF.839 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46844109-46844258 chr2:46843726-46843824 47;14 N intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 36;1167 K intron_retention CUFF.736 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 402;43 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 93;83 N jcn_only_AA CUFF.753 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 114;7 N mutually_exclusive CUFF.857 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 19;13 K cassette CUFF.755 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 11;107 N alternative_donor CUFF.736,CUFF.762 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 209;28 K intron_retention CUFF.769 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 37;43 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 478;70 N alternative_first_exon chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676799 12;45 K jcn_only_AD CUFF.774 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 366;41 K intron_retention CUFF.856 chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 65;85 N alternative_donor CUFF.758 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 87;1 N cassette CUFF.736 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 402;243 K cassette CUFF.808 chr2 - chr2:166714915-166727306 chr2:166714915-166721493;chr2:166721588-166727306 chr2:166721494-166721587 36;48 N jcn_only_AD CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 157;36 K alternative_donor CUFF.786 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 169;83 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208030715;chr2:208031718-208032063 chr2:208031481-208031566 122;10 K alternative_first_exon CUFF.777,CUFF.788 chr2 - chr2:69870407-69870874;chr2:69870407-69901154 chr2:69870407-69870923,chr2:69870407-69870706 chr2:69901155-69901243 chr2:69870924-69871160 59;120 N jcn_only_AA CUFF.736 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 258;13 K intron_retention CUFF.857 chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 128;11 N alternative_donor CUFF.758 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 18;2 N intron_retention CUFF.740 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 29;74 N cassette CUFF.780 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 11;182 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 11;20 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 30;38 K alternative_first_exon CUFF.818 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034595-171034799 chr2:171036659-171036691 6;5 N alternative_donor CUFF.736 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 365;3 K alternative_last_exon CUFF.758 chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38294125-38294220 chr2:38244329-38244378 84;68 K cassette CUFF.748 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 164;78 K cassette CUFF.844 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 40;37 N alternative_donor CUFF.736 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 26;39 N jcn_only_AA CUFF.743 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 534;9 N jcn_only_AD CUFF.814 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 73;29 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 196;61 N cassette CUFF.835 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 65;50 N alternative_acceptor CUFF.743,CUFF.851 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 492;4 K alternative_first_exon CUFF.743 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393395-3393550 131;85 N alternative_donor CUFF.769,CUFF.786 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 24;3 N alternative_acceptor CUFF.821 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 73;6 K intron_retention CUFF.747 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 18;30 K alternative_first_exon CUFF.739 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:286870-286951;chr2:287583-287892 chr2:287163-287261 233;23 K cassette CUFF.814 chr2 + chr2:169668163-169681143 chr2:169668163-169674681;chr2:169674807-169681143 chr2:169674682-169674806 35;201 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194376;chr2:25194687-25194963 chr2:25194425-25194486 170;16 N jcn_only_AA chr2 - chr2:242439697-242448637 chr2:242441124-242448637 51;198 K alternative_acceptor CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 58;41 N intron_retention chr2 - chr2:263763-264781 chr2:263762-263763;chr2:264781-264782 16;21 K jcn_only_AD CUFF.743 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 3;39 N coord_cassette CUFF.780 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 10;100 K cassette CUFF.754 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 56;40 N jcn_only_AD CUFF.796 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 32;14 K intron_retention CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 62;138 K intron_retention CUFF.784 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 752;148 N jcn_only_AA chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 9;88 N jcn_only_AA CUFF.796,CUFF.834 chr2 + chr2:200496619-200512396 chr2:200496619-200511776 chr2:200511777-200512396 chr2:200512396-200512397 66;3 K alternative_acceptor CUFF.835 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 21;90 K intron_retention CUFF.856 chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 152;62 K intron_retention CUFF.763 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 24;12 K coord_cassette CUFF.824 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 40;496 K alternative_last_exon CUFF.826 chr2 - chr2:177497854-177502189 chr2:177498469-177502189 chr2:177497761-177497853 chr2:177498423-177498468 9;9 K mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 27;116 K alternative_acceptor CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 62;96 K intron_retention CUFF.857 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 189;7 N coord_cassette CUFF.753 chr2 - chr2:27668317-27668795 chr2:27668317-27668419;chr2:27668497-27668611;chr2:27668711-27668795 chr2:27668420-27668496;chr2:27668612-27668710 14;33 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 102;3 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 20;9 N cassette CUFF.756 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 52;178 K cassette CUFF.824 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 619;660 N jcn_only_AD CUFF.840 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 5;734 K mutually_exclusive CUFF.763 chr2 - chr2:46808731-46818941,chr2:46819065-46819613 chr2:46808731-46815213,chr2:46815319-46819613 chr2:46818942-46819064 chr2:46815214-46815318 19;20 N alternative_donor CUFF.736 chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 230;7 N alternative_acceptor CUFF.753 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 60;3 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 34;58 K cassette CUFF.745 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009394-4021134 chr2:4009360-4009393 9;30 K alternative_first_exon CUFF.739,CUFF.763 chr2 - chr2:46839484-46842075 chr2:46839484-46840832 chr2:46842076-46842324 chr2:46840833-46841045 47;30 N jcn_only_AD CUFF.742 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 20;7 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241392512-241398446 chr2:241396815-241396886;chr2:241375088-241375501;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241392428-241392511 55;32 K jcn_only_AD CUFF.755 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 82;92 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 22;34 K coord_cassette CUFF.814 chr2 + chr2:169668163-169684667 chr2:169668163-169674681;chr2:169674807-169681143;chr2:169681228-169684667 chr2:169674682-169674806;chr2:169681144-169681227 18;189 N jcn_only_AA CUFF.798 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 415;37 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 36;226 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 7;20 K coord_cassette CUFF.841 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 384;37 N alternative_donor CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 125;17 N intron_retention CUFF.814 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 17;13 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 210;20 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 4;9 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 44;54 N jcn_only_AD CUFF.769,CUFF.786 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 65;39 K alternative_first_exon CUFF.758 chr2 + chr2:38177739-38201182;chr2:38156873-38201182 chr2:38179345-38201182 chr2:38156405-38156872 chr2:38179246-38179344 122;36 N jcn_only_AA CUFF.753 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 50;24 N jcn_only_AD CUFF.736,CUFF.762 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 214;17 N jcn_only_AA CUFF.758 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 44;12 N jcn_only_AD CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 34;6 N jcn_only_AA CUFF.736 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 365;93 K alternative_last_exon CUFF.835 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204306092-204306136;chr2:204259068-204259812 chr2:204306192-204306803 18;65 K intron_retention CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 12;9 N alternative_acceptor CUFF.818 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 31;1 K intron_retention CUFF.736 chr2 - chr2:263369-264781 chr2:263368-263369;chr2:264781-264782 102;20 N jcn_only_AA CUFF.753 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 60;40 N alternative_acceptor chr1 + chr1:196913069-196918584;chr1:196913069-196918565 chr1:196913069-196918746 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 17;26 N alternative_donor CUFF.108 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 256;0 K jcn_only_AD CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 13;51 N alternative_acceptor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 127;2 N alternative_acceptor CUFF.16 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 72;10 N cassette CUFF.61 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 37;13 N alternative_donor CUFF.30 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 5;2 K jcn_only_AA CUFF.16 chr1 - chr1:16909254-16918341 chr1:16916497-16918341 25;2 N alternative_donor CUFF.29 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 72;6 N intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 62;17 K alternative_first_exon CUFF.102 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817879-222817928 