#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample K alternative_first_exon CUFF.1135 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590126-33590451 chr13:33590528-33591397 33;44 K alternative_acceptor CUFF.1139 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 95;42 K intron_retention CUFF.1147 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 18;18 K jcn_only_AA CUFF.1144 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 30;143 N jcn_only_AD CUFF.1129 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 15;104 K alternative_first_exon CUFF.1144,CUFF.1145 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133502 chr13:101133234-101133359 24;16 N cassette CUFF.1129 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 31;78 N alternative_donor CUFF.1135 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 4;41 K cassette CUFF.1134 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 23;11 N alternative_donor CUFF.1147 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 42;4 N alternative_acceptor CUFF.1129 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 73;2 K jcn_only_AD CUFF.1142,CUFF.1144 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 2;23 N jcn_only_AA CUFF.1132 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 27;36 N alternative_acceptor CUFF.1129,CUFF.1147 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103511261-103513856 chr13:103513856-103513857 11;0 N alternative_first_exon CUFF.1129 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 15;51 K alternative_acceptor CUFF.1144 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 30;132 N jcn_only_AD CUFF.1147 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 42;19 N alternative_acceptor CUFF.1132 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 27;0 K alternative_donor CUFF.1142,CUFF.1144 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 2;20 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 13;36 N cassette CUFF.1132 chr13 - chr13:25525627-25542343 chr13:25525627-25541529;chr13:25541592-25542343 chr13:25541530-25541591 9;292 N jcn_only_AA CUFF.1129 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 73;11 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 7;316 K alternative_donor CUFF.1144 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 128;48 K jcn_only_AA CUFF.1142 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 12;14 K alternative_acceptor CUFF.1142 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 12;32 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 15;40 K alternative_last_exon CUFF.1145 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131801-101132017 6;68 N jcn_only_AD CUFF.1135 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 4;62 N jcn_only_AD CUFF.1145 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 7;39 N alternative_donor CUFF.1129 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 73;0 K intron_retention CUFF.1129 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 99;17 N jcn_only_AA CUFF.1138 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 15;106 K cassette CUFF.1138 chr13 + chr13:51805516-51825603 chr13:51805516-51819447;chr13:51819556-51825603 chr13:51819448-51819555 3;21 N jcn_only_AA CUFF.1132 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 34;6 N jcn_only_AA CUFF.1129,CUFF.1147 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103511261-103513856 chr13:103513856-103513857 11;2 N jcn_only_AD CUFF.1147 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103498705-103501544 chr13:103498704-103498705 55;22 N jcn_only_AD CUFF.1129 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 73;6 K jcn_only_AA CUFF.1139 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 95;21 N jcn_only_AA chr13 - chr13:24415628-24432998 chr13:24416709-24432998 8;11 K jcn_only_AD CUFF.1144 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 128;67 N alternative_acceptor CUFF.1132 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 34;0 K alternative_first_exon CUFF.1142,CUFF.1146 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102569089 7;11 K jcn_only_AA CUFF.1138 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 22;86 N alternative_donor CUFF.1147 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103498705-103501544 chr13:103498704-103498705 55;1 N jcn_only_AD chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 9;263 N alternative_donor chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 9;108 N cassette CUFF.1129 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 17;44 K intron_retention CUFF.1142 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 2;7 K alternative_acceptor CUFF.1047,CUFF.1089 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 872;265 K alternative_first_exon CUFF.1089 chr12 + chr12:53847068-53848509;chr12:53846760-53848509;chr12:53846161-53848509 chr12:53837558-53848509 chr12:53846579-53846759;chr12:53845803-53846160 chr12:53837175-53837557 485;5 N jcn_only_AD CUFF.1113 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 70;20 N alternative_acceptor CUFF.1070 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 111;2 N jcn_only_AD CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4662314-4668022;chr12:4665669-4668022 chr12:4665717-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 388;97 N coord_cassette CUFF.1065 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 12;49 N cassette CUFF.1057 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 9;65 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 48;51 K jcn_only_AA CUFF.1065,CUFF.1089 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 8;45 N alternative_acceptor CUFF.1065 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 199;14 N alternative_acceptor CUFF.1080 chr12 - chr12:49332631-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 18;1 N jcn_only_AA CUFF.1070 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 142;105 K intron_retention CUFF.1100 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 chr12:56578814-56578876;chr12:56579939-56580024 232;65 K intron_retention CUFF.1104 chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 39;38 K cassette CUFF.1100 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 chr12:56575788-56575863;chr12:56577959-56578028 297;64 N cassette CUFF.1100 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 chr12:56566369-56566488;chr12:56567480-56567633 126;40 K intron_retention CUFF.1100 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 chr12:56558087-56558152;chr12:56558432-56558515 71;32 N jcn_only_AA CUFF.1046 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 27;77 K intron_retention CUFF.1104 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 35;57 N alternative_first_exon CUFF.1103 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853918-57853984 chr12:57854205-57854338 10;43 N jcn_only_AD CUFF.1112 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 69;19 K intron_retention CUFF.1100 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 chr12:56574761-56574885;chr12:56575266-56575381 52;34 N alternative_donor CUFF.1077 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 46;14 N alternative_donor CUFF.1104 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 45;180 N alternative_acceptor CUFF.1054 chr12 + chr12:4662314-4668022;chr12:4662314-4665518 chr12:4662314-4665596 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 135;5 N intron_retention chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 60;106 N jcn_only_AA CUFF.1089 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1686;32 N alternative_acceptor CUFF.1123 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 6;8 N alternative_donor CUFF.1077 chr12 - chr12:48276558-48298346;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 4;0 K jcn_only_AA CUFF.1120 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 78;38 N alternative_acceptor CUFF.1072 chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26173078-26208168 chr12:26208168-26208169 10;2 K intron_retention CUFF.1106 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 28;228 K cassette CUFF.1080 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 44;113 K intron_retention CUFF.1089 chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 1301;58 N jcn_only_AD CUFF.1123 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 chr12:120148345-120148425;chr12:120149983-120150152 62;22 N coord_cassette CUFF.1106 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 149;44 N alternative_donor CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4662314-4668022;chr12:4665717-4668022 chr12:4665669-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 336;4 N alternative_donor chr12 + chr12:26148064-26208211;chr12:26205536-26208211 chr12:26205930-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 33;1 K intron_retention CUFF.1062 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 320;48 N jcn_only_AA CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49350319-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 68;136 N alternative_acceptor CUFF.1101 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 116;7 N coord_cassette CUFF.1106 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 57;44 N alternative_donor CUFF.1089 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1678;11 N alternative_acceptor CUFF.1123 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 chr12:120135464-120135643;chr12:120127956-120128256 5;58 N coord_cassette CUFF.1106 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 33;94 K cassette CUFF.1080 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 44;32 N jcn_only_AD CUFF.1120 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 69;5 K jcn_only_AD CUFF.1104 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 105;178 K intron_retention CUFF.1109 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 29;4 K alternative_first_exon CUFF.1084 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404277-52404346 29;29 N coord_cassette CUFF.1106 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 27;90 K alternative_first_exon CUFF.1072 chr12 + chr12:26205930-26208168,chr12:26205536-26208168;chr12:26148064-26208168;chr12:26174452-26208168 chr12:26164755-26208168 chr12:26147970-26148063;chr12:26174306-26174451 chr12:26164647-26164754 409;6 N jcn_only_AA CUFF.1101 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 146;7 N alternative_first_exon chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164647-26164754 16;45 N cassette CUFF.1071 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 76;157 N alternative_donor CUFF.1120 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 69;7 N intron_retention chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 229;60 N intron_retention chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 20;134 N cassette CUFF.1106 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 162;221 K cassette CUFF.1101 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 55;182 N alternative_donor chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 35;8 K jcn_only_AD CUFF.1077 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 52;228 K cassette CUFF.1046 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 238;116 N cassette CUFF.1100 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 chr12:56556767-56557549;chr12:56558432-56558515 13;84 N jcn_only_AD CUFF.1089 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1678;20 N jcn_only_AD CUFF.1070 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 96;67 N jcn_only_AD CUFF.1113 chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 43;58 N jcn_only_AA CUFF.1072 chr12 + chr12:26148064-26208168;chr12:26148064-26208211 chr12:26148064-26173077 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 72;24 N alternative_donor CUFF.1112 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 69;9 N jcn_only_AD CUFF.1104 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 45;229 K intron_retention CUFF.1104 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 30;23 K jcn_only_AD CUFF.1052 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 28;9 N alternative_acceptor CUFF.1072 chr12 + chr12:26148064-26208168;chr12:26148064-26208211 chr12:26148064-26173077 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 92;2 N alternative_donor CUFF.1113 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 70;5 N cassette CUFF.1077 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 275;23 N jcn_only_AD CUFF.1046,CUFF.1057 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 30;76 N intron_retention CUFF.1077 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 4;9 N jcn_only_AD CUFF.1047 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 100;22 K intron_retention CUFF.1104 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 45;126 N alternative_acceptor CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 14;5 N intron_retention CUFF.1046 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 20;27 N jcn_only_AA CUFF.1123 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 chr12:120135464-120135643;chr12:120127956-120128256 5;118 N cassette CUFF.1089 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 14;1288 K intron_retention CUFF.1104 chr12 + chr12:58015211-58015472 chr12:58015210-58015211;chr12:58015472-58015473 158;91 N jcn_only_AD CUFF.1047 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 96;26 N cassette CUFF.1065 chr12 + chr12:21229504-21279041 chr12:21229504-21272537;chr12:21272562-21279041 chr12:21272538-21272561 26;28 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 9;14 N jcn_only_AD CUFF.1047 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 48;74 K alternative_first_exon CUFF.1116 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834582-111834677 9;12 K alternative_donor CUFF.1077 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 52;228 N jcn_only_AD CUFF.1054 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 584;118 N cassette CUFF.1057 chr12 - chr12:7090345-7090971 chr12:7090345-7090755;chr12:7090794-7090971 chr12:7090756-7090793 17;86 K jcn_only_AA CUFF.1089 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 354;1047 N jcn_only_AA CUFF.1070 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 198;49 N cassette CUFF.1062 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 4;255 K cassette CUFF.1085 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 28;26 K cassette CUFF.1058 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 7;4 N alternative_donor CUFF.1070 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 96;15 K intron_retention CUFF.1089 chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 110;51 K intron_retention chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 187;108 N cassette CUFF.1070 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 15;78 K cassette CUFF.1109 chr12 + chr12:72083485-72090215 chr12:72083485-72084118;chr12:72084211-72090215 chr12:72084119-72084210 41;15 N coord_cassette CUFF.1103 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 35;39 K alternative_first_exon CUFF.1072 chr12 + chr12:26205930-26208168,chr12:26205536-26208168;chr12:26164755-26208168;chr12:26174452-26208168 chr12:26148064-26208168 chr12:26164647-26164754;chr12:26174306-26174451 chr12:26147970-26148063 389;26 N alternative_acceptor CUFF.1101 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 112;11 N mutually_exclusive CUFF.1057 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 10;14 N jcn_only_AA CUFF.1080 chr12 - chr12:49332631-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 200;4 N intron_retention CUFF.1112 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 19;3 K intron_retention CUFF.1101 chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 48;86 N cassette CUFF.1054 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 395;52 K cassette CUFF.1106 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 174;203 N jcn_only_AA CUFF.1089 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1711;7 K cassette CUFF.1089 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 110;815 K cassette CUFF.1080 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 11;78 N alternative_donor chr12 + chr12:26205536-26208211;chr12:26205930-26208211 chr12:26148064-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 1;33 K coord_cassette CUFF.1046 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 27;137 N alternative_donor CUFF.1062 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 299;3 K intron_retention CUFF.1104 chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 261;51 N cassette CUFF.1106 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 239;132 K coord_cassette CUFF.1073 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 356;47 K intron_retention CUFF.1046 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 124;29 N jcn_only_AD chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 9;9 N alternative_donor chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 6;227 K intron_retention CUFF.1086 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 122;54 K coord_cassette CUFF.1080 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092 chr12:49349478-49349543;chr12:49349881-49350318 13;43 K alternative_first_exon CUFF.1094 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393865-54394510 12;42 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 11;73 N jcn_only_AA CUFF.1123 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 6;12 N jcn_only_AD chr12 + chr12:26205536-26208211;chr12:26205930-26208211 chr12:26148064-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 64;33 N alternative_donor CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4662314-4668022;chr12:4665669-4668022 chr12:4665717-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 330;10 N jcn_only_AD chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 68;487 K intron_retention CUFF.1123 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 chr12:120135464-120135643;chr12:120135781-120135859 99;17 N jcn_only_AA CUFF.1112 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 69;24 N cassette CUFF.1104 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 51;285 N cassette CUFF.1085 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 42;11 K intron_retention CUFF.1060 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 18;15 N jcn_only_AD CUFF.1101 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 166;97 N intron_retention chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 6;11 N alternative_donor CUFF.1070,CUFF.1077 chr12 - chr12:48276558-48298737;chr12:48276558-48298346;chr12:48276558-48336645 chr12:48276558-48293619 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 4;0 K cassette CUFF.1077 chr12 - chr12:48393909-48398019 chr12:48393909-48394767;chr12:48394878-48398019 chr12:48394768-48394877 48;94 N alternative_donor CUFF.1109 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 6;24 K cassette CUFF.1080 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 