75;18 K cassette CUFF.29 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 44;45 K alternative_first_exon CUFF.37 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356912-54356967 chr1:54357826-54357949 41;20 K intron_retention CUFF.31 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 111;32 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 12;26 N alternative_acceptor CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 155;5 N alternative_donor CUFF.13,CUFF.75 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 13;11 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 144;222 K mutually_exclusive CUFF.30 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 43;72 N cassette CUFF.54 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 84;59 N jcn_only_AD CUFF.30 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 5;8 N alternative_donor CUFF.69 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 90;14 N jcn_only_AA CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 41;11 K alternative_donor CUFF.29 chr1 + chr1:31769923-31782890 chr1:31769944-31782890 chr1:31769923-31769943 chr1:31769922-31769923 72;16 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 451;877 K cassette CUFF.85 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 35;16 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110217369-110217890;chr1:110251103-110252171 chr1:110224431-110224456 117;23 K cassette CUFF.52 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 19;204 K cassette CUFF.49 chr1 - chr1:106132408-106145898 chr1:106132408-106143891;chr1:106144008-106145898 chr1:106143892-106144007 31;47 K alternative_last_exon CUFF.35 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53903930-53904721 30;279 K coord_cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784 chr1:106143892-106144007;chr1:106145899-106146180 105;75 N alternative_first_exon CUFF.107 chr1 + chr1:230193826-230313963 chr1:230203154-230313963 chr1:230193536-230193825 chr1:230202938-230203153 31;5 N jcn_only_AA CUFF.108,CUFF.84 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 108;16 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 85;877 K intron_retention CUFF.72 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 102;13 K alternative_first_exon CUFF.90 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129139 chr1:174128025-174128309 19;78 N alternative_acceptor CUFF.55 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 165;2 N alternative_donor chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 70;1 K coord_cassette CUFF.8 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 31;37 K cassette CUFF.78 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 34;4 K jcn_only_AD CUFF.30 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 401;117 N jcn_only_AA chr1 + chr1:196913069-196918584;chr1:196913069-196918565 chr1:196913069-196918746 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 20;26 N jcn_only_AD CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 72;29 N coord_cassette CUFF.30 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 170;171 N alternative_acceptor CUFF.108,CUFF.84 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 108;6 K cassette CUFF.81 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 59;13 N alternative_donor CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 551;0 N cassette CUFF.84 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 74;233 N alternative_donor CUFF.71 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 136;1 N alternative_donor CUFF.84 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 382;0 N cassette CUFF.71 chr1 - chr1:156449589-156452228 chr1:156449589-156450625;chr1:156450764-156452228 chr1:156450626-156450763 2;55 N jcn_only_AA CUFF.31 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 81;8 K jcn_only_AD CUFF.29 chr1 + chr1:31769923-31782890 chr1:31769944-31782890 chr1:31769923-31769943 chr1:31769922-31769923 72;21 N alternative_donor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 35;2 K intron_retention CUFF.65 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 489;63 K alternative_first_exon CUFF.21 chr1 - chr1:26231230-26231539,chr1:26231230-26232879,chr1:26231230-26233278;chr1:26231230-26232342 chr1:26231230-26231634 chr1:26232343-26232733 chr1:26231635-26232033 203;75 N alternative_acceptor CUFF.106 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 56;70 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110217369-110217890;chr1:110224431-110224456 chr1:110251103-110252171 124;16 N cassette CUFF.5 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 80;80 N jcn_only_AA CUFF.4 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 35;27 N alternative_acceptor CUFF.91 chr1 + chr1:196913069-196918584;chr1:196913069-196918746 chr1:196913069-196918565 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 32;11 N alternative_donor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 127;1 K alternative_donor CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 24;19 N alternative_acceptor CUFF.76 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 16;5 K alternative_first_exon CUFF.35 chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905787 chr1:53905100-53905250 205;53 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 106;32 N alternative_donor CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 88;15 N alternative_acceptor CUFF.76,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 6;47 K intron_retention CUFF.102 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 217;28 K alternative_acceptor CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 65;19 K cassette CUFF.104 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 48;80 N jcn_only_AD CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 68;357 N intron_retention chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 91;24 N alternative_acceptor CUFF.30 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 386;1 N cassette CUFF.86 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 197;68 N alternative_donor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 72;2 K intron_retention CUFF.35 chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 53;18 K alternative_donor CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 13;33 N cassette CUFF.84 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 11;122 K intron_retention CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 247;66 K cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106143252;chr1:106143382-106146784 chr1:106143253-106143381 105;116 N alternative_donor CUFF.81 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 29;14 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 54;430 N alternative_acceptor chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 31;13 K intron_retention CUFF.58 chr1 + chr1:145584837-145585355 chr1:145584836-145584837;chr1:145585355-145585356 30;15 N cassette CUFF.37 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370406;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370407-54370482 290;144 K cassette CUFF.58 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 31;11 K intron_retention CUFF.31 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 237;10 K alternative_last_exon CUFF.52,CUFF.76 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160156066-160156157 chr1:160152482-160152603 138;54 N cassette CUFF.71 chr1 - chr1:156449139-156450625 chr1:156449139-156449377;chr1:156449589-156450625 chr1:156449378-156449588 107;54 N jcn_only_AA CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 35;15 K alternative_last_exon CUFF.15 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383803 chr1:16382917-16383003 175;60 K jcn_only_AD CUFF.92 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 34;40 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247302021-247302059;chr1:247285277-247287173 chr1:247319720-247320519 153;51 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 24;5 K cassette CUFF.95 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 63;29 N alternative_acceptor CUFF.91 chr1 + chr1:196913069-196918746;chr1:196913069-196918565 chr1:196913069-196918584 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 37;6 N alternative_acceptor CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 19;29 N jcn_only_AA chr1 + chr1:54360029-54370338 chr1:54360029-54360111 21;144 N jcn_only_AA CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 163;9 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247319720-247320519;chr1:247302021-247302059 chr1:247285277-247287173 80;124 N jcn_only_AD CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 180;124 K jcn_only_AA CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 121;19 N cassette CUFF.91 chr1 + chr1:196913069-196919981 chr1:196913069-196918746;chr1:196918780-196919981 chr1:196918747-196918779 43;42 N alternative_acceptor CUFF.48 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 23;0 N jcn_only_AA CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 23;24 N cassette CUFF.71 chr1 - chr1:156449589-156452228 chr1:156449589-156450434;chr1:156450570-156452228 chr1:156450435-156450569 2;2 N jcn_only_AA CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 72;23 K cassette CUFF.86 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 4;221 K cassette CUFF.62 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 53;16 K jcn_only_AD CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 24;35 N jcn_only_AD CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 163;9 N alternative_first_exon CUFF.33 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188955-213189168 chr1:213188491-213188874 10;51 K cassette CUFF.65 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 9;78 K coord_cassette CUFF.84 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 46;219 K intron_retention CUFF.107 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 62;23 N jcn_only_AA CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 127;51 N alternative_acceptor CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 23;166 K jcn_only_AA CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 36;33 N alternative_donor CUFF.32 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 55;1 K coord_cassette CUFF.102 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 65;12 N jcn_only_AD CUFF.48 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 23;11 N intron_retention chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 