114;101 N cassette CUFF.1106 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 19;81 K intron_retention CUFF.1100 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 chr12:56577645-56577714;chr12:56577959-56578028 114;24 N alternative_acceptor chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 28;82 K cassette CUFF.1046 chr12 - chr12:347177-351779 chr12:347177-347336;chr12:347510-351779 chr12:347337-347509 93;187 N alternative_acceptor CUFF.1046 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 27;43 N jcn_only_AD CUFF.1062 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 299;6 N alternative_donor CUFF.1118 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 19;15 N coord_cassette CUFF.1106 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 57;32 N cassette CUFF.1070 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 2;64 N jcn_only_AD CUFF.1077 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 46;26 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 36;105 N alternative_donor CUFF.1052 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 44;1 K cassette CUFF.1073 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 8;285 N jcn_only_AA CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49350319-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 199;5 K alternative_last_exon CUFF.1113 chr12 - chr12:102796345-102813286 chr12:102811782-102813286 chr12:102789630-102796344 chr12:102811267-102811781 25;57 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;1678 N jcn_only_AD CUFF.1101 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 102;161 N jcn_only_AD CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4662314-4668022;chr12:4665717-4668022 chr12:4665669-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 446;39 K coord_cassette CUFF.1103 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 271;55 N jcn_only_AD CUFF.1101 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 258;5 K intron_retention CUFF.1101 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 87;74 N alternative_donor CUFF.1046 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 16;9 N alternative_donor chr12 - chr12:48276558-48298737;chr12:48276558-48298346;chr12:48276558-48293619 chr12:48276558-48336645 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 0;4 N coord_cassette CUFF.1106 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 58;23 N alternative_acceptor CUFF.1072 chr12 + chr12:26148064-26208168;chr12:26148064-26173077 chr12:26148064-26208211 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 61;33 N jcn_only_AA CUFF.1046 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 16;37 K coord_cassette CUFF.1089 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 788;296 N jcn_only_AD CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662314-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 365;120 K alternative_last_exon CUFF.1060 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743309 chr12:11716635-11717337 54;22 K jcn_only_AA CUFF.1047,CUFF.1089 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 872;499 K coord_cassette CUFF.1046 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 27;77 N jcn_only_AD CUFF.1070,CUFF.1112 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 49;23 K intron_retention CUFF.1100 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 chr12:56578814-56578895;chr12:56579939-56580024 66;84 N jcn_only_AD chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 89;16 K alternative_last_exon CUFF.1052,CUFF.1072 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232827 chr12:26221630-26222418 97;68 N jcn_only_AA CUFF.1101 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 66;87 N jcn_only_AA CUFF.1054 chr12 + chr12:4662314-4665596;chr12:4662314-4668022 chr12:4662314-4665518 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 195;135 N alternative_donor CUFF.1065 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 20;0 N alternative_acceptor CUFF.1112 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 69;8 N jcn_only_AD CUFF.1046 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 16;20 N coord_cassette CUFF.1106 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 27;21 N alternative_acceptor CUFF.1070 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 8;105 N cassette CUFF.1054 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 311;379 N alternative_donor chr12 + chr12:26148064-26208211;chr12:26205930-26208211 chr12:26205536-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 34;0 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 36;72 N cassette CUFF.1089 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 1089;309 N cassette CUFF.1071 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 46;172 N intron_retention chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 21;28 N jcn_only_AA CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49349981-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 144;60 K alternative_acceptor CUFF.1120 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 78;38 N jcn_only_AA CUFF.1118 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 22;27 N jcn_only_AD CUFF.1084 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 185;21 K alternative_donor CUFF.1104 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 105;97 N jcn_only_AD CUFF.1057 chr12 - chr12:7092701-7125577 chr12:7092701-7108732 chr12:7108733-7125577 chr12:7125577-7125578 34;40 N jcn_only_AD chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 6;461 K alternative_first_exon CUFF.1089 chr12 + chr12:53847068-53848509;chr12:53846760-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53846579-53846759;chr12:53837175-53837557 chr12:53845803-53846160 256;234 N coord_cassette CUFF.1104 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 48;21 K intron_retention CUFF.1084 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 92;64 N mutually_exclusive CUFF.1070 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 40;22 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 36;7 K coord_cassette CUFF.1080 chr12 - chr12:49334972-49350767 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767 chr12:49349478-49349543;chr12:49349881-49350133 114;33 N coord_cassette CUFF.1106 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 42;18 N jcn_only_AA chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 28;29 N cassette CUFF.1071 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 3;30 N jcn_only_AD chr12 - chr12:48276558-48298737;chr12:48276558-48298346;chr12:48276558-48293619 chr12:48276558-48336645 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 24;4 K alternative_last_exon CUFF.1120 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633246-113633694 chr12:113637850-113638618 110;79 N coord_cassette CUFF.1106 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 42;33 K intron_retention CUFF.1123 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 3;30 N cassette CUFF.1100 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 chr12:56565055-56565216;chr12:56566212-56566274 14;95 N jcn_only_AD CUFF.1054 chr12 + chr12:4662314-4668022;chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662256-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 256;229 N coord_cassette CUFF.1106 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 58;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 40;1678 N cassette CUFF.1106 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 53;58 N coord_cassette CUFF.1106 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 11;55 N alternative_acceptor CUFF.1101 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 66;57 K intron_retention CUFF.1101 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 270;14 K alternative_acceptor CUFF.1100 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 232;67 N jcn_only_AD CUFF.1113 chr12 - chr12:102796345-102809481;chr12:102796345-102811732 chr12:102796345-102813286 30;28 N alternative_donor CUFF.1070,CUFF.1112 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 49;4 N alternative_acceptor CUFF.1118 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 22;13 K coord_cassette CUFF.1062 chr12 + chr12:13349807-13366614 chr12:13349807-13364402;chr12:13364523-13366412;chr12:13366510-13366614 chr12:13364403-13364522;chr12:13366413-13366509 76;228 N alternative_donor CUFF.1077 chr12 - chr12:48276558-48298737;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298346 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 4;0 N cassette CUFF.1104 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 48;135 N coord_cassette CUFF.1106 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 420;43 N jcn_only_AA CUFF.1054 chr12 + chr12:4662314-4668022;chr12:4662314-4665518 chr12:4662314-4665596 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 255;75 K intron_retention CUFF.1089 chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 872;34 N jcn_only_AA CUFF.1101 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 143;11 K cassette CUFF.1086 chr12 - chr12:53471046-53473094 chr12:53471046-53471844;chr12:53471956-53473094 chr12:53471845-53471955 74;53 N cassette CUFF.1070 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 64;259 N jcn_only_AA CUFF.1072 chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26173078-26208168 chr12:26208168-26208169 10;67 N alternative_acceptor chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 20;110 N jcn_only_AA CUFF.1071 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 26;139 N jcn_only_AD CUFF.1065 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 20;11 N jcn_only_AD chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 35;5 N jcn_only_AD CUFF.1077 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 3;112 K alternative_last_exon CUFF.1062 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13369378-13369718 chr12:13366615-13367251 128;186 N jcn_only_AA CUFF.1089 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 1569;5 K intron_retention CUFF.1128 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 289;107 N coord_cassette CUFF.1106 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 149;35 N jcn_only_AD CUFF.1054 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 46;15 K alternative_first_exon CUFF.1047 chr12 + chr12:1684008-1740463,chr12:1640117-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463 chr12:1726310-1740463 chr12:1639057-1639175 chr12:1725740-1726309 60;208 N jcn_only_AD CUFF.1072 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 84;11 N intron_retention CUFF.1054 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 75;55 N alternative_acceptor chr12 + chr12:26148064-26208211;chr12:26148064-26173077 chr12:26148064-26208168 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 35;59 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 30;160 N jcn_only_AD CUFF.1077 chr12 - chr12:48276558-48298346;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 23;4 N jcn_only_AA chr12 + chr12:4662314-4665596;chr12:4662314-4665518 chr12:4662314-4668022 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 210;120 N alternative_acceptor CUFF.1089 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1687;21 N cassette CUFF.1118 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 5;31 K intron_retention CUFF.1104 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 84;86 N mutually_exclusive CUFF.1089 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 271;14 K intron_retention CUFF.1084 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 185;29 N alternative_donor chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 68;246 N jcn_only_AD CUFF.1077 chr12 - chr12:48276558-48298737;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298346 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 23;5 N alternative_donor CUFF.1057 chr12 - chr12:7092701-7125577 chr12:7092701-7108732 chr12:7108733-7125577 chr12:7125577-7125578 34;0 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 9;5 N alternative_donor CUFF.1054 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 46;3 N cassette CUFF.1106 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 678;133 N cassette CUFF.1106 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 135;453 N intron_retention chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 9;13 N jcn_only_AA CUFF.1101 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 105;48 K intron_retention CUFF.1100 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 chr12:56578628-56578720;chr12:56578814-56578895 410;20 N alternative_acceptor CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49349981-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 11;8 N coord_cassette CUFF.1057 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 19;56 N alternative_donor chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 9;9 N coord_cassette CUFF.1054 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 37;44 N jcn_only_AD CUFF.1052 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430470-4433929 chr12:4430469-4430470 44;5 K intron_retention CUFF.1082 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 26;11 K coord_cassette CUFF.1080 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 114;89 N alternative_acceptor CUFF.1046 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 16;7 K cassette CUFF.1080 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 13;156 N intron_retention chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 43;22 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 2;321 N alternative_acceptor CUFF.1101 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 75;48 N cassette CUFF.1061 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 4;98 N alternative_acceptor CUFF.1128 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 289;31 K intron_retention CUFF.1085 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 16;33 K intron_retention CUFF.1089 chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 499;34 K alternative_first_exon CUFF.1089 chr12 + chr12:53847068-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53845803-53846160;chr12:53837175-53837557 chr12:53846579-53846759 349;141 K intron_retention CUFF.1057 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 121;17 K alternative_acceptor CUFF.1104 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 84;146 N alternative_acceptor CUFF.1070 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 107;6 K cassette CUFF.1104 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 261;31 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 30;170 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 7;40 N alternative_last_exon CUFF.1062 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756409 chr12:1748850-1749142 32;97 N alternative_donor CUFF.1101 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 128;97 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 20;20 K alternative_first_exon CUFF.1106 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69201956-69202271 chr12:69202734-69202866 140;325 N jcn_only_AD CUFF.1046 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 93;13 N alternative_acceptor CUFF.1089 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 1569;4 K intron_retention CUFF.1051 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 15;7 N alternative_donor CUFF.1113 chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 43;16 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 15;249 N alternative_donor CUFF.1084 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 185;16 N jcn_only_AD CUFF.1109 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 6;29 N alternative_acceptor CUFF.1054 chr12 + chr12:4662314-4665596;chr12:4662314-4668022 chr12:4662314-4665518 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 125;15 N alternative_donor CUFF.1072 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 84;0 N alternative_donor CUFF.1123 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 chr12:120148345-120148425;chr12:120149983-120150152 62;3 N jcn_only_AA CUFF.1065 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 199;21 K alternative_first_exon CUFF.1072 chr12 + chr12:26205930-26208168,chr12:26205536-26208168;chr12:26148064-26208168;chr12:26164755-26208168 chr12:26174452-26208168 chr12:26147970-26148063;chr12:26164647-26164754 chr12:26174306-26174451 69;346 N jcn_only_AD CUFF.1077,CUFF.1118 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 35;20 K alternative_donor CUFF.1081,CUFF.1101 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;32 K intron_retention CUFF.1101 chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 97;77 N jcn_only_AA chr12 + chr12:26148064-26208211;chr12:26148064-26173077 chr12:26148064-26208168 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 57;39 N jcn_only_AD CUFF.1113 chr12 - chr12:102796345-102811732;chr12:102796345-102813286 chr12:102796345-102809481 47;10 N alternative_acceptor CUFF.1080 chr12 - chr12:49335361-49351092;chr12:49332631-49351092;chr12:49350319-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 14;5 N jcn_only_AA CUFF.1070 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 154;93 K intron_retention CUFF.1097 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 382;63 N coord_cassette CUFF.1106 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 420;31 N intron_retention chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 10;23 N jcn_only_AA CUFF.1072 chr12 + chr12:26148064-26208168;chr12:26148064-26173077 chr12:26148064-26208211 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 63;33 N alternative_donor CUFF.1054 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 584;12 K jcn_only_AA CUFF.1104 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 84;226 N jcn_only_AD CUFF.1070,CUFF.1077 chr12 - chr12:48276558-48298737;chr12:48276558-48298346;chr12:48276558-48336645 chr12:48276558-48293619 chr12:48293620-48298346;chr12:48298347-48298737;chr12:48298738-48336645 chr12:48298346-48298347;chr12:48298737-48298738;chr12:48336645-48336646 13;15 N alternative_donor CUFF.1101 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 223;2 N cassette CUFF.1123 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 chr12:120145984-120146123;chr12:120148345-120148425 15;70 N jcn_only_AD chr12 - chr12:120158391-120287977 chr12:120158391-120159113 110;25 N jcn_only_AA CUFF.1128 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 289;19 N jcn_only_AD CUFF.1118 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 19;14 N alternative_donor CUFF.1054 chr12 + chr12:4662314-4668022;chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662256-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 111;229 K alternative_last_exon CUFF.1071 chr12 - chr12:25655973-25656671,chr12:25652931-25656671,chr12:25650729-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25562227-25562364 chr12:25629044-25629394 147;54 N alternative_acceptor CUFF.1089 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1699;9 