24;349 N intron_retention chr1 - chr1:106148712-106161480 chr1:106148711-106148712;chr1:106161480-106161481 62;28 K cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106145898;chr1:106146181-106146784 chr1:106145899-106146180 105;125 K coord_cassette CUFF.81 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 59;12 K alternative_last_exon CUFF.98 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211599553-211599625 chr1:211570198-211570206 13;8 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 9;9 N cassette CUFF.29 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 11;52 K intron_retention CUFF.72 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 43;13 K jcn_only_AD CUFF.27 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 31;56 N cassette CUFF.37 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 290;249 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 31;26 N cassette CUFF.30 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 263;232 N jcn_only_AA CUFF.65 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 7;13 K intron_retention CUFF.65 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 23;11 K cassette CUFF.72 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 43;86 N coord_cassette CUFF.84 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 23;144 N jcn_only_AD chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 70;46 N coord_cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196918746;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918747-196918779;chr1:196919982-196920158 39;46 K alternative_first_exon CUFF.105 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401020 chr1:224397943-224398114 17;10 K alternative_last_exon CUFF.108,CUFF.92 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245254795 chr1:245246991-245250546 chr1:245254796-245255091 chr1:245250547-245251133 119;138 N jcn_only_AA CUFF.76 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 16;2 K intron_retention CUFF.75 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 168;32 K alternative_last_exon CUFF.21 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226596-26227578 12;261 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 54;599 N cassette CUFF.69 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 6;96 N alternative_last_exon CUFF.102 chr1 + chr1:10494748-10511433 chr1:10494748-10500403 chr1:10511434-10512212 chr1:10500404-10500470 54;40 K alternative_acceptor CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 121;15 N mutually_exclusive CUFF.54 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 5;63 K alternative_first_exon CUFF.92 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860147-200860530 chr1:200864101-200864215 34;27 N cassette CUFF.86 chr1 - chr1:169696667-169698326;chr1:169697069-169698326 chr1:169696667-169697198,chr1:169697069-169697198;chr1:169697388-169698326 chr1:169697199-169697387 187;69 N alternative_acceptor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 163;3 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 879;83 N jcn_only_AD CUFF.4 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 35;26 N jcn_only_AA CUFF.91 chr1 + chr1:196913069-196918746;chr1:196913069-196918565 chr1:196913069-196918584 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 41;5 K cassette CUFF.90 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 64;22 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 45;261 K cassette CUFF.33 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 46;72 K coord_cassette CUFF.37 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 249;61 N jcn_only_AA CUFF.48 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 23;12 N jcn_only_AD CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 88;20 K alternative_acceptor CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 500;17 N cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 39;71 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2036335-2066700;chr1:2006207-2066700 chr1:2006819-2066700 chr1:1990980-1991030;chr1:2036131-2036334;chr1:2006089-2006206 chr1:2006629-2006818 1075;154 N jcn_only_AD CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 93;86 N alternative_acceptor CUFF.84,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 213;6 N jcn_only_AA CUFF.108 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 256;14 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 37;11 K alternative_first_exon CUFF.64 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389000-153389039 chr1:153389655-153389754 1;40 K cassette CUFF.16 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 13;71 K cassette CUFF.81 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 7;12 K intron_retention CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 24;91 K intron_retention CUFF.104 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 7;16 K intron_retention CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 23;300 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 6;40 K alternative_first_exon CUFF.72 chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941644 3;158 K alternative_last_exon CUFF.106 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613758 48;23 N alternative_acceptor CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 41;1 N alternative_donor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 75;1 K intron_retention CUFF.33 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 55;28 N jcn_only_AD chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 6;31 K cassette CUFF.102 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 23;55 N alternative_acceptor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 35;3 N alternative_donor chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 6;33 K intron_retention CUFF.72 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 30;10 K alternative_first_exon CUFF.108 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245133007-245133100 chr1:245133631-245133745 41;78 K alternative_first_exon CUFF.29 chr1 + chr1:31769923-31782890,chr1:31769944-31782890 chr1:31770061-31782890 chr1:31769842-31769922 chr1:31769994-31770060 65;6 K intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 31;29 K alternative_last_exon CUFF.38 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387237-54387440 104;21 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 39;317 N coord_cassette CUFF.29 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 11;42 N alternative_donor CUFF.110 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 9;6 K intron_retention CUFF.90 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 10;28 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 30;15 K cassette CUFF.73 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 55;26 K intron_retention CUFF.58 chr1 + chr1:145580611-145581181 chr1:145580610-145580611;chr1:145581181-145581182 11;13 N jcn_only_AA CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 155;34 K alternative_first_exon CUFF.53 chr1 - chr1:113471975-113472502,chr1:113471975-113478445,chr1:113471975-113497897;chr1:113471975-113499460 chr1:113471975-113498656 chr1:113499461-113499469 chr1:113498657-113498975 35;11 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2036335-2066700;chr1:2006207-2066700 chr1:1991031-2066700 chr1:2006629-2006818;chr1:2036131-2036334;chr1:2006089-2006206 chr1:1990980-1991030 1107;122 K alternative_last_exon CUFF.44 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723120-85723154 58;18 K intron_retention CUFF.5 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 48;30 N jcn_only_AD CUFF.35,CUFF.53 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 41;24 K alternative_first_exon CUFF.72 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933626 65;143 K jcn_only_AD CUFF.16 chr1 - chr1:16909254-16918341 chr1:16909254-16910088 25;3 K intron_retention CUFF.73 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 64;11 K alternative_acceptor CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 247;97 K alternative_first_exon CUFF.27 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656792-28656886 69;19 N jcn_only_AA chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 31;551 N alternative_donor CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 54;55 K alternative_donor CUFF.30 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 401;87 K intron_retention CUFF.53 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 53;11 N alternative_donor CUFF.69 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 75;5 K alternative_first_exon CUFF.104 chr1 + chr1:224371534-224377278;chr1:224363650-224377278 chr1:224371121-224377278 chr1:224363458-224363649 chr1:224371022-224371120 117;10 K alternative_acceptor CUFF.95,ENSG00000137960.5 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 57;40 K alternative_acceptor CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 36;28 K intron_retention CUFF.65 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 80;10 K alternative_last_exon CUFF.8 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512212 chr1:10502322-10502864 32;42 N alternative_acceptor CUFF.108,CUFF.8 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 188;0 K intron_retention CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 36;19 K alternative_first_exon CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137068-160137202 chr1:160137218-160137219 14;16 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 1323;5 N jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 13;31 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 39;722 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 118;260 N intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 10;39 K alternative_first_exon CUFF.18 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963331-22963353 17;11 N jcn_only_AA CUFF.110 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 62;22 K mutually_exclusive CUFF.37 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 189;137 K intron_retention CUFF.58 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 51;86 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 9;3 N coord_cassette CUFF.37 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 41;61 N jcn_only_AD CUFF.69 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 75;11 K mutually_exclusive CUFF.37 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370406,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370407-54370482 189;67 N jcn_only_AA CUFF.22 