N cassette CUFF.1089 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 805;600 K alternative_donor CUFF.1077 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 14;101 K coord_cassette CUFF.1080 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 13;100 N jcn_only_AD chr12 + chr12:26148064-26208211;chr12:26205930-26208211 chr12:26205536-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 61;36 N cassette CUFF.1062 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 76;131 N jcn_only_AD CUFF.1113 chr12 - chr12:102796345-102809481;chr12:102796345-102813286 chr12:102796345-102811732 38;20 K intron_retention CUFF.1089 chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 65;88 K intron_retention CUFF.1086 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 17;24 K jcn_only_AA CUFF.1100 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 232;66 K jcn_only_AD CUFF.1081,CUFF.1101 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 10;21 N cassette CUFF.1086 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 9;155 N jcn_only_AD chr12 + chr12:26148064-26208211;chr12:26205536-26208211 chr12:26205930-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 69;28 N alternative_donor CUFF.1054 chr12 + chr12:4662256-4668022;chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662314-4668022 chr12:4662256-4662313;chr12:4662314-4665668;chr12:4665669-4665716 chr12:4662255-4662256;chr12:4662313-4662314;chr12:4665668-4665669 243;97 K intron_retention CUFF.1046 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 27;33 N alternative_donor CUFF.1101 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 99;126 N coord_cassette CUFF.1106 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 149;79 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 47;140 K jcn_only_AD CUFF.1077 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 14;133 N alternative_donor CUFF.1077,CUFF.1118 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 35;3 K intron_retention CUFF.1100 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 chr12:56572188-56572318;chr12:56572594-56572631 45;53 N jcn_only_AA chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 20;187 K alternative_acceptor CUFF.1089 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 354;508 N cassette CUFF.1106 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 354;545 N coord_cassette CUFF.1106 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 27;22 K intron_retention CUFF.1106 chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 36;144 N alternative_donor CUFF.1077 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 3;21 N cassette CUFF.1085 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 10;56 K intron_retention CUFF.1100 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 chr12:56577959-56578028;chr12:56578628-56578720 464;24 K intron_retention CUFF.1104 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 95;48 N alternative_acceptor chr12 + chr12:4662314-4665596;chr12:4662314-4665518 chr12:4662314-4668022 chr12:4665519-4665596;chr12:4665597-4668022 chr12:4665596-4665597;chr12:4668022-4668023 20;120 N jcn_only_AA CUFF.1046 chr12 - chr12:332401-344255 chr12:336835-344255 13;18 K cassette CUFF.1035 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 68;121 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 27;68 N alternative_donor CUFF.1002 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 22;146 K intron_retention CUFF.962 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 43;440 K alternative_first_exon CUFF.1006 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67782422-67782545;chr11:67776048-67776162 chr11:67777708-67777862 45;165 K intron_retention CUFF.955 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 chr11:828852-828963;chr11:829360-829540 79;41 K cassette CUFF.1020 chr11 - chr11:102937297-102953984 chr11:102937297-102953476;chr11:102953569-102953984 chr11:102953477-102953568 101;96 K alternative_first_exon CUFF.1013 chr11 - chr11:77897863-77899618 chr11:77897863-77899569 chr11:77899619-77899922 chr11:77899570-77899589 57;10 N jcn_only_AA CUFF.959 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 194;27 N jcn_only_AD CUFF.1022 chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 28;13 K alternative_first_exon CUFF.1006 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67782422-67782545;chr11:67777708-67777862 chr11:67776048-67776162 198;12 N alternative_donor CUFF.994 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 31;33 K alternative_donor CUFF.1020 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 103;37 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 18;170 K alternative_last_exon CUFF.1012 chr11 - chr11:75514563-75522468,chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514476-75514562 chr11:75520318-75520419 31;8 K intron_retention CUFF.1005 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 72;113 N cassette CUFF.1030 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 16;23 K intron_retention CUFF.999 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 191;86 K intron_retention chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 13;16 N alternative_donor CUFF.1016,CUFF.979 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 84;8 N alternative_first_exon CUFF.955 chr11 + chr11:827460-828229;chr11:826267-828229 chr11:827712-828229 chr11:826056-826266 chr11:827583-827711 chr11:828230-828780 62;6 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 48;65 N cassette CUFF.976 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 8;86 N jcn_only_AD CUFF.1032 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 288;73 N mutually_exclusive CUFF.953 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 27;33 N jcn_only_AA CUFF.1020 chr11 - chr11:102937297-102953476 chr11:102950727-102953476 chr11:102937297-102950726 chr11:102937296-102937297 124;30 K intron_retention CUFF.1002 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 94;29 N jcn_only_AD CUFF.989 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 27;53 N cassette CUFF.983 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 8;35 N mutually_exclusive CUFF.1024 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 8;13 K jcn_only_AA CUFF.955 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 chr11:826056-826266;chr11:828260-828772 64;48 N alternative_donor CUFF.1032 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 110;73 N alternative_acceptor CUFF.983 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 29;3 N intron_retention CUFF.1030 chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 13;64 N cassette CUFF.964 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 6;49 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 8;18 K alternative_last_exon CUFF.1009 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 17;13 N jcn_only_AA CUFF.1043 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 31;6 N alternative_acceptor CUFF.1038 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 61;48 K intron_retention CUFF.953 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 211;6 K intron_retention CUFF.994 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 114;11 K cassette CUFF.1022 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 61;79 N alternative_donor chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 74;7 K coord_cassette CUFF.964 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 6;10 N alternative_acceptor CUFF.1035 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 485;11 N jcn_only_AA CUFF.1030 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 125;31 K intron_retention CUFF.1026 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 30;69 N alternative_donor CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117071059-117073717 chr11:117070149-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 73;30 K intron_retention CUFF.1005 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 437;537 N alternative_acceptor CUFF.1043 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 19;29 K alternative_acceptor CUFF.990 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 48;15 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 45;6 N alternative_donor CUFF.989 chr11 + chr11:61594904-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61584169-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 8;20 N jcn_only_AD CUFF.983 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 148;47 K intron_retention CUFF.954 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 38;6 K intron_retention CUFF.1032 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 25;4 N jcn_only_AD chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 143;16 N alternative_donor chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 41;23 K alternative_last_exon CUFF.990 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61516015-61517214 chr11:61521499-61521917 41;29 K jcn_only_AD CUFF.1002 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 178;185 K intron_retention CUFF.994 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 40;10 N jcn_only_AD CUFF.1035 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 29;45 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 23;78 K intron_retention CUFF.1025 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 20;58 K intron_retention CUFF.986 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 44;9 K intron_retention CUFF.958 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 239;7 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 393;48 N alternative_acceptor CUFF.1006 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 149;3 N cassette CUFF.1006 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 32;247 K jcn_only_AA CUFF.998 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 185;30 N jcn_only_AA chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 67;86 N jcn_only_AD chr11 + chr11:119056875-119057187 chr11:119056951-119057187 63;16 K intron_retention CUFF.1035 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 119;11 K intron_retention CUFF.979 chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 37;38 N jcn_only_AA CUFF.1043 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 22;15 N alternative_acceptor CUFF.953 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 69;117 N cassette CUFF.1024 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 14;13 K jcn_only_AA CUFF.999 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 263;111 N jcn_only_AD CUFF.954,CUFF.979 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 108;7 N alternative_donor CUFF.983 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 148;1 K alternative_donor CUFF.955 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 chr11:829360-829540;chr11:828852-828963 79;25 N alternative_donor CUFF.1002 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 134;5 N cassette CUFF.1024 chr11 + chr11:107904638-107920616 chr11:107904638-107916996;chr11:107917097-107920616 chr11:107916997-107917096 10;16 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 9;461 K alternative_first_exon CUFF.955 chr11 + chr11:827319-828259,chr11:827460-828259;chr11:826267-828259 chr11:827712-828259 chr11:826056-826266 chr11:827583-827711 chr11:828260-828772 155;6 N cassette CUFF.976 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 13;37 K intron_retention CUFF.1038 chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 24;60 K intron_retention CUFF.1016 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 73;6 K intron_retention CUFF.953 chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 20;57 N jcn_only_AD CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117071059-117073717 chr11:117070149-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 133;30 N alternative_last_exon CUFF.971 chr11 - chr11:6622006-6624633 chr11:6623446-6624633,chr11:6623495-6624633 chr11:6616285-6622005 chr11:6623083-6623445 6;40 N jcn_only_AA CUFF.1006 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 258;14 N jcn_only_AD CUFF.959 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 52;3 N alternative_donor CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 87;16 N alternative_first_exon CUFF.1005,CUFF.976 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8615630-8615931 chr11:8615291-8615616 91;19 K cassette CUFF.976 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 17;94 N jcn_only_AD CUFF.1035 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 11;160 K intron_retention CUFF.1026 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 319;155 K jcn_only_AD CUFF.962 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 25;594 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 30;10 N alternative_acceptor CUFF.1035 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 22;474 K intron_retention CUFF.971 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 17;60 N jcn_only_AD CUFF.1016,CUFF.979 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 90;20 N alternative_donor chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 3;18 K intron_retention CUFF.1005 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 1181;74 N cassette CUFF.979 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 26;31 K intron_retention CUFF.964 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 5;19 K alternative_first_exon CUFF.1020 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102963013 chr11:102959956-102960047 141;115 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 61;33 N jcn_only_AA CUFF.955 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 chr11:828260-828772 7;7 N cassette CUFF.1020 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 10;66 N cassette CUFF.959 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 94;145 K alternative_acceptor CUFF.1012 chr11 - chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770 chr11:75514562-75514563 29;21 K cassette CUFF.999 chr11 + chr11:63998413-63999342 chr11:63998413-63998503;chr11:63998620-63999342 chr11:63998504-63998619 163;127 N jcn_only_AD CUFF.1022 chr11 - chr11:104915386-104916017;chr11:104915386-104972134 chr11:104915386-104915917 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 30;10 N intron_retention CUFF.955 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 chr11:829361-829540 7;9 N jcn_only_AA chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 82;311 K alternative_first_exon CUFF.960 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466169-2466714 chr11:2483055-2483207 23;50 N intron_retention chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 17;18 K alternative_acceptor CUFF.1043 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 57;51 K cassette CUFF.955 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 chr11:830621-830713;chr11:831224-831295 16;118 N jcn_only_AD CUFF.1002 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 134;8 N cassette CUFF.1030 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 16;350 N jcn_only_AD chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 32;55 N alternative_donor CUFF.1013,CUFF.966 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 50;50 N jcn_only_AD CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117072658-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 96;66 N intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 44;93 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 7;27 N jcn_only_AA CUFF.1043 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 21;16 N alternative_donor CUFF.989 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61596070-61605249 chr11:61583899-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 24;4 N jcn_only_AA CUFF.1038 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 95;34 N alternative_acceptor CUFF.1002,CUFF.1007 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 33;18 K intron_retention CUFF.1038 chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 34;19 N alternative_acceptor CUFF.1030 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 3;31 N alternative_acceptor CUFF.983 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 148;1 K intron_retention CUFF.1002 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 105;33 K jcn_only_AA CUFF.979 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 37;55 K intron_retention CUFF.962 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 594;267 N alternative_donor CUFF.979 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 49;32 K intron_retention CUFF.1020 chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 26;32 N alternative_acceptor CUFF.1030 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 34;0 N jcn_only_AD CUFF.1010 chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 32;11 N cassette CUFF.979 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 20;440 K intron_retention CUFF.1043 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 25;16 N jcn_only_AD chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 80;7 N alternative_last_exon CUFF.1002 chr11 + chr11:63999437-63999865,chr11:63999437-63999981;chr11:63999437-64001365 chr11:63999437-63999901 chr11:64001366-64001759 chr11:63999902-64000086 126;413 N cassette CUFF.1030 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 531;275 K jcn_only_AA CUFF.1007 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 49;175 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 15;24 K intron_retention CUFF.972 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 251;147 N alternative_donor CUFF.1035 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 11;103 K intron_retention CUFF.1025 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 10;55 K jcn_only_AA CUFF.1044 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 22;13 K jcn_only_AA CUFF.1043 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 57;11 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 9;303 K jcn_only_AA CUFF.1020 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 26;51 N jcn_only_AD CUFF.971 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 78;1446 K intron_retention CUFF.1035 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 88;28 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 44;99 K intron_retention CUFF.1002 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 178;27 N jcn_only_AD CUFF.979 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 80;8 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 11;45 K alternative_acceptor CUFF.1022 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 13;25 N jcn_only_AD CUFF.1031,CUFF.994 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62366690-62367637 chr11:62367637-62367638 111;10 N intron_retention CUFF.1026 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 26;20 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 120;453 N jcn_only_AA CUFF.1026 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 30;26 K intron_retention CUFF.959 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 194;9 K jcn_only_AA CUFF.962 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 488;401 N alternative_acceptor CUFF.955 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 chr11:828260-828772 7;10 N jcn_only_AD CUFF.1016 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 97;13 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 19;135 N intron_retention CUFF.979 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 10;45 N alternative_acceptor CUFF.1006 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 258;18 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;74 N jcn_only_AD CUFF.960 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 62;40 N cassette CUFF.966 chr11 - chr11:5701469-5706097 chr11:5701469-5705215;chr11:5705370-5706097 chr11:5705216-5705369 21;3651 N jcn_only_AD CUFF.1010 chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 24;19 N alternative_donor CUFF.1032 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 179;4 K intron_retention CUFF.966 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 137;6 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 7;6 N alternative_acceptor CUFF.1026 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 30;102 N jcn_only_AA chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 chr11:828260-828772 41;10 N alternative_donor chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 21;0 N intron_retention chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 20;10 K intron_retention CUFF.981 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 18;5 K jcn_only_AD CUFF.953 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 369;20 N alternative_acceptor CUFF.1038 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 101;8 K alternative_first_exon CUFF.1006 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776048-67776162;chr11:67777708-67777862 chr11:67782422-67782545 177;33 N alternative_acceptor chr11 - chr11:77885630-77888784 chr11:77888032-77888784 chr11:77885630-77888031 chr11:77885629-77885630 21;3 K intron_retention CUFF.1035 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 474;45 K jcn_only_AD CUFF.1020,CUFF.958 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 87;63 K intron_retention CUFF.1016 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 39;8 K intron_retention CUFF.1038 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 147;19 K intron_retention CUFF.1037 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 52;31 N jcn_only_AA CUFF.1038 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 120;9 N coord_cassette CUFF.1020 chr11 - chr11:102937297-102962515 chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102953477-102953568;chr11:102953985-102954055 10;60 K alternative_donor CUFF.1002 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 178;108 N alternative_donor CUFF.1031,CUFF.994 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62366690-62367637 chr11:62367637-62367638 111;2 N alternative_acceptor chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 63;64 N alternative_donor CUFF.989 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61583899-61605249 chr11:61596070-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 25;3 K alternative_first_exon CUFF.994 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369385 chr11:62368495-62368820 29;40 N alternative_acceptor chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 67;43 N jcn_only_AD CUFF.989 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61583899-61605249 chr11:61596070-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 44;28 K jcn_only_AA CUFF.954 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 52;135 N cassette CUFF.998 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 48;193 N mutually_exclusive CUFF.979 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 7;65 N alternative_acceptor CUFF.977 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 15;109 N jcn_only_AD CUFF.1032 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 348;12 N intron_retention chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 chr11:828260-828772 45;39 N jcn_only_AA CUFF.989 chr11 + chr11:61583899-61605249 chr11:61583899-61593503 4;13 K intron_retention CUFF.955 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 chr11:830621-830713;chr11:830866-831295 127;14 K intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 36;19 K cassette CUFF.998 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 172;47 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 199;23 N jcn_only_AD CUFF.1026 chr11 + chr11:117072658-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 119;44 K alternative_acceptor CUFF.955 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 chr11:826056-826266;chr11:828260-828772 64;29 N coord_cassette CUFF.998 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 35;23 N intron_retention chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 57;191 N jcn_only_AD CUFF.1032 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 298;62 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 215;7 K intron_retention CUFF.994 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 45;49 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 7;373 N cassette CUFF.998 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 224;37 N jcn_only_AA CUFF.955,CUFF.999 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 chr11:829361-829540;chr11:829986-830132 130;7 K intron_retention CUFF.955 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 chr11:829361-829540;chr11:829986-830132 130;10 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 7;45 N intron_retention CUFF.1002 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 18;16 N alternative_acceptor CUFF.1043 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 42;6 K alternative_acceptor CUFF.1005 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 437;912 N intron_retention CUFF.979 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 8;37 K intron_retention CUFF.1042 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 25;10 N jcn_only_AA CUFF.983 chr11 + chr11:36398255-36400930;chr11:36398255-36415395 chr11:36398255-36422546 341;40 N alternative_acceptor CUFF.1024,CUFF.989 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 12;2 K intron_retention CUFF.1035 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 160;8 N alternative_donor CUFF.1038 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 13;12 K alternative_acceptor CUFF.1009,CUFF.1025 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 10;119 N jcn_only_AA chr11 - chr11:77885630-77888784 chr11:77888032-77888784 chr11:77885630-77888031 chr11:77885629-77885630 21;50 N jcn_only_AD CUFF.1032 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 241;119 N intron_retention chr11 - chr11:10828867-10830251 chr11:10828866-10828867;chr11:10830251-10830252 30;142 K alternative_last_exon CUFF.979 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818587-10819428 chr11:10823596-10823756 41;89 K cassette CUFF.1032 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 12;33 K alternative_acceptor CUFF.1007 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 49;87 K cassette CUFF.1013 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 2;92 K alternative_first_exon CUFF.982 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264158 13;7 N jcn_only_AD CUFF.1026 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 123;215 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 6;22 N alternative_donor chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 15;33 N intron_retention CUFF.1035 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 20;46 N alternative_donor CUFF.1032,CUFF.972 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 174;9 N jcn_only_AA CUFF.1035 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 494;29 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 28;12 N jcn_only_AD CUFF.954 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 87;28 K cassette CUFF.963 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 26;62 N intron_retention chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 232;76 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 79;208 N alternative_donor CUFF.1032 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 175;8 K intron_retention CUFF.1043 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 27;17 K intron_retention CUFF.955 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 chr11:830621-830713;chr11:831224-831295 16;27 K alternative_acceptor CUFF.1044 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 22;10 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 11;5 N alternative_donor CUFF.1026 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 123;174 K intron_retention CUFF.1002 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 386;8 K alternative_donor CUFF.962 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 25;781 N mutually_exclusive CUFF.966 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 14;93 K intron_retention chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 55;4 N alternative_acceptor chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 chr11:828260-828772 41;11 N jcn_only_AA CUFF.1030 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 132;24 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 106;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 56;101 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 26;84 N jcn_only_AD CUFF.1038 chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 13;13 N mutually_exclusive CUFF.1030 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 4;36 K intron_retention CUFF.999 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 99;169 N alternative_acceptor CUFF.955,CUFF.999 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 chr11:829361-829540;chr11:829986-830132 130;8 K intron_retention CUFF.972 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 640;59 K intron_retention CUFF.953 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 203;81 N intron_retention chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 7;33 K intron_retention CUFF.1043 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 20;13 K jcn_only_AA CUFF.1030,CUFF.1035 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 51;873 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615931 chr11:8476291-8476379 4;83 K alternative_acceptor CUFF.999 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 263;55 K intron_retention CUFF.966 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 50;29 K cassette CUFF.1031 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 38;76 N alternative_first_exon CUFF.983 chr11 + chr11:36415562-36422546,chr11:36420378-36422546,chr11:36399275-36422546;chr11:36371616-36422546;chr11:36317989-36422546 chr11:36398255-36422546 chr11:36371388-36371615;chr11:36317744-36317988 chr11:36397886-36398254 537;42 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 69;254 N alternative_first_exon CUFF.983 chr11 + chr11:36415562-36422546,chr11:36420378-36422546,chr11:36399275-36422546;chr11:36317989-36422546;chr11:36398255-36422546 chr11:36371616-36422546 chr11:36317744-36317988;chr11:36397886-36398254 chr11:36371388-36371615 514;65 K intron_retention chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 26;1872 K intron_retention CUFF.1035 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 29;48 N cassette CUFF.1038 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 37;95 N intron_retention CUFF.966 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 30;43 N jcn_only_AD chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 20;11 N cassette CUFF.1017 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 19;3 N cassette CUFF.976 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 10;97 N coord_cassette CUFF.953 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 39;55 N alternative_donor chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 7;54 K alternative_donor CUFF.953 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 369;60 K jcn_only_AD CUFF.979 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 42;114 N cassette CUFF.953 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 115;237 N jcn_only_AD CUFF.1002 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 22;287 K intron_retention CUFF.959 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 306;59 K intron_retention CUFF.988 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 63;28 N cassette CUFF.1002 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 230;215 K intron_retention CUFF.1043 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 82;24 K intron_retention CUFF.1002 chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 185;32 N jcn_only_AA CUFF.966 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 50;56 K cassette CUFF.1032 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 70;207 K intron_retention chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 1446;26 N alternative_donor CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 64;39 K intron_retention CUFF.979 chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 221;244 N cassette CUFF.979 chr11 - chr11:10828433-10829823;chr11:10828433-10830251 chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251 chr11:10828802-10828928 104;404 N alternative_donor CUFF.1032 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 158;25 N alternative_donor chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 32;63 N cassette CUFF.964 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 10;10 K alternative_first_exon CUFF.1020,CUFF.1043 chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124768294-124768465 chr11:124767622-124768177 24;13 K jcn_only_AA CUFF.1005 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 437;1181 K jcn_only_AA CUFF.990 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 48;28 N cassette CUFF.966 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 14;77 N cassette CUFF.959 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 65;19 N alternative_donor CUFF.1022 chr11 - chr11:104915386-104916017;chr11:104915386-104972134 chr11:104915386-104915917 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 18;0 K jcn_only_AA CUFF.1038 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 29;147 K jcn_only_AA CUFF.989 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 53;18 N jcn_only_AA CUFF.1024,CUFF.989 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 12;13 N alternative_acceptor chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 82;269 N alternative_donor CUFF.954,CUFF.979 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 68;3 N jcn_only_AD CUFF.1010 chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 30;13 N alternative_donor chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 18;3 N mutually_exclusive CUFF.1032 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 11;4 N jcn_only_AA CUFF.999 chr11 + chr11:36397709-36440804 chr11:36397709-36398178 7;16 K intron_retention CUFF.979 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 128;39 K cassette CUFF.977 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949230-8950923 chr11:8949050-8949229 46;45 N alternative_donor CUFF.1026 chr11 + chr11:117072658-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 85;18 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 23;7 K intron_retention CUFF.1025 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 188;54 N alternative_donor CUFF.1016 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 85;7 K cassette CUFF.960 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 44;28 K intron_retention chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 43;87 K intron_retention CUFF.972 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 235;240 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 9;113 N alternative_donor CUFF.971 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 78;413 K alternative_last_exon CUFF.1010 chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74630869 chr11:74624740-74624827 51;24 N intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 26;254 N alternative_donor CUFF.964 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 7;10 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 19;190 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 chr11:828230-828259;chr11:828575-828772 17;177 K cassette CUFF.976 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 13;92 N alternative_first_exon CUFF.1043,CUFF.959 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768465 chr11:124767622-124768177 47;5 K alternative_first_exon CUFF.1007 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819488-67819908 87;216 K intron_retention CUFF.1005 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 1979;69 K intron_retention CUFF.1012 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 39;34 K jcn_only_AA CUFF.971 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 3;20 N jcn_only_AD chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;39 K intron_retention CUFF.1032 chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 276;6 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 23;331 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 7;8 N alternative_acceptor chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 77;6 N jcn_only_AD chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 136;23 N alternative_donor CUFF.954 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 43;28 N alternative_first_exon chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119252183-119252421 chr11:119246934-119247156 14;20 N alternative_donor CUFF.1037 chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 7;216 K alternative_acceptor CUFF.1030,CUFF.1035 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 51;433 K intron_retention CUFF.962 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 25;379 N jcn_only_AD CUFF.1032,CUFF.972 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 303;58 K jcn_only_AD CUFF.955 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 chr11:829360-829540;chr11:828852-828963 79;12 K intron_retention CUFF.979 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 356;90 K jcn_only_AD CUFF.1031 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 36;74 K jcn_only_AA CUFF.1012 chr11 - chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770 chr11:75514562-75514563 29;17 N jcn_only_AA CUFF.1006 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 149;6 K cassette CUFF.1020 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 17;143 N intron_retention chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 56;13 N alternative_donor CUFF.989 chr11 + chr11:61584169-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61594904-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 27;1 K intron_retention CUFF.994 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 48;20 K cassette CUFF.1018 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 43;27 K