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 70;813 N alternative_donor CUFF.42 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 119;80 N cassette CUFF.107 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 49;16 N alternative_donor CUFF.4 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 35;17 N alternative_donor CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 93;4 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 960;2 N jcn_only_AD CUFF.32 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 55;13 N alternative_donor CUFF.30 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 386;3 K intron_retention CUFF.108 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 16;49 N jcn_only_AA CUFF.84,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 213;6 N alternative_acceptor CUFF.22 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 70;38 N jcn_only_AD CUFF.69 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 90;24 N alternative_donor CUFF.71 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 11;15 K alternative_first_exon CUFF.98 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556145-211556267 chr1:211563906-211564012 68;48 K alternative_first_exon CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 8;40 K intron_retention CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 19;23 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 3;6 K intron_retention CUFF.92 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 35;14 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2006819-2066700;chr1:2006207-2066700 chr1:2036335-2066700 chr1:1990980-1991030;chr1:2006629-2006818;chr1:2006089-2006206 chr1:2036131-2036334 710;519 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 12;30 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 5;128 K intron_retention CUFF.72 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 73;12 N alternative_donor CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 68;146 N jcn_only_AA CUFF.16 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 79;9 N jcn_only_AD CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 35;10 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 882;446 K alternative_last_exon CUFF.102 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838651-222841354 chr1:222838225-222838566 42;318 K alternative_first_exon CUFF.55 chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612325 chr1:120572529-120572610 160;9 N alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 13;36 K intron_retention CUFF.38 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 94;16 K alternative_donor CUFF.27 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 31;43 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 39;66 N alternative_donor CUFF.52 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 95;190 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2006819-2066700;chr1:2036335-2066700 chr1:2006207-2066700 chr1:1990980-1991030;chr1:2006629-2006818;chr1:2036131-2036334 chr1:2006089-2006206 1177;52 N jcn_only_AA chr1 - chr1:161970129-161976086 chr1:161970132-161976086 3;3 K intron_retention CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 12;41 N cassette CUFF.107 chr1 + chr1:230203154-230338882 chr1:230203154-230313963;chr1:230314058-230338882 chr1:230313964-230314057 22;16 N alternative_acceptor CUFF.71 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 136;0 N jcn_only_AA CUFF.108,CUFF.8 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 188;10 N jcn_only_AD CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 75;21 K cassette CUFF.93 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 25;31 N jcn_only_AA chr1 + chr1:155180686-155201808 chr1:155180686-155181182 3;23 K alternative_first_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877570-200877677 24;29 K intron_retention CUFF.75 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 10;12 N cassette CUFF.99 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 6;63 N jcn_only_AA CUFF.55 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 165;3 N cassette CUFF.84 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 18;171 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11714376-11714739 chr1:11713448-11713670 398;129 N jcn_only_AD CUFF.94 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 13;10 K alternative_first_exon CUFF.21 chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26228173 chr1:26219005-26219098 10;5 N jcn_only_AD CUFF.110 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 72;12 N coord_cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918585-196918779;chr1:196919982-196920158 39;42 N jcn_only_AD chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 6;99 K jcn_only_AA CUFF.95,ENSG00000137960.5 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 57;43 N jcn_only_AA CUFF.30 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 386;15 K intron_retention CUFF.81 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 82;6 N alternative_donor CUFF.110 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 72;3 K cassette CUFF.42 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 178;129 N alternative_donor chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 36;6 N alternative_acceptor CUFF.16 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 73;9 K intron_retention CUFF.75 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 10;53 N alternative_acceptor CUFF.110 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 62;15 K jcn_only_AA CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 13;88 K intron_retention CUFF.72 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 45;6 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 28;23 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930724 86;35 N jcn_only_AD CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 54;63 N alternative_acceptor CUFF.4 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 35;25 N jcn_only_AD chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 36;27 N cassette CUFF.49 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 62;81 N jcn_only_AD CUFF.84 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 382;21 N jcn_only_AA chr1 + chr1:32541424-32557272 chr1:32541424-32542164 32;10 N alternative_acceptor CUFF.42 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 29;39 N cassette CUFF.24 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 30;29 N jcn_only_AA CUFF.16 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 78;9 K jcn_only_AA CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 65;31 K intron_retention CUFF.69 chr1 + chr1:155182359-155182484 chr1:155182358-155182359;chr1:155182484-155182485 51;11 N intron_retention chr1 + chr1:145580323-145580504 chr1:145580322-145580323;chr1:145580504-145580505 10;48 N alternative_donor CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 48;6 N jcn_only_AA CUFF.106 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 56;66 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 23;5 K cassette CUFF.8 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 56;49 N alternative_acceptor CUFF.31 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 81;6 K alternative_first_exon CUFF.65 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 15;38 N jcn_only_AD CUFF.29 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 72;10 N jcn_only_AD CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 551;7 K intron_retention CUFF.63 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 154;11 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110217368 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110217369-110217890 57;83 N coord_cassette CUFF.86 chr1 - chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169697198;chr1:169697388-169698326 chr1:169696880-169697068;chr1:169697199-169697387 143;19 K cassette CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 70;13 N cassette CUFF.91 chr1 + chr1:196913069-196919981 chr1:196913069-196918584;chr1:196918780-196919981 chr1:196918585-196918779 43;37 K intron_retention CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137202-160137203;chr1:160141040-160141041 11;3 K intron_retention CUFF.19 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 78;8 N mutually_exclusive CUFF.71 chr1 - chr1:156449589-156450625,chr1:156450764-156452228 chr1:156449589-156450434,chr1:156450570-156452228 chr1:156450626-156450763 chr1:156450435-156450569 2;2 K cassette CUFF.37 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 215;68 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 90;6 N intron_retention chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 7;29 N alternative_acceptor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 75;1 N jcn_only_AD CUFF.108 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 256;23 K intron_retention chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 722;9 N jcn_only_AD CUFF.13,CUFF.75 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 13;11 N alternative_acceptor CUFF.16 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 19;63 N jcn_only_AD CUFF.21,CUFF.72 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 5;10 N jcn_only_AD CUFF.81 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 29;16 N jcn_only_AA CUFF.76,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 6;27 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247319720-247320519;chr1:247285277-247287173 chr1:247302021-247302059 197;7 N alternative_donor CUFF.35,CUFF.53 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 41;2 N cassette CUFF.108 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 69;132 K mutually_exclusive CUFF.86 chr1 - chr1:169696667-169697198,chr1:169697388-169698326 chr1:169696667-169696879,chr1:169697069-169698326 chr1:169697199-169697387 chr1:169696880-169697068 52;47 N alternative_acceptor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 72;5 N alternative_acceptor CUFF.108 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 256;0 N jcn_only_AD CUFF.71 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 136;5 N cassette CUFF.42 chr1 + chr1:70820791-70832126;chr1:70820892-70832126 chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126 chr1:70831829-70832011 225;113 N jcn_only_AA CUFF.71 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 136;9 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 3;0 K intron_retention CUFF.27 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 10;7 K