intron_retention CUFF.1006 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 109;100 N alternative_acceptor CUFF.966 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 50;75 K intron_retention CUFF.1002 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 33;16 N jcn_only_AA CUFF.1038 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 68;61 N alternative_donor CUFF.1022 chr11 - chr11:104915386-104915917;chr11:104915386-104972134 chr11:104915386-104916017 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 18;0 K alternative_acceptor CUFF.1038 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 29;104 N jcn_only_AD CUFF.1037 chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 7;20 K jcn_only_AA CUFF.958 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 51;184 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 80;3 N jcn_only_AD CUFF.1032 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 324;36 N jcn_only_AD CUFF.999 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 48;191 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 6;19 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 18;482 K intron_retention CUFF.977 chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 51;7 K alternative_acceptor CUFF.954 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 52;72 N alternative_donor chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 15;77 N jcn_only_AD CUFF.1013,CUFF.966 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 50;30 N intron_retention chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 63;320 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 8;18 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 168;23 N jcn_only_AA CUFF.983 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 29;14 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 11;22 N jcn_only_AD CUFF.1032 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 7;27 K mutually_exclusive CUFF.998 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 170;13 K intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 43;7 K alternative_acceptor CUFF.1012 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 39;27 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 16;8 K cassette CUFF.1031 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 54;58 N cassette CUFF.953 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 149;52 N intron_retention chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 123;137 K intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 35;88 N alternative_donor CUFF.989 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 27;2 N alternative_acceptor CUFF.1038 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 80;29 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 376;107 K cassette CUFF.953 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 229;175 K intron_retention CUFF.979 chr11 - chr11:10828929-10830251 chr11:10828928-10828929;chr11:10830251-10830252 636;15 N alternative_donor CUFF.1032 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 119;64 K intron_retention CUFF.955 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 chr11:829986-830132;chr11:830250-830337 110;9 K alternative_first_exon CUFF.1030 chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401688-118401949 chr11:118402220-118402316 400;37 K cassette CUFF.977 chr11 - chr11:8941998-8947009 chr11:8941998-8942840;chr11:8943063-8947009 chr11:8942841-8943062 28;61 N cassette CUFF.1006 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 5;191 N alternative_donor CUFF.1035 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 29;59 K cassette CUFF.966 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 137;60 N alternative_donor CUFF.959 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 52;42 K intron_retention CUFF.1012 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 16;20 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 36;80 N jcn_only_AA CUFF.1035 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 503;20 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118402960 199;23 N jcn_only_AD CUFF.1026 chr11 + chr11:117070546-117073717;chr11:117071059-117073717;chr11:117070149-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 140;23 N alternative_acceptor CUFF.1043 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 35;13 N coord_cassette CUFF.976 chr11 - chr11:8486370-8615629 chr11:8486370-8494709;chr11:8494824-8496227;chr11:8496364-8502080;chr11:8502162-8615629 chr11:8494710-8494823;chr11:8496228-8496363;chr11:8502081-8502161 3;66 K intron_retention CUFF.994 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 44;11 N alternative_acceptor CUFF.1035 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 485;11 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 chr11:6632895-6633294 chr11:6633294-6633295 15;43 N jcn_only_AD CUFF.989 chr11 + chr11:61594904-61605249;chr11:61584169-61605249;chr11:61596070-61605249 chr11:61583899-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 68;4 K intron_retention CUFF.1020 chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 51;32 K alternative_first_exon CUFF.958 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785222 chr11:1783363-1783709 33;27 K alternative_acceptor CUFF.971 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 3;18 K intron_retention CUFF.979 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 7;23 K intron_retention CUFF.953 chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 229;25 N intron_retention chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 27;11 N cassette CUFF.1032 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 5;102 N alternative_donor CUFF.960 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 62;20 K alternative_acceptor CUFF.989 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 53;265 N jcn_only_AA CUFF.1038 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 104;24 K alternative_acceptor CUFF.1020 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 26;29 N alternative_acceptor CUFF.959 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 194;15 N alternative_first_exon CUFF.983 chr11 + chr11:36415562-36422546,chr11:36420378-36422546,chr11:36399275-36422546;chr11:36371616-36422546;chr11:36398255-36422546 chr11:36317989-36422546 chr11:36371388-36371615;chr11:36397886-36398254 chr11:36317744-36317988 249;330 N mutually_exclusive CUFF.953 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 27;33 N alternative_donor CUFF.1020,CUFF.979 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 46;35 K alternative_acceptor CUFF.998 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 185;16 N jcn_only_AA CUFF.1035 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 48;474 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 126;18 K intron_retention CUFF.953 chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 163;51 N cassette CUFF.972 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 189;278 K intron_retention CUFF.964 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 7;15 K alternative_acceptor CUFF.958 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 51;128 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 303;166 K intron_retention chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 345;10 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 16;302 K intron_retention CUFF.989 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 65;12 N alternative_donor chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;6 K intron_retention CUFF.1026 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 215;124 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 60;20 N cassette CUFF.998 chr11 + chr11:63656437-63662630 chr11:63656437-63657693;chr11:63657768-63662630 chr11:63657694-63657767 4;38 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 31;3 N jcn_only_AA CUFF.983 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 148;39 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;74 K intron_retention CUFF.955 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 chr11:829360-829540 12;29 K jcn_only_AA CUFF.1009,CUFF.1025 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 10;188 N alternative_first_exon CUFF.989 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560452-61560500 chr11:61583836-61583898 46;10 N jcn_only_AD CUFF.989 chr11 + chr11:61594904-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61584169-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 44;29 N alternative_acceptor CUFF.1020 chr11 - chr11:102937297-102953476 chr11:102950727-102953476 chr11:102937297-102950726 chr11:102937296-102937297 124;0 K alternative_donor CUFF.987 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 15;13 K jcn_only_AD CUFF.1020 chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 114;37 N jcn_only_AD CUFF.994 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 40;119 N jcn_only_AD chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 34;77 K jcn_only_AA CUFF.983 chr11 + chr11:36317989-36422546 chr11:36317989-36318920 253;62 N jcn_only_AA CUFF.1002,CUFF.1007 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 33;18 N jcn_only_AD CUFF.989 chr11 + chr11:61584169-61605249;chr11:61583899-61605249;chr11:61596070-61605249 chr11:61594904-61605249 chr11:61583899-61584168;chr11:61584169-61594903;chr11:61594904-61596069 chr11:61583898-61583899;chr11:61584168-61584169;chr11:61594903-61594904 61;11 K jcn_only_AA CUFF.1022 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 13;23 N jcn_only_AA CUFF.1010 chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 54;168 N jcn_only_AA CUFF.953 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 69;190 N alternative_first_exon chr11 - chr11:2187999-2188664 chr11:2187999-2188116 chr11:2188665-2188715 chr11:2188117-2188558 10;193 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 9;37 K intron_retention CUFF.953 chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 369;68 N alternative_donor CUFF.1032 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 7;19 N jcn_only_AD CUFF.964 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 7;7 K intron_retention CUFF.955 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 chr11:830866-831032;chr11:831224-831295 97;42 N alternative_donor chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 20;46 N jcn_only_AA chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 63;1313 N jcn_only_AD CUFF.1020,CUFF.979 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 47;40 N alternative_acceptor chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 32;10 K alternative_donor CUFF.1020,CUFF.958 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 86;54 N cassette CUFF.1037 chr11 - chr11:119230945-119252182 chr11:119230945-119243416;chr11:119244232-119252182 chr11:119243417-119244231 4;32 N jcn_only_AA CUFF.983 chr11 + chr11:36398255-36400930;chr11:36398255-36422546 chr11:36398255-36415395 282;99 K jcn_only_AD CUFF.1020 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 100;51 K jcn_only_AA CUFF.1012 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 39;16 N alternative_donor chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 56;8 N jcn_only_AD CUFF.979 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 56;32 N jcn_only_AA chr11 + chr11:36398255-36415395;chr11:36398255-36422546 chr11:36398255-36400930 140;241 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 11;38 N mutually_exclusive CUFF.979 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 7;65 N jcn_only_AA chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 32;27 N jcn_only_AD CUFF.1022 chr11 - chr11:104915386-104916017;chr11:104915386-104915917 chr11:104915386-104972134 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 23;18 N intron_retention chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 32;35 N alternative_first_exon chr11 - chr11:6622006-6624633 chr11:6622006-6622155 chr11:6624634-6624884 chr11:6622156-6622833 10;80 N jcn_only_AD CUFF.983 chr11 + chr11:36459027-36472758 chr11:36467991-36472758 chr11:36459027-36467990 chr11:36459026-36459027 28;27 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 23;104 K intron_retention CUFF.1035 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 114;13 N intron_retention chr11 - chr11:10830056-10830251 chr11:10830055-10830056;chr11:10830251-10830252 10;32 K intron_retention CUFF.1038 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 29;64 N alternative_donor CUFF.983 chr11 + chr11:36459027-36472758 chr11:36467991-36472758 chr11:36459027-36467990 chr11:36459026-36459027 28;1 N intron_retention CUFF.979 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 40;22 N alternative_acceptor CUFF.1038 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 85;24 K intron_retention CUFF.955 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 chr11:830250-830337;chr11:830621-830713 101;40 N intron_retention chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 15;4 N alternative_donor CUFF.979 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 74;7 K alternative_acceptor CUFF.962 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 488;198 N cassette CUFF.953 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 23;231 K intron_retention CUFF.1020 chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 37;83 N cassette CUFF.979 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 232;245 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 4;15 N jcn_only_AA chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 87;32 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;40 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 7;6 N jcn_only_AD chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 117;27 K alternative_first_exon CUFF.1038 chr11 - chr11:119291640-119295607;chr11:119291640-119293822 chr11:119291640-119292320 chr11:119293823-119294838 chr11:119292321-119292700 59;21 N alternative_donor CUFF.1022 chr11 - chr11:104915386-104916017;chr11:104915386-104915917 chr11:104915386-104972134 chr11:104915918-104916017;chr11:104916018-104972134 chr11:104916017-104916018;chr11:104972134-104972135 0;18 K alternative_donor CUFF.1020 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 91;49 K jcn_only_AD CUFF.987 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 15;22 N jcn_only_AA CUFF.977 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 15;179 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 16;7 K alternative_acceptor CUFF.979 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 37;59 K intron_retention CUFF.972 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 53;14 N alternative_donor CUFF.949 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 11;2 N intron_retention chr10 + chr10:124134364-124152696 chr10:124134363-124134364;chr10:124152696-124152697 2;7 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35464634-35467816 chr10:35456732-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 527;48 N jcn_only_AA CUFF.914 chr10 - chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 245;67 K coord_cassette CUFF.949 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 102;74 N jcn_only_AA CUFF.910 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 39;12 K intron_retention CUFF.916 chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 37;33 N jcn_only_AD CUFF.910 chr10 + chr10:70661228-70666466 chr10:70666094-70666466 chr10:70661228-70666093 chr10:70661227-70661228 26;10 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816 chr10:35464634-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 114;0 K mutually_exclusive CUFF.932 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 23;14 K cassette CUFF.914 chr10 - chr10:73956748-73963184 chr10:73956748-73958206;chr10:73958424-73963184 chr10:73958207-73958423 310;160 N alternative_acceptor CUFF.905 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 226;2 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35426808-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 565;10 N alternative_donor CUFF.892 chr10 - chr10:35360268-35379106;chr10:35360268-35378823;chr10:35360268-35363119 chr10:35360268-35379357 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 9;13 N jcn_only_AD CUFF.919 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 256;2 N jcn_only_AA CUFF.914 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73975613-73975964 chr10:73973110-73975964 261;51 N alternative_donor CUFF.949 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 11;2 N alternative_acceptor CUFF.919 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 1;377 K alternative_last_exon CUFF.952 chr10 - chr10:135060555-135061294 chr10:135061206-135061294 chr10:135059982-135060554 chr10:135061013-135061205 6;97 N jcn_only_AA CUFF.914 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 245;67 N jcn_only_AA CUFF.894,CUFF.929 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 256;5 N alternative_acceptor CUFF.923 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 109;86 K cassette CUFF.882 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 49;83 N jcn_only_AA CUFF.919 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 328;8 N jcn_only_AA chr10 + chr10:35468205-35490378;chr10:35468205-35477127 chr10:35468205-35495822 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 502;189 N jcn_only_AA chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 252;439 N jcn_only_AD CUFF.892 chr10 - chr10:35360268-35379106;chr10:35360268-35378823;chr10:35360268-35363119 chr10:35360268-35379357 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 80;13 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378 chr10:35468205-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 127;62 N alternative_donor chr10 - chr10:73857209-73862091;chr10:73857209-73862607 chr10:73857209-73887839 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 0;197 N alternative_donor chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378 chr10:35468205-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 22;62 N alternative_acceptor CUFF.919 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 84;0 K alternative_first_exon CUFF.901 chr10 - chr10:46113709-46116227;chr10:46113709-46120030 chr10:46113709-46143741 chr10:46116228-46116446;chr10:46120031-46120085 chr10:46143742-46143982 158;21 N jcn_only_AD CUFF.949 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 18;36 K coord_cassette CUFF.876 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 3;308 N jcn_only_AD CUFF.914 chr10 - chr10:73857209-73887839;chr10:73857209-73862091 chr10:73857209-73862607 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 206;21 N jcn_only_AD chr10 + chr10:35426808-35437295;chr10:35416122-35437295 chr10:35416496-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 506;68 N alternative_acceptor CUFF.914 chr10 - chr10:73857209-73887839;chr10:73862726-73887839 chr10:73862171-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 198;0 N alternative_donor chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 36;3 N jcn_only_AA CUFF.923 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 4;30 K cassette CUFF.928 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 65;60 N jcn_only_AA chr10 + chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35467816 122;8 N coord_cassette CUFF.914 chr10 - chr10:73956748-73972944 chr10:73956748-73958206;chr10:73958424-73963184;chr10:73963283-73970489;chr10:73970590-73972944 chr10:73958207-73958423;chr10:73963185-73963282;chr10:73970490-73970589 18;198 K alternative_donor CUFF.928 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 5;49 N jcn_only_AA CUFF.908 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 709;27 N alternative_acceptor chr10 + chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35467816 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 96;6 N alternative_donor CUFF.952 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 7;18 N alternative_acceptor CUFF.908 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 709;2 N jcn_only_AA CUFF.892 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 4;94 N cassette CUFF.887 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 122;63 N jcn_only_AD chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 140;72 N jcn_only_AA CUFF.919 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 138;109 N alternative_acceptor CUFF.910 chr10 + chr10:70661228-70666466;chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 27;1 N jcn_only_AA CUFF.874 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 28;9 N alternative_donor CUFF.901 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 21;0 N cassette CUFF.887 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 43;115 N alternative_acceptor CUFF.919 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 256;0 N alternative_acceptor CUFF.919 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 378;0 K alternative_first_exon CUFF.949 chr10 + chr10:124134364-124152696;chr10:124134323-124152696 chr10:124151889-124152696 chr10:124134123-124134322 chr10:124151819-124151888 104;41 N jcn_only_AD chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687359-123687861 chr10:123687861-123687862 56;582 K coord_cassette CUFF.910 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 89;33 N alternative_donor CUFF.919 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 256;0 N jcn_only_AD CUFF.892 chr10 - chr10:35360268-35378823;chr10:35360268-35379357;chr10:35360268-35363119 chr10:35360268-35379106 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 89;3 K coord_cassette CUFF.874 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5122937;chr10:5123094-5138601 chr10:5120062-5120169;chr10:5122938-5123093 12;13 K cassette CUFF.876 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 389;57 K cassette CUFF.874 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5138601 chr10:5120062-5120169 12;25 K alternative_first_exon CUFF.899 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274364 chr10:44274030-44274074 14;18 K cassette CUFF.923 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 41;43 K cassette CUFF.905 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 79;138 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35437420-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 340;235 K alternative_first_exon CUFF.876 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186814-6186976 chr10:6244757-6245299 26;351 K alternative_acceptor CUFF.894 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 381;629 N cassette CUFF.887 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 35;116 N jcn_only_AA chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35437295 chr10:35416122-35495822 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 481;71 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35442988 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 101;1 K intron_retention CUFF.949 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 111;4 K intron_retention CUFF.946 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 2;15 N jcn_only_AD chr10 + chr10:35464634-35477127 chr10:35468205-35477127 9;439 N jcn_only_AA CUFF.914 chr10 - chr10:73975868-73975964;chr10:73973090-73975964;chr10:73973036-73975964;chr10:73973110-73975964 chr10:73975613-73975964 223;89 N alternative_donor CUFF.887 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 131;0 N jcn_only_AA CUFF.887 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 131;32 N jcn_only_AA CUFF.873 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 4;27 N jcn_only_AA chr10 + chr10:6270182-6273225;chr10:6270182-6271071 chr10:6270182-6274857 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 40;159 N alternative_donor CUFF.919 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 64;119 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35426808-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 114;0 N jcn_only_AD chr10 + chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35464928-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 407;168 N alternative_acceptor CUFF.892 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 4;42 N alternative_acceptor CUFF.892 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 106;13 K cassette CUFF.873 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 5;37 N mutually_exclusive CUFF.948 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 285;22 N jcn_only_AA CUFF.901 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 59;17 N jcn_only_AA CUFF.881 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 169;27 K intron_retention CUFF.891 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 40;10 N alternative_acceptor CUFF.919 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 84;0 N jcn_only_AA CUFF.919 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 256;2 N jcn_only_AA CUFF.919 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 305;6 N jcn_only_AD CUFF.873 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 38;4 N jcn_only_AD CUFF.901 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 46;15 N cassette CUFF.948 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 23;198 N alternative_donor CUFF.873 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 36;0 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 8;45 N cassette CUFF.901 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 12;48 N cassette CUFF.948 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 13;258 N alternative_acceptor CUFF.894,CUFF.929 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 256;0 N cassette CUFF.876 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 3;216 N jcn_only_AD chr10 + chr10:35426808-35437295;chr10:35416496-35437295 chr10:35416122-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 339;234 N alternative_acceptor CUFF.894 chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35495822 chr10:35416122-35437295 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 76;4 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35416122-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 7;107 K alternative_first_exon CUFF.901 chr10 - chr10:46113709-46116227;chr10:46113709-46143741 chr10:46113709-46120030 chr10:46116228-46116446;chr10:46143742-46143982 chr10:46120031-46120085 150;29 K alternative_first_exon CUFF.897 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572444-43572779 chr10:43606655-43606913 37;10 N jcn_only_AD chr10 + chr10:35416496-35437295;chr10:35416122-35437295 chr10:35426808-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 302;272 N alternative_acceptor CUFF.873 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 4;8 N alternative_acceptor CUFF.919 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 101;10 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061 chr10:35464634-35467799 48;82 N coord_cassette CUFF.874 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 6;56 N alternative_donor chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35468205-35490378 chr10:35477317-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 73;11 N cassette CUFF.881 chr10 - chr10:17636383-17645558 chr10:17636383-17641288;chr10:17641411-17645558 chr10:17641289-17641410 16;127 K coord_cassette CUFF.933 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 14;10 K cassette CUFF.949 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 31;63 N alternative_donor CUFF.914 chr10 - chr10:73857209-73887839;chr10:73857209-73862607 chr10:73857209-73862091 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 197;0 K alternative_first_exon CUFF.901 chr10 - chr10:46113709-46143741;chr10:46113709-46120030 chr10:46113709-46116227 chr10:46143742-46143982;chr10:46120031-46120085 chr10:46116228-46116446 50;129 K intron_retention CUFF.916 chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 17;45 N alternative_acceptor CUFF.910 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 39;8 N jcn_only_AA chr10 + chr10:35456732-35467816 chr10:35456732-35460120 48;28 N alternative_acceptor chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 17;1 K cassette CUFF.876 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 2;353 N jcn_only_AA CUFF.919 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 184;64 N jcn_only_AD CUFF.919 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 305;2 N alternative_donor chr10 + chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35464928-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 111;3 N alternative_acceptor CUFF.919 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 305;0 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35467799 chr10:35437420-35495822 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 597;88 K cassette CUFF.933 chr10 + chr10:106976881-106982873 chr10:106976881-106977601;chr10:106977724-106982873 chr10:106977602-106977723 3;14 K jcn_only_AA CUFF.876 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 322;2 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35467915-35468061 chr10:35460243-35468061 892;20 N alternative_acceptor CUFF.874 chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 28;0 N jcn_only_AD CUFF.901,CUFF.916 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 59;4 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35464780 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 546;139 N jcn_only_AA CUFF.923 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 40;7 N cassette CUFF.948 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 33;648 K alternative_last_exon CUFF.917 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476867-75476950 chr10:75477773-75477923 9;21 N jcn_only_AD chr10 + chr10:35460243-35468061;chr10:35467915-35468061 chr10:35464634-35468061 900;12 K alternative_first_exon CUFF.951 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548546 chr10:127542530-127543428 30;45 N intron_retention chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 13;9 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816 chr10:35464634-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 567;8 N alternative_donor chr10 + chr10:35426808-35437295;chr10:35416122-35437295 chr10:35416496-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 242;23 N mutually_exclusive CUFF.887 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 62;4 N jcn_only_AA CUFF.892 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 106;36 K jcn_only_AD CUFF.884 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;2 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 74;30 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822 chr10:35437420-35467799 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 532;153 N jcn_only_AD CUFF.901 chr10 - chr10:35360268-35379106;chr10:35360268-35378823;chr10:35360268-35379357 chr10:35360268-35363119 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 37;56 N jcn_only_AA CUFF.876 chr10 + chr10:6270182-6274857;chr10:6270182-6271071 chr10:6270182-6273225 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 174;24 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 51;19 N alternative_acceptor CUFF.914 chr10 - chr10:73857209-73887839;chr10:73862171-73887839 chr10:73862726-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 197;1 K alternative_first_exon CUFF.901 chr10 - chr10:46159291-46167719;chr10:46159291-46168126 chr10:46159291-46167697 chr10:46168127-46168322 chr10:46167698-46167796 27;29 K alternative_first_exon CUFF.926 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833592-94833880 28;40 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 74;30 N alternative_acceptor chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35437295 chr10:35416122-35495822 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 9;71 K cassette CUFF.930 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 124;14 N jcn_only_AA CUFF.919 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 149;26 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 139;17 N cassette CUFF.887 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 43;113 N cassette CUFF.948 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 128;59 K cassette CUFF.887 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 39;77 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35477127 121;9 N jcn_only_AA chr10 + chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35467816 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 450;235 N alternative_donor CUFF.892 chr10 - chr10:35360268-35379106;chr10:35360268-35379357;chr10:35360268-35363119 chr10:35360268-35378823 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 16;6 N alternative_acceptor chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 191;13 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35467799 chr10:35464634-35468061 118;12 N jcn_only_AA chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 21;9 N jcn_only_AD CUFF.919,CUFF.951 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 369;15 K jcn_only_AD CUFF.928 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 5;91 K intron_retention CUFF.946 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 63;11 N jcn_only_AA CUFF.914 chr10 - chr10:73862171-73887839;chr10:73862726-73887839 chr10:73857209-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 44;197 N alternative_acceptor CUFF.914 chr10 - chr10:73862171-73887839;chr10:73862726-73887839 chr10:73857209-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 1;197 N alternative_acceptor chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73857209-73862170 chr10:73857208-73857209 21;0 N cassette CUFF.948 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 128;455 N alternative_acceptor CUFF.887 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 131;0 K alternative_first_exon CUFF.883,CUFF.918 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290391 chr10:76289051-76289173 26;59 K jcn_only_AA CUFF.882 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 125;35 N alternative_acceptor CUFF.876 chr10 + chr10:6270182-6273225;chr10:6270182-6274857 chr10:6270182-6271071 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 161;1 K mutually_exclusive CUFF.948 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 438;59 N jcn_only_AD CUFF.919 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 64;74 N jcn_only_AA chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 17;37 N alternative_acceptor chr10 + chr10:35468205-35495822;chr10:35468205-35477127 chr10:35468205-35490378 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 202;2 N alternative_acceptor CUFF.919 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0;84 K jcn_only_AD CUFF.949 chr10 + chr10:124187833-124189139 chr10:124187937-124189139 chr10:124187833-124187936 chr10:124187832-124187833 30;60 N alternative_acceptor CUFF.910 chr10 + chr10:70661228-70666466;chr10:70661228-70665981 chr10:70661228-70666039 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 27;1 N cassette CUFF.914 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 10;123 N jcn_only_AA chr10 + chr10:35426808-35467816 chr10:35426808-35437295 10;272 N coord_cassette CUFF.876 chr10 + chr10:6266177-6274857 chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857 chr10:6267124-6267211;chr10:6268155-6268328 29;58 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 153;82 K jcn_only_AA CUFF.876,CUFF.929 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 5;148 N alternative_acceptor CUFF.894 chr10 + chr10:35416122-35467816;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35426709 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 78;2 N jcn_only_AA CUFF.919 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 411;14 K cassette CUFF.908 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 72;790 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35441207 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 653;32 N alternative_acceptor CUFF.894 chr10 + chr10:35416122-35426709;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35467816 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 77;3 N alternative_acceptor CUFF.919 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 328;0 N jcn_only_AA chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 234;63 N jcn_only_AA CUFF.894 chr10 + chr10:35416122-35467816;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35426709 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 412;140 N alternative_donor CUFF.914 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 148;3 N jcn_only_AD chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 36;31 N cassette CUFF.876 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 11;295 N alternative_donor CUFF.901,CUFF.916 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 59;23 N jcn_only_AD CUFF.949 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 45;9 N alternative_first_exon CUFF.914 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73976579-73976987;chr10:73975965-73976159 chr10:73975540-73975694 150;130 N jcn_only_AD CUFF.908,CUFF.914 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 709;32 K cassette CUFF.892 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 47;42 K alternative_first_exon CUFF.889 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 152;20 K alternative_donor CUFF.884 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 3;2 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35484143-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 167;22 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 8;2 N alternative_donor CUFF.923,CUFF.948 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 31;0 N alternative_donor chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 140;50 N jcn_only_AA CUFF.919 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 91;84 N alternative_donor chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 7;0 N jcn_only_AA CUFF.910 chr10 + chr10:70661228-70666466;chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 30;5 N alternative_donor chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485028-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 