alternative_last_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877292 31;18 N cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 45;285 N alternative_donor CUFF.94 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 13;0 N jcn_only_AA CUFF.16 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 18;70 N jcn_only_AD CUFF.110 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 9;15 K intron_retention CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 6;39 K jcn_only_AA CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 500;35 N jcn_only_AA CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 19;37 K cassette CUFF.42 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 148;65 N alternative_donor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 163;2 N cassette CUFF.99 chr1 - chr1:213181809-213188954 chr1:213181809-213184549;chr1:213184801-213188954 chr1:213184550-213184800 7;53 K cassette CUFF.79 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 59;18 N alternative_donor CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 180;151 K alternative_acceptor CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 13;88 N jcn_only_AD CUFF.52 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 95;313 N jcn_only_AA CUFF.91 chr1 + chr1:196913069-196918584;chr1:196913069-196918746 chr1:196913069-196918565 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 31;15 K cassette CUFF.44 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 42;43 N cassette CUFF.84 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 69;191 K alternative_first_exon CUFF.63 chr1 - chr1:151158427-151162599;chr1:151158427-151167754 chr1:151158427-151162480 chr1:151167755-151167870 chr1:151162481-151162664 19;115 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 10;5 N cassette CUFF.30 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 217;233 K alternative_first_exon CUFF.30 chr1 + chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551,chr1:32538700-32540551 chr1:32537632-32538053 chr1:32538446-32538652 13;393 N jcn_only_AD CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 48;12 N intron_retention CUFF.9 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 27;20 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 11;47 K cassette CUFF.19 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 12;35 N alternative_donor chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 6;10 N jcn_only_AA CUFF.42 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 29;11 N jcn_only_AD CUFF.30 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 386;16 K jcn_only_AA CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 247;180 K intron_retention CUFF.37 chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 26;335 N jcn_only_AA CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 75;21 N jcn_only_AD CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 127;42 N alternative_donor CUFF.21,CUFF.72 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 5;3 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 10;40 N jcn_only_AD CUFF.71 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 11;9 N intron_retention chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 13;29 N jcn_only_AD CUFF.42 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 119;11 K cassette CUFF.71 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 128;20 K intron_retention CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 180;73 K cassette CUFF.102 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 217;35 N alternative_donor CUFF.48 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 23;0 N cassette CUFF.5 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 98;843 K cassette CUFF.1368 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 4;31 K alternative_last_exon CUFF.1344 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592045 67;55 N cassette CUFF.1333 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 21;7 N intron_retention CUFF.1362 chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 35;318 K cassette CUFF.1353 chr9 + chr9:116795009-116798579 chr9:116795009-116797470;chr9:116797516-116798579 chr9:116797471-116797515 18;9 N coord_cassette CUFF.1341 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 2;21 K cassette CUFF.1363 chr9 + chr9:130988453-130996299 chr9:130988453-130994264;chr9:130994404-130996299 chr9:130994265-130994403 101;30 N alternative_donor CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 4;7 N alternative_first_exon CUFF.1360 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026882-125027217 chr9:125027961-125028059 6;16 K cassette CUFF.1363 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 80;72 K intron_retention CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 84;10 K alternative_last_exon CUFF.1361 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125636065-125637647 21;59 N alternative_donor CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 13;16 K jcn_only_AD CUFF.1341 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 34;9 K cassette CUFF.1356 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 28;85 K alternative_donor CUFF.1355 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 5;10 N alternative_donor chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 11;6 N jcn_only_AD CUFF.1362 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 37;363 K intron_retention CUFF.1361 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 55;46 K alternative_first_exon CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486273-131486489 chr9:131486231-131486256 65;19 K intron_retention CUFF.1362 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 257;210 K alternative_last_exon CUFF.1363 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017526 chr9:131016288-131016445 69;64 N jcn_only_AD CUFF.1367 chr9 + chr9:133320586-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133325721-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 28;10 N alternative_acceptor chr9 + chr9:133320383-133325658;chr9:133320383-133326988 chr9:133320383-133327610 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 11;10 N coord_cassette CUFF.1362 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 20;214 N alternative_acceptor CUFF.1368 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 13;1 K intron_retention CUFF.1362 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 438;42 N jcn_only_AA CUFF.1368 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 13;57 N jcn_only_AD CUFF.1362,CUFF.1368 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 225;36 K alternative_acceptor CUFF.1330,CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 84;19 N alternative_donor CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 6;30 N intron_retention chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 15;32 N jcn_only_AD chr9 - chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15225914 136;50 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990495;chr9:34990609-34993196 chr9:34990496-34990608 22;53 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 15;2 K cassette CUFF.1344 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 13;84 K alternative_donor CUFF.1361 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 27;22 K cassette CUFF.1360 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 10;310 N jcn_only_AD CUFF.1362 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 382;18 N intron_retention CUFF.1362 chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 13;255 K intron_retention CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 60;20 N alternative_acceptor CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 26;58 K jcn_only_AA CUFF.1363 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 154;13 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 225;36 N alternative_donor CUFF.1362 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 246;33 N jcn_only_AD CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 50;21 N cassette CUFF.1362 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 28;329 N alternative_acceptor chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 14;192 N intron_retention CUFF.1362 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 18;14 K intron_retention CUFF.1325 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 10;3 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133320586-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 26;12 N jcn_only_AD CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 6;81 N jcn_only_AA chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 37;255 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 20;145 K alternative_first_exon CUFF.1339 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161563 chr9:71160845-71161032 205;30 K alternative_acceptor CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 89;16 N alternative_acceptor CUFF.1360 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 197;9 K intron_retention CUFF.1373 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 28;10 K cassette CUFF.1333 chr9 + chr9:43885073-43890295 chr9:43885073-43887610;chr9:43887734-43890295 chr9:43887611-43887733 21;38 N jcn_only_AD CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 13;27 K coord_cassette CUFF.1360 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 208;25 K jcn_only_AD CUFF.1355 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 5;14 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 193;29 K cassette CUFF.1332 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 26;84 N cassette CUFF.1350 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 9;85 K alternative_first_exon CUFF.1374 chr9 + chr9:139780732-139793164,chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139777119-139777162 chr9:139780881-139780993 60;498 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 256;5 N alternative_acceptor CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 12;5 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 12;5 K alternative_first_exon CUFF.1332 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35161999-35162302 chr9:35227780-35227930 5;21 K intron_retention CUFF.1364 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 138;33 K jcn_only_AA CUFF.1361 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 65;28 K alternative_last_exon CUFF.1345 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000102-100000367 33;16 K mutually_exclusive CUFF.1330 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 141;79 K