83;1 N jcn_only_AA chr10 + chr10:70661228-70665981;chr10:70661228-70666039 chr10:70661228-70666466 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 10;26 N jcn_only_AA chr10 + chr10:35416496-35437295 chr10:35416496-35426709 68;72 K jcn_only_AD CUFF.873 chr10 - chr10:410523-412214 chr10:410523-410754 4;8 K alternative_first_exon CUFF.894 chr10 + chr10:35490415-35495822,chr10:35468205-35495822,chr10:35485071-35495822,chr10:35485468-35495822,chr10:35437420-35495822,chr10:35477317-35495822,chr10:35484143-35495822;chr10:35416122-35495822 chr10:35485028-35495822 chr10:35415719-35416121 chr10:35484763-35485027 841;292 N alternative_donor CUFF.905 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 226;2 N cassette CUFF.910 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 89;23 K alternative_donor CUFF.933 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 36;1 N jcn_only_AA CUFF.919 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 48;377 N alternative_donor chr10 + chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485071-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 76;8 N alternative_acceptor chr10 + chr10:6270182-6273225;chr10:6270182-6271071 chr10:6270182-6274857 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 3;159 N alternative_acceptor chr10 + chr10:35468205-35490378;chr10:35468205-35477127 chr10:35468205-35495822 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 15;189 N alternative_donor chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687359-123687861 chr10:123687861-123687862 56;162 K alternative_last_exon CUFF.901 chr10 - chr10:46135870-46143741;chr10:46113709-46143741 chr10:46135412-46143741 chr10:46113205-46113708 chr10:46135264-46135411 46;17 K cassette CUFF.949 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187833-124189139 chr10:124187792-124187832 31;53 N alternative_acceptor CUFF.873 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:356033-370959 chr10:356032-356033 19;3 K alternative_donor CUFF.916,CUFF.918 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 17;42 K cassette CUFF.928 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 101;23 N alternative_acceptor CUFF.948 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 670;1 N jcn_only_AA CUFF.914 chr10 - chr10:73975868-73975964;chr10:73973036-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 273;38 N jcn_only_AD CUFF.952 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 7;19 K alternative_first_exon CUFF.930 chr10 + chr10:101482868-101496002 chr10:101492167-101496002,chr10:101492318-101496002 chr10:101482675-101482867 chr10:101491948-101492166 12;109 N alternative_donor CUFF.901 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 46;2 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35464780 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 99;3 N cassette CUFF.923 chr10 - chr10:80825577-80827144 chr10:80825577-80826204;chr10:80826344-80827144 chr10:80826205-80826343 7;31 N alternative_donor chr10 + chr10:35426808-35437295;chr10:35416496-35437295 chr10:35416122-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 31;234 K cassette CUFF.918 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 88;22 N coord_cassette CUFF.887 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 35;84 N alternative_donor chr10 + chr10:35485071-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35484143-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 82;2 N alternative_acceptor CUFF.919 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 377;1 K alternative_acceptor CUFF.882 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 125;17 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 74;15 N alternative_acceptor CUFF.919 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 74;37 K alternative_first_exon CUFF.883 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834659 chr10:18833253-18833361 14;14 K jcn_only_AD CUFF.933 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 13;4 N jcn_only_AD CUFF.887 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 131;28 N alternative_first_exon CUFF.914 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975539 chr10:73973090-73975964 chr10:73976579-73976987;chr10:73975540-73975694 chr10:73975965-73976159 253;27 N mutually_exclusive CUFF.887 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 57;4 K intron_retention CUFF.905 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 129;82 N cassette CUFF.876 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 29;300 N mutually_exclusive CUFF.948 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 131;29 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35441207 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 101;1 N jcn_only_AA CUFF.905 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 226;22 K alternative_donor CUFF.930 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 86;18 N jcn_only_AA CUFF.919 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 110;65 K coord_cassette CUFF.887 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 38;55 K jcn_only_AD CUFF.916,CUFF.918 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 17;37 K alternative_acceptor CUFF.876 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 322;2 N alternative_donor CUFF.908,CUFF.914 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 709;1 N jcn_only_AD CUFF.873 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 36;5 N jcn_only_AA chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 36;22 N alternative_donor CUFF.919,CUFF.951 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 369;5 K alternative_last_exon CUFF.876 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277508 chr10:6270159-6270259 43;203 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822 chr10:35437420-35467799 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 99;3 N jcn_only_AD CUFF.923,CUFF.948 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 31;11 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 139;19 K intron_retention CUFF.923 chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 41;38 N jcn_only_AA CUFF.948 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123503374-123542214 chr10:123503373-123503374 670;105 K cassette CUFF.874 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 40;20 N alternative_acceptor CUFF.881 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 169;0 N jcn_only_AD CUFF.914 chr10 - chr10:73857209-73887839;chr10:73857209-73862607 chr10:73857209-73862091 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 218;9 N jcn_only_AD chr10 + chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485071-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 152;37 N jcn_only_AA CUFF.894 chr10 + chr10:35416122-35426709;chr10:35416122-35495822;chr10:35416122-35437295 chr10:35416122-35467816 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 445;107 N alternative_donor CUFF.914 chr10 - chr10:73857209-73887839;chr10:73857209-73862091 chr10:73857209-73862607 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 197;0 K alternative_acceptor CUFF.876,CUFF.929 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 5;73 N alternative_acceptor CUFF.923 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 40;0 K alternative_donor CUFF.949 chr10 + chr10:124187833-124189139 chr10:124187937-124189139 chr10:124187833-124187936 chr10:124187832-124187833 30;33 N jcn_only_AD CUFF.873,CUFF.914 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 346;39 N alternative_acceptor chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 234;2 N jcn_only_AA CUFF.919 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 173;74 N jcn_only_AA CUFF.876 chr10 + chr10:6270182-6273225;chr10:6270182-6274857 chr10:6270182-6271071 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 182;16 N alternative_acceptor CUFF.951 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 20;7 N alternative_acceptor CUFF.919 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 313;23 N alternative_acceptor chr10 + chr10:35437420-35467816;chr10:35437420-35442988;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35467799 chr10:35437420-35495822 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 14;88 N jcn_only_AD CUFF.892 chr10 - chr10:35360268-35379106;chr10:35360268-35379357;chr10:35360268-35363119 chr10:35360268-35378823 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 72;21 N alternative_acceptor CUFF.876 chr10 + chr10:6270182-6274857;chr10:6270182-6271071 chr10:6270182-6273225 chr10:6271072-6273225;chr10:6273226-6274857 chr10:6273225-6273226;chr10:6274857-6274858 160;2 N jcn_only_AD CUFF.901 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 21;10 K coord_cassette CUFF.887 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 38;52 N alternative_donor CUFF.892 chr10 - chr10:35360268-35378823;chr10:35360268-35379357;chr10:35360268-35363119 chr10:35360268-35379106 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 21;1 N jcn_only_AA chr10 + chr10:35437420-35467816;chr10:35437420-35441207;chr10:35437420-35464780;chr10:35437420-35495822;chr10:35437420-35467799 chr10:35437420-35442988 chr10:35441208-35442988;chr10:35442989-35464780;chr10:35464781-35467799;chr10:35467800-35467816;chr10:35467817-35495822 chr10:35442988-35442989;chr10:35464780-35464781;chr10:35467799-35467800;chr10:35467816-35467817;chr10:35495822-35495823 648;37 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485028-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 184;5 K cassette CUFF.882 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 49;118 N alternative_donor CUFF.910 chr10 + chr10:70661228-70666466 chr10:70666094-70666466 chr10:70661228-70666093 chr10:70661227-70661228 26;0 N jcn_only_AA CUFF.914 chr10 - chr10:73857209-73887839;chr10:73862726-73887839 chr10:73862171-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 233;7 N alternative_acceptor CUFF.919 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 47;64 N jcn_only_AD CUFF.914 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 148;6 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 74;116 N alternative_acceptor chr10 + chr10:70661228-70665981;chr10:70661228-70666039 chr10:70661228-70666466 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 2;26 N alternative_donor CUFF.901 chr10 - chr10:35360268-35379106;chr10:35360268-35378823;chr10:35360268-35379357 chr10:35360268-35363119 chr10:35363120-35378823;chr10:35378824-35379106;chr10:35379107-35379357 chr10:35378823-35378824;chr10:35379106-35379107;chr10:35379357-35379358 20;2 N alternative_donor chr10 + chr10:35416496-35437295;chr10:35416122-35437295 chr10:35426808-35437295 chr10:35416122-35416495;chr10:35416496-35426807 chr10:35416121-35416122;chr10:35416495-35416496 257;8 N cassette CUFF.910 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 12;39 N alternative_acceptor CUFF.901 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 59;18 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 235;26 N intron_retention chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 67;24 N jcn_only_AA CUFF.894 chr10 + chr10:35416122-35467816;chr10:35416122-35426709;chr10:35416122-35495822 chr10:35416122-35437295 chr10:35426710-35437295;chr10:35437296-35467816;chr10:35467817-35495822 chr10:35437295-35437296;chr10:35467816-35467817;chr10:35495822-35495823 318;234 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35437420-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 110;4 K cassette CUFF.882 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 15;66 N alternative_first_exon CUFF.914 chr10 - chr10:73973090-73975534;chr10:73973090-73975539;chr10:73973090-73975964 chr10:73973090-73976578 chr10:73975540-73975694;chr10:73975965-73976159 chr10:73976579-73976987 179;101 N coord_cassette CUFF.948 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 13;280 N alternative_donor CUFF.873,CUFF.914 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 346;5 N jcn_only_AD chr10 - chr10:73857209-73862091;chr10:73857209-73862607 chr10:73857209-73887839 chr10:73862092-73862607;chr10:73862608-73887839 chr10:73862607-73862608;chr10:73887839-73887840 30;197 N jcn_only_AD chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35456732-35467816;chr10:35464634-35467816 chr10:35416122-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 468;107 N alternative_donor CUFF.949 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 4;9 K intron_retention CUFF.914 chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 89;63 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35460243-35468061 chr10:35467915-35468061 32;880 N jcn_only_AA CUFF.919 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 313;24 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35464780 112;19 N jcn_only_AA CUFF.910 chr10 + chr10:70661228-70666466;chr10:70661228-70665981 chr10:70661228-70666039 chr10:70665982-70666039;chr10:70666040-70666466 chr10:70666039-70666040;chr10:70666466-70666467 30;5 N alternative_donor chr10 + chr10:35464928-35467816;chr10:35437420-35467816;chr10:35426808-35467816;chr10:35416122-35467816;chr10:35464634-35467816 chr10:35456732-35467816 chr10:35416122-35426807;chr10:35426808-35437419;chr10:35437420-35456731;chr10:35456732-35464633;chr10:35464634-35464927 chr10:35416121-35416122;chr10:35426807-35426808;chr10:35437419-35437420;chr10:35456731-35456732;chr10:35464633-35464634 114;0 N jcn_only_AA CUFF.919 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 391;34 N jcn_only_AD chr10 - chr10:73862171-73887839 chr10:73862171-73862607 chr10:73862608-73887839 chr10:73887839-73887840 7;9 N jcn_only_AA chr10 + chr10:35468205-35495822;chr10:35468205-35477127 chr10:35468205-35490378 chr10:35477128-35490378;chr10:35490379-35495822 chr10:35490378-35490379;chr10:35495822-35495823 629;62 N alternative_donor CUFF.873 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 38;0 K intron_retention CUFF.914 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 67;128 K jcn_only_AA CUFF.894 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 381;611 N jcn_only_AD CUFF.949 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 44;10 K cassette CUFF.948 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 340;86 K cassette CUFF.917 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 27;18 N jcn_only_AA CUFF.914 chr10 - chr10:73857209-73887839;chr10:73862171-73887839 chr10:73862726-73887839 chr10:73857209-73862170;chr10:73862171-73862725 chr10:73857208-73857209;chr10:73862170-73862171 204;36 N intron_retention CUFF.914 chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 38;26 K jcn_only_AD CUFF.930 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 86;15 N jcn_only_AA CUFF.951 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 20;5 N jcn_only_AA CUFF.873 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:356033-370959 chr10:356032-356033 19;64 K cassette CUFF.919 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 90;74 K cassette CUFF.946 chr10 - chr10:119774622-119798482 chr10:119774622-119793492;chr10:119793553-119798482 chr10:119793493-119793552 2;11 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35468205-35490378 chr10:35477317-35490378 chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070 chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028 126;63 N jcn_only_AD CUFF.905 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 226;18 N alternative_donor CUFF.919 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 305;0 K intron_retention CUFF.1451 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 37;95 N alternative_acceptor CUFF.1406 chr17 - chr17:15586266-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15584537-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 266;6 N jcn_only_AA CUFF.1394 chr17 - chr17:1616190-1616996;chr17:1615694-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 71;24 K jcn_only_AD CUFF.1439 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 34;95 N cassette CUFF.1474 chr17 + chr17:80416385-80417867 chr17:80416385-80417150;chr17:80417325-80417867 chr17:80417151-80417324 34;600 N jcn_only_AD CUFF.1461 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 55;683 N jcn_only_AA CUFF.1467 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 472;149 N jcn_only_AD CUFF.1400 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 53;129 N intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 12;48 N alternative_donor CUFF.1443 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 215;60 K alternative_acceptor CUFF.1471 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 299;52 K alternative_last_exon CUFF.1471 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993722-79993939 7;250 N alternative_acceptor CUFF.1448 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 53;1 K alternative_first_exon CUFF.1436 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46711030;chr17:46685591-46685781 chr17:46687881-46688379 193;73 K cassette CUFF.1464 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 73;72 N jcn_only_AA CUFF.1451 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 313;30 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 8;70 N jcn_only_AA CUFF.1400 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 129;6 N jcn_only_AD CUFF.1469 chr17 - chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479489 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 272;5 K jcn_only_AD CUFF.1394 chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 204;20 N intron_retention CUFF.1451 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 30;85 K intron_retention CUFF.1400 chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 32;11 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 17;77 N jcn_only_AD CUFF.1446 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 83;12 N jcn_only_AA CUFF.1449 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 23;3 N cassette CUFF.1415 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 35;76 N alternative_donor CUFF.1461 chr17 + chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66508721-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 55;18 N cassette CUFF.1431 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 13;79 N jcn_only_AD chr17 - chr17:15584268-15584364;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15586349 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 265;244 N jcn_only_AA CUFF.1461 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 386;10 N alternative_acceptor CUFF.1469 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 4;158 N jcn_only_AA CUFF.1439 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 134;7 K jcn_only_AD CUFF.1398 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 173;6 N cassette CUFF.1464 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 70;112 N alternative_acceptor CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15586266-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 251;21 N jcn_only_AD CUFF.1461 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 