cassette CUFF.1360 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 122;102 K cassette CUFF.1374 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 1076;16 N alternative_last_exon CUFF.1326 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249040-15249685 5;192 N jcn_only_AD chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 381;19 N alternative_acceptor CUFF.1341 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 35;0 K intron_retention CUFF.1330 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 96;2 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 144;38 K jcn_only_AA CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 56;138 N jcn_only_AD CUFF.1326 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 52;136 K intron_retention CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 26;45 K intron_retention CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 56;123 N cassette CUFF.1326 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 7;70 N cassette CUFF.1333 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 16;8 N jcn_only_AA CUFF.1360 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 284;9 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 15;2 K mutually_exclusive CUFF.1363 chr9 + chr9:130985140-130988313,chr9:130988453-130996299 chr9:130985140-130986529,chr9:130986669-130996299 chr9:130988314-130988452 chr9:130986530-130986668 78;33 N alternative_acceptor CUFF.1333,CUFF.1363 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 4;7 N jcn_only_AD CUFF.1361,CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 41;35 K jcn_only_AD CUFF.1367 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 99;104 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 117;144 N jcn_only_AA CUFF.1326 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 88;52 K intron_retention CUFF.1329 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 93;11 N intron_retention CUFF.1333 chr9 + chr9:43907538-43908111 chr9:43907537-43907538;chr9:43908111-43908112 13;4 N alternative_donor CUFF.1362,CUFF.1368 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 15;2 N alternative_donor CUFF.1361,CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 83;139 K cassette CUFF.1332 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 9;117 N alternative_donor CUFF.1367 chr9 + chr9:133320586-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133325721-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 19;0 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357 chr9:15214248-15249915 180;6 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 222;39 N alternative_acceptor CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 60;9 K alternative_acceptor CUFF.1353 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 206;15 K jcn_only_AA CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 126;36 K jcn_only_AD CUFF.1326,CUFF.1347 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 33;9 K alternative_acceptor CUFF.1364 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 62;43 N jcn_only_AA CUFF.1326 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 57;82 K cassette CUFF.1353 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 197;84 K jcn_only_AA CUFF.1353,CUFF.1374 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 212;88 K cassette CUFF.1373 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 92;84 N mutually_exclusive CUFF.1362 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 48;8 N jcn_only_AA CUFF.1361 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 14;24 K jcn_only_AA CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 79;83 N jcn_only_AA CUFF.1326 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 50;168 K intron_retention CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 13;30 K intron_retention CUFF.1331 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 15;22 N alternative_donor CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 50;7 K alternative_acceptor CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 59;46 K mutually_exclusive CUFF.1349 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 14;34 K jcn_only_AA CUFF.1353 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 206;30 N jcn_only_AA CUFF.1341 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 35;9 K alternative_last_exon CUFF.1331 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35078022-35078340 2;100 N alternative_donor CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 168;54 K cassette CUFF.1373 chr9 + chr9:139744590-139745206 chr9:139744590-139744954;chr9:139745013-139745206 chr9:139744955-139745012 92;59 N jcn_only_AA CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 26;59 N jcn_only_AD CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 13;52 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 22;80 N jcn_only_AA CUFF.1333,CUFF.1363 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 4;13 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687372 chr9:46686829-46686830;chr9:46687372-46687373 22;3 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915 chr9:15214248-15224357 79;107 N alternative_first_exon CUFF.1362 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555427-123555535 chr9:123555165-123555415 41;14 K jcn_only_AA CUFF.1330,CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 84;28 K jcn_only_AD CUFF.1331 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 3;96 K intron_retention CUFF.1364 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 44;85 K cassette CUFF.1369 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 11;35 N cassette CUFF.1348 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 6;6 K intron_retention CUFF.1331 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 88;12 K intron_retention CUFF.1360 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 48;18 K intron_retention CUFF.1362 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 19;75 N jcn_only_AA CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 12;6 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133327431-133327610 chr9:133320383-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 9;10 N cassette CUFF.1341 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 8;33 N alternative_acceptor CUFF.1367 chr9 + chr9:133320383-133325658;chr9:133320383-133327610 chr9:133320383-133326988 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 12;9 N alternative_acceptor CUFF.1360 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 201;5 N intron_retention CUFF.1362 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 363;44 K cassette CUFF.1353 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 13;239 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133320383-133327610 chr9:133327431-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 31;6 N jcn_only_AD CUFF.1356 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 5;86 K jcn_only_AA CUFF.1330 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 20;308 K intron_retention CUFF.1362 chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 29;328 K mutually_exclusive CUFF.1330 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990495,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990496-34990608 141;53 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133320586-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 11;8 N alternative_donor CUFF.1362 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 52;227 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133320383-133327610 chr9:133327431-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 18;1 K alternative_first_exon CUFF.1367 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351706-133351776 51;15 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133327431-133327610 chr9:133320383-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 27;10 N alternative_donor chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 260;19 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687553 chr9:46686829-46686830;chr9:46687553-46687554 28;3 N alternative_donor CUFF.1326 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 52;6 K cassette CUFF.1360 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 208;25 K intron_retention CUFF.1336 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 13;4 K alternative_acceptor CUFF.1360 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 24;103 K jcn_only_AD CUFF.1361 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 27;33 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15224337 164;22 K intron_retention CUFF.1331 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 44;10 K alternative_last_exon CUFF.1353 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793160 165;20 K jcn_only_AD CUFF.1336,CUFF.1341 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 28;22 K alternative_acceptor CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 56;164 K jcn_only_AA CUFF.1360 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 24;11 N cassette CUFF.1362 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 76;235 N jcn_only_AA CUFF.1367 chr9 + chr9:133320383-133325658;chr9:133320383-133327610 chr9:133320383-133326988 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 14;10 K intron_retention CUFF.1367 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 10;19 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 16;139 K intron_retention CUFF.1331 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 48;39 N jcn_only_AA CUFF.1326 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 135;5 K intron_retention CUFF.1364 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 21;115 K alternative_last_exon CUFF.1344,CUFF.1373 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600734 18;47 N cassette CUFF.1362 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 135;231 K cassette CUFF.1335 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 14;10 K alternative_acceptor CUFF.1330 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 20;243 K cassette CUFF.1360 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 34;35 N jcn_only_AA CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 60;8 N alternative_donor CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 13;37 N jcn_only_AA CUFF.1360 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 264;29 K jcn_only_AA CUFF.1362 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 89;211 K alternative_acceptor CUFF.1353,CUFF.1374 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 212;77 K alternative_first_exon CUFF.1363 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002264-131002275 chr9:131003225-131003326 130;19 N jcn_only_AD CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 64;13 K alternative_last_exon CUFF.1333,CUFF.1360 chr9 + chr9:43853617-43861005;chr9:43853617-43861002 chr9:43853617-43854068 chr9:43861003-43861206 chr9:43854069-43854398 33;128 K cassette CUFF.1370 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 16;48 K alternative_first_exon CUFF.1374 chr9 + chr9:139796849-139802521;chr9:139794973-139802521 chr9:139795129-139802521 chr9:139794874-139794972 chr9:139795073-139795128 646;4 K alternative_acceptor CUFF.1362 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 89;105 K cassette CUFF.1353 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 268;13 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 21;2 K alternative_donor CUFF.1336,CUFF.1341 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 28;10 K alternative_last_exon CUFF.1356 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514256-123515589 chr9:123526456-123527125 chr9:123533626-123533795 9;45 K intron_retention CUFF.1361 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 14;4 K cassette CUFF.1349 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 22;18 N jcn_only_AA CUFF.1367 chr9 + chr9:133320383-133326988;chr9:133320383-133327610 chr9:133320383-133325658 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 20;4 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 48;29 N jcn_only_AD CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 4;6 K jcn_only_AA CUFF.1368 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 95;165 K intron_retention CUFF.1333 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 4;13 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667637 chr9:125655188-125655305 15;42 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 36;18 K jcn_only_AD CUFF.1361,CUFF.1368 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 30;58 N intron_retention CUFF.1356 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 52;33 K alternative_acceptor CUFF.1361 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 65;16 K cassette CUFF.1362 chr9 - chr9:130931799-130932298 chr9:130931799-130931901;chr9:130931980-130932298 chr9:130931902-130931979 227;67 K jcn_only_AA CUFF.1364 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 119;43 N alternative_acceptor CUFF.1367 chr9 + chr9:133320383-133326988;chr9:133320383-133327610 chr9:133320383-133325658 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 19;2 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 22;141 K alternative_donor CUFF.1367 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 99;47 N coord_cassette CUFF.1333 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 18;9 K alternative_first_exon CUFF.1360 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125026882-125027217 chr9:125027961-125028059 206;7 K cassette CUFF.1367 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 47;36 K intron_retention CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 50;2 K alternative_last_exon CUFF.1359 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906338-124906657 26;28 K intron_retention CUFF.1373 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 19;41 N jcn_only_AA chr9 + chr9:133320383-133325658;chr9:133320383-133326988 chr9:133320383-133327610 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 13;10 N alternative_acceptor CUFF.1326 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 50;4 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 19;68 K alternative_last_exon CUFF.1305 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037079-99037966 chr8:99054873-99055003 179;284 K alternative_first_exon CUFF.1292 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884606-74884856 chr8:74884974-74885228 75;33 N intron_retention CUFF.1282 chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 147;113 K jcn_only_AA CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 424;71 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 38;11 N cassette CUFF.1296 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 38;518 N jcn_only_AA CUFF.1285 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 7;31 K intron_retention CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 22;8 N alternative_acceptor CUFF.1285 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 7;3 K intron_retention CUFF.1282 chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 145;38 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 115;7 N mutually_exclusive CUFF.1296 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 12;18 N jcn_only_AA CUFF.1275 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 7;9 N jcn_only_AA CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 77;39 K intron_retention CUFF.1273 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 151;13 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 20;538 K alternative_acceptor CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 424;34 N alternative_acceptor chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 46;3 K jcn_only_AA CUFF.1272 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 10;95 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371 chr8:106331210-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 1;4 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 591;131 N jcn_only_AA CUFF.1273 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 12;61 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 36;591 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 303;12 K intron_retention CUFF.1279 chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 44;101 K cassette CUFF.1318 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 23;174 K intron_retention CUFF.1310 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 12;57 K alternative_first_exon CUFF.1318 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963430-126963576 chr8:126963158-126963417 49;117 N coord_cassette CUFF.1313 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 5;41 N alternative_donor CUFF.1313 chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 30;0 N jcn_only_AD CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 81;27 K alternative_first_exon CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456508-106456609 chr8:106541107-106541197 51;4 N jcn_only_AD chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 52;10 K cassette CUFF.1281 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 14;9 N jcn_only_AD chr8 - chr8:120807872-120809901 chr8:120807872-120809229 10;5 N jcn_only_AD CUFF.1311 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106370866-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 64;7 N alternative_acceptor CUFF.1285 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 21;0 K coord_cassette CUFF.1311 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 6;158 K alternative_first_exon CUFF.1270,CUFF.1279 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 7;14 K cassette CUFF.1316 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 8;23 K intron_retention chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 1157;13 N alternative_donor CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 49;13 N jcn_only_AD chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 165;260 N intron_retention CUFF.1305 chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 27;38 N cassette CUFF.1313 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 23;37 N jcn_only_AA CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 813;151 N cassette CUFF.1282 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 29;230 K alternative_last_exon CUFF.1292 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74890991-74891207 chr8:74888540-74888726 59;66 N jcn_only_AD CUFF.1292 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 106;4 K intron_retention CUFF.1315 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 11;75 K alternative_first_exon CUFF.1313 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371704-107371864 chr8:107460120-107460276 12;8 N alternative_donor CUFF.1292 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 58;4 K alternative_last_exon CUFF.1294 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401106 chr8:75276220-75276957 39;150 K intron_retention CUFF.1272 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 129;2 K alternative_first_exon CUFF.1300 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192598-82192909 chr8:82193023-82193548 21;59 N alternative_acceptor CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 813;29 N alternative_donor CUFF.1313 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 85;1 N alternative_donor CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 81;6 K alternative_first_exon CUFF.1279 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648857 chr8:30643948-30644053 143;47 N jcn_only_AD CUFF.1311 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 54;180 K intron_retention CUFF.1305 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 445;14 K cassette CUFF.1302 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 5;33 N jcn_only_AA CUFF.1282 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 265;19 N jcn_only_AD CUFF.1282 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 310;115 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107670414-107691437 chr8:107630412-107691437 chr8:107531171-107531367;chr8:107670118-107670413 chr8:107630321-107630411 70;14 K intron_retention CUFF.1281 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 11;3 N jcn_only_AD CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 81;29 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371 chr8:106400154-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 28;43 K jcn_only_AA CUFF.1278 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 14;111 K alternative_first_exon CUFF.1320 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915663-143915705 chr8:143916152-143916284 6;30 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 18;57 K alternative_last_exon CUFF.1321,CUFF.1324 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824298 62;51 N alternative_acceptor chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 19;1 N alternative_donor CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 1;29 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 141;130 N coord_cassette CUFF.1282 chr8 - chr8:56652778-56663522 chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522 chr8:56656040-56656179;chr8:56657620-56657680 44;78 K cassette CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055004-99057170;chr8:99057317-99057574 chr8:99057171-99057316 303;382 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75262814-75272371;chr8:75263702-75272371 chr8:75233481-75272371 chr8:75262628-75262813;chr8:75263549-75263701 chr8:75233365-75233480 199;7 N alternative_acceptor CUFF.1304,CUFF.1322 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 34;1 K alternative_acceptor CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 22;10 N jcn_only_AA chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 46;7 K alternative_acceptor CUFF.1272 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 10;49 N cassette CUFF.1282 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 26;146 N alternative_donor CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 17;45 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 13;14 K intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 137;9 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373938-144375141;chr8:144374455-144375141 chr8:144373029-144375141 chr8:144373214-144373937;chr8:144374374-144374454 chr8:144372915-144373028 66;14 N alternative_donor CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 813;53 K jcn_only_AA CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 22;11 K intron_retention CUFF.1282 chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 26;61 N intron_retention CUFF.1296 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 11;29 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 46;13 N jcn_only_AA CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 81;20 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371 chr8:75262814-75272371 chr8:75233365-75233480;chr8:75263549-75263701 chr8:75262628-75262813 173;33 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107531368-107691437 chr8:107630321-107630411;chr8:107670118-107670413 chr8:107531171-107531367 61;23 K alternative_first_exon CUFF.1279 chr8 - chr8:30657272-30669835;chr8:30657272-30671402 chr8:30657272-30667505 chr8:30671403-30671835 chr8:30667506-30667840 110;60 K alternative_last_exon CUFF.1273 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23185895-23186078 chr8:23189472-23189521 49;7 N jcn_only_AA CUFF.1285 chr8 + chr8:144349655-144356873 chr8:144349655-144351529 28;47 N jcn_only_AD CUFF.1316 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;6 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 387;46 K intron_retention CUFF.1281 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 11;9 K intron_retention CUFF.1279 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 113;33 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373029-144375141;chr8:144374455-144375141 chr8:144373938-144375141 chr8:144372915-144373028;chr8:144374374-144374454 chr8:144373214-144373937 41;39 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106427235-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 54;17 N cassette CUFF.1294 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 63;116 N cassette CUFF.1282 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619 chr8:56656040-56656179 55;78 N cassette CUFF.1282 chr8 - chr8:56675588-56676494 chr8:56675588-56676195;chr8:56676261-56676494 chr8:56676196-56676260 236;45 K alternative_last_exon CUFF.1275 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27528964 chr8:27516013-27517056 6;23 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 104;18 N jcn_only_AA chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 19;15 N alternative_first_exon CUFF.1321 chr8 + chr8:144349655-144356873 chr8:144351691-144356873 chr8:144349603-144349654 chr8:144351497-144351690 22;90 K alternative_last_exon CUFF.1296 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80948780-80950470 14;644 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75262814-75272371 chr8:75263702-75272371 chr8:75233365-75233480;chr8:75262628-75262813 chr8:75263549-75263701 181;25 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371 chr8:106400154-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 4;1 K intron_retention chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 30;19 N cassette CUFF.1296 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 162;507 N cassette CUFF.1282 chr8 - chr8:56652778-56663522;chr8:56656180-56663522 chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522 chr8:56657620-56657680 61;112 N cassette CUFF.1272 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 8;116 K intron_retention CUFF.1281 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 11;8 N jcn_only_AD CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 39;29 N cassette CUFF.1296 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 177;626 K cassette CUFF.1315 chr8 + chr8:118541049-118552121 chr8:118541049-118542961;chr8:118543067-118552121 chr8:118542962-118543066 336;20 K intron_retention CUFF.1296 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 151;14 N jcn_only_AD CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 34;34 K alternative_first_exon CUFF.1281 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008783 chr8:38006594-38006663 16;12 K alternative_last_exon CUFF.1292,CUFF.1321 chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74893966 chr8:74891314-74891369 3;55 N alternative_acceptor CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 77;0 K alternative_first_exon CUFF.1324 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821538-144821673 11;30 K alternative_first_exon CUFF.1305,CUFF.1319 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133854731 50;4 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 20;651 N alternative_donor CUFF.1271 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 41;272 N jcn_only_AD CUFF.1278,CUFF.1282 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 375;50 K intron_retention CUFF.1281 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 14;8 N alternative_donor CUFF.1282 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 294;74 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 16;60 N alternative_donor chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 108;260 N jcn_only_AD CUFF.1313 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 85;17 N alternative_donor chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 52;58 N alternative_donor CUFF.1316 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;0 K alternative_first_exon CUFF.1272,CUFF.1303 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085499 chr8:96084945-96085148 210;6 N alternative_acceptor CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 81;4 N alternative_donor CUFF.1278,CUFF.1282 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 334;34 K alternative_acceptor CUFF.1268 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 19;21 N jcn_only_AA CUFF.1304,CUFF.1322 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 34;6 N alternative_donor CUFF.1311 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 54;1 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 36;207 N alternative_donor CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 29;1 K cassette CUFF.1273 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 31;27 N jcn_only_AD CUFF.1313 chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 63;5 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106427235-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 5;0 K jcn_only_AA CUFF.1285 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 39;20 K alternative_first_exon CUFF.1292 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888456-74888726 83;135 K alternative_last_exon CUFF.1320 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143995379-143995461 chr8:143927811-143928261 7;61 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 26;97 K alternative_first_exon CUFF.1284 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224526 11;39 N jcn_only_AD CUFF.1271 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 41;550 K jcn_only_AA CUFF.1294,CUFF.1317 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 15;20 K cassette CUFF.1316 chr8 - chr8:120818642-120843916 chr8:120818642-120831585;chr8:120831747-120843916 chr8:120831586-120831746 101;2 N jcn_only_AD CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 32;77 K jcn_only_AA CUFF.1268 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 19;41 N jcn_only_AA CUFF.1285 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 21;7 K cassette CUFF.1322 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 54;9 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107630412-107691437 chr8:107670414-107691437 chr8:107531171-107531367;chr8:107630321-107630411 chr8:107670118-107670413 77;7 K cassette CUFF.1273 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 61;14 N alternative_acceptor CUFF.1275 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 7;1 K intron_retention CUFF.1282 chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 29;97 N alternative_acceptor CUFF.1282 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 265;11 N cassette CUFF.1296 chr8 - chr8:80976829-81083659 chr8:80976829-81032049;chr8:81032120-81083659 chr8:81032050-81032119 13;181 K alternative_first_exon CUFF.1278 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605717 chr8:29592687-29592739 87;13 K alternative_last_exon CUFF.1321 chr8 + chr8:144356973-144357147,chr8:144356973-144358172;chr8:144356973-144358066 chr8:144356973-144357364 chr8:144358067-144359100 chr8:144357365-144357887 178;69 K intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 7;130 K intron_retention CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 813;45 N cassette CUFF.1313 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 5;56 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373938-144375141;chr8:144373029-144375141 chr8:144374455-144375141 chr8:144373214-144373937;chr8:144372915-144373028 chr8:144374374-144374454 76;4 N alternative_donor CUFF.1311 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106370866-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 5;0 K intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 59;32 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371 chr8:106331210-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 68;4 N jcn_only_AD CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 813;106