386;10 N intron_retention CUFF.1451 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 17;54 N alternative_donor CUFF.1461 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 55;360 N jcn_only_AA CUFF.1396 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 64;19 N jcn_only_AA CUFF.1467 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 31;17 K alternative_first_exon CUFF.1392 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655373-655566 chr17:654891-655329 78;145 N alternative_donor CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66509413-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 66;7 N cassette CUFF.1472 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 89;67 N jcn_only_AD CUFF.1449 chr17 - chr17:61843555-61850136;chr17:61843555-61850771 chr17:61843555-61851971 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 30;9 K intron_retention CUFF.1430 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 18;54 N alternative_donor CUFF.1434 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 3;5 N alternative_acceptor CUFF.1469 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 207;21 N alternative_acceptor CUFF.1467 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 31;133 K alternative_last_exon CUFF.1408 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396540 chr17:17388614-17388747 3;124 N alternative_acceptor CUFF.1394 chr17 - chr17:1615694-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 80;124 N jcn_only_AA CUFF.1406 chr17 - chr17:15586266-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15584537-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 523;21 N intron_retention chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 14;70 N alternative_acceptor CUFF.1471 chr17 - chr17:79994890-79995506;chr17:79995418-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 74;91 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 53;1 K cassette CUFF.1474 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 72;77 N cassette CUFF.1419 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 9;29 N jcn_only_AD chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 44;56 K intron_retention CUFF.1400 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 74;12 N jcn_only_AA CUFF.1451 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 7;198 N alternative_donor chr17 - chr17:15580595-15584178 chr17:15580595-15580888 chr17:15580889-15584178 chr17:15584178-15584179 44;9 K intron_retention CUFF.1439 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 34;23 N alternative_acceptor CUFF.1414 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 13;3 N mutually_exclusive CUFF.1468 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 46;19 N alternative_acceptor CUFF.1472 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 28;107 N intron_retention CUFF.1451 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 118;111 K intron_retention CUFF.1400 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 4;12 N alternative_acceptor CUFF.1394 chr17 - chr17:1616190-1617149;chr17:1616199-1617149 chr17:1615694-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 239;204 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 20;139 N alternative_donor CUFF.1431,CUFF.1449 chr17 - chr17:61843555-61851971;chr17:61843555-61850771 chr17:61843555-61850136 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 19;2 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 15;10 N intron_retention CUFF.1451 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 21;131 K intron_retention CUFF.1473 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 98;66 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 92;37 N alternative_acceptor CUFF.1406 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 283;253 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 5;26 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 84;52 N jcn_only_AD chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 177;51 N jcn_only_AD CUFF.1419 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 55;8 K intron_retention CUFF.1394 chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 20;46 N jcn_only_AA CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15584268-15586349;chr17:15586279-15586349 chr17:15586266-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 282;262 K intron_retention CUFF.1396 chr17 + chr17:1943900-1944396 chr17:1943899-1943900;chr17:1944396-1944397 84;22 K alternative_donor CUFF.1437 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 84;21 K alternative_last_exon CUFF.1474 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80438958-80439087 chr17:80437814-80437869 148;3 K intron_retention CUFF.1461 chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 130;20 K jcn_only_AD CUFF.1472 chr17 - chr17:79894738-79895103 chr17:79894738-79895068 chr17:79895069-79895103 chr17:79895103-79895104 9;16 N intron_retention CUFF.1461 chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 11;72 N intron_retention chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 47;96 N alternative_donor CUFF.1448 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 52;28 N jcn_only_AA CUFF.1469 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 207;57 N intron_retention chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 61;63 N jcn_only_AA chr17 - chr17:15580592-15580888 chr17:15580595-15580888 23;56 N jcn_only_AA CUFF.1404 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472345-15492541 chr17:15472344-15472345 153;92 N jcn_only_AD CUFF.1394 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 223;24 K intron_retention chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 51;57 K alternative_first_exon CUFF.1418 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421945-29422387 chr17:29455430-29455525 40;23 N jcn_only_AD CUFF.1400 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 134;47 K intron_retention CUFF.1396 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 132;40 N alternative_donor CUFF.1435 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 127;5 N jcn_only_AD CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66508637-66511534 chr17:66511294-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 154;130 N cassette CUFF.1461 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511294-66511534 chr17:66511128-66511293 346;67 K intron_retention CUFF.1461 chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 73;16 K cassette CUFF.1407 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 15;71 N alternative_first_exon CUFF.1439 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496811 10;70 N jcn_only_AD chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 15;23 N intron_retention chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 177;195 N jcn_only_AD CUFF.1471 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 297;44 N cassette CUFF.1419 chr17 + chr17:29592358-29652837 chr17:29592358-29626527;chr17:29626625-29652837 chr17:29626528-29626624 10;6 K intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 9;48 N alternative_first_exon CUFF.1451 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61907969-61908295 62;721 K intron_retention CUFF.1396 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 64;127 N intron_retention chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 49;47 K cassette CUFF.1402 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 25;65 N jcn_only_AA CUFF.1431 chr17 - chr17:40738156-40761103;chr17:40744181-40761103 chr17:40757310-40761103 145;38 N jcn_only_AD CUFF.1471 chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 58;283 K intron_retention CUFF.1396 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 70;22 N jcn_only_AD CUFF.1400 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 176;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 110;26 N cassette CUFF.1406 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 9;93 N coord_cassette CUFF.1415 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 22;97 N jcn_only_AD CUFF.1435 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 127;24 N cassette CUFF.1460 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 8;169 K intron_retention CUFF.1448 chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 40;72 N jcn_only_AD CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640 chr17:79479387-79479631 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 264;13 K intron_retention CUFF.1464 chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 41;57 N jcn_only_AD CUFF.1406 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 279;230 N alternative_donor CUFF.1448 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 57;23 N alternative_donor CUFF.1436 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 21;25 N jcn_only_AD CUFF.1443,CUFF.1471 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 486;52 N alternative_donor CUFF.1394,CUFF.1439 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47303018-47304008 chr17:47304008-47304009 66;1 N alternative_acceptor CUFF.1431 chr17 - chr17:40761746-40762554;chr17:40748646-40762554 chr17:40744181-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 5;27 N jcn_only_AA CUFF.1398 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 116;12 K intron_retention CUFF.1451 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 231;9 K intron_retention CUFF.1398 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 36;52 N jcn_only_AA CUFF.1431 chr17 - chr17:40738156-40761103;chr17:40757310-40761103 chr17:40744181-40761103 57;125 K intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 278;61 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 61;122 K coord_cassette CUFF.1400 chr17 + chr17:6352728-6353681 chr17:6352728-6353023;chr17:6353099-6353347;chr17:6353393-6353681 chr17:6353024-6353098;chr17:6353348-6353392 32;29 N jcn_only_AD CUFF.1467 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 700;18 N alternative_acceptor CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15584268-15586349 chr17:15586279-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 271;1 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 3;9 N cassette CUFF.1415 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 32;72 N alternative_acceptor CUFF.1451 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 193;50 N intron_retention CUFF.1394 chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 24;51 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 130;113 N jcn_only_AA CUFF.1461 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 522;12 N jcn_only_AD chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 28;299 N jcn_only_AD CUFF.1394,CUFF.1439 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47303018-47304008 chr17:47304008-47304009 66;7 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 37;273 K intron_retention CUFF.1467 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 688;6 N cassette CUFF.1429 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 5;3 K intron_retention CUFF.1396 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 209;50 N intron_retention chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 94;12 N alternative_donor CUFF.1419 chr17 + chr17:29576138-29584704 chr17:29580019-29584704 chr17:29576138-29580018 chr17:29576137-29576138 25;3 N cassette CUFF.1448 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 3;91 K intron_retention chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 113;22 K alternative_last_exon CUFF.1400 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353682-6354789 chr17:6353559-6353566 87;4 N jcn_only_AD CUFF.1396 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 160;7 N jcn_only_AD CUFF.1419 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 29;103 N jcn_only_AD CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479631 chr17:79479387-79479640 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 259;19 N jcn_only_AA CUFF.1451 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 321;21 K intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 16;52 K intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 48;45 K cassette CUFF.1418 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 13;32 K jcn_only_AD CUFF.1437 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 84;29 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 3;114 N jcn_only_AA chr17 - chr17:56081080-56082283 chr17:56081363-56082283 37;24 K intron_retention CUFF.1464 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 20;12 K intron_retention CUFF.1471 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 382;61 N alternative_acceptor CUFF.1451 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 209;34 N alternative_acceptor CUFF.1419 chr17 + chr17:29677337-29683477 chr17:29677337-29679274 chr17:29679275-29683477 chr17:29683477-29683478 31;3 N alternative_donor CUFF.1471 chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 32;283 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 60;109 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908588 chr17:61908169-61908295 50;420 N jcn_only_AA CUFF.1461 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 72;75 N jcn_only_AA CUFF.1406 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15562191-15584178 396;48 N jcn_only_AD CUFF.1460 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 213;21 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 19;383 N jcn_only_AD CUFF.1419 chr17 + chr17:29677337-29683477 chr17:29679433-29683477 chr17:29677337-29679432 chr17:29677336-29677337 31;56 N alternative_donor CUFF.1471 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 142;35 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 131;3 N jcn_only_AA CUFF.1431 chr17 - chr17:40761746-40762554;chr17:40748646-40762554 chr17:40744181-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 32;27 N jcn_only_AD CUFF.1443 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 359;20 K intron_retention CUFF.1432 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 6;32 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 7;245 N jcn_only_AA CUFF.1467 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 28;496 N alternative_acceptor chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 230;28 N alternative_donor CUFF.1406,CUFF.1431 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 51;0 K coord_cassette CUFF.1464 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 30;56 N jcn_only_AD chr17 - chr17:40748646-40762554 chr17:40748646-40757265 chr17:40757266-40762554 chr17:40762554-40762555 18;43 N alternative_donor CUFF.1467,CUFF.1469 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 207;14 K intron_retention CUFF.1472 chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 21;88 N alternative_donor CUFF.1472 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 22;1 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 160;43 N jcn_only_AA CUFF.1394 chr17 - chr17:1616190-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 75;20 N alternative_donor CUFF.1461 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 386;2 N alternative_acceptor CUFF.1474 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 59;183 N jcn_only_AA CUFF.1394 chr17 - chr17:1615694-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 44;51 K intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 49;17 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 229;113 N alternative_donor CUFF.1471 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 149;28 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 30;32 N alternative_acceptor CUFF.1394 chr17 - chr17:1615694-1617149;chr17:1616199-1617149 chr17:1616190-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 331;112 N alternative_donor CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79481572 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 20;0 K intron_retention CUFF.1431 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 71;14 N jcn_only_AA CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15584268-15586349 chr17:15586279-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 527;17 N cassette CUFF.1448 chr17 + chr17:61562734-61563917 chr17:61562734-61563719;chr17:61563733-61563917 chr17:61563720-61563732 118;59 N cassette CUFF.1474 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 81;717 N jcn_only_AA CUFF.1467 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 717;14 N jcn_only_AA CUFF.1404 chr17 - chr17:15498141-15499827;chr17:15498205-15499827 chr17:15492542-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 97;15 N jcn_only_AA CUFF.1474 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 59;160 N cassette CUFF.1419 chr17 + chr17:29687722-29701030 chr17:29687722-29694242;chr17:29694297-29701030 chr17:29694243-29694296 65;17 N cassette CUFF.1464 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 20;87 K intron_retention CUFF.1400 chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 47;65 N alternative_acceptor CUFF.1439 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 71;64 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 84;191 N jcn_only_AA CUFF.1429 chr17 - chr17:37599882-37604050 chr17:37601823-37604050 chr17:37599882-37601822 chr17:37599881-37599882 11;38 N jcn_only_AD CUFF.1443 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 319;60 N cassette CUFF.1472 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 44;109 K jcn_only_AA CUFF.1424 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 40;22 N jcn_only_AD CUFF.1434 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 3;7 N alternative_donor CUFF.1446 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 17;4 N intron_retention chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 13;35 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 4;63 N alternative_donor CUFF.1419 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 29;68 N jcn_only_AD CUFF.1446 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 64;31 N jcn_only_AA CUFF.1406 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15546131-15584178 chr17:15557746-15584178 370;74 N alternative_acceptor CUFF.1471 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 130;35 N jcn_only_AD CUFF.1474 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 687;40 K alternative_first_exon CUFF.1431 chr17 - chr17:40744181-40748550,chr17:40744181-40761515;chr17:40744181-40762554 chr17:40744181-40761103 chr17:40762555-40762731 chr17:40761104-40761480 68;126 K cassette CUFF.1437 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 68;70 N cassette CUFF.1419 chr17 + chr17:29706042-29708890 chr17:29706042-29706123;chr17:29706376-29708890 chr17:29706124-29706375 113;157 N alternative_donor CUFF.1464 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 79;1 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 27;210 N alternative_acceptor CUFF.1404 chr17 - chr17:15492542-15499827;chr17:15498205-15499827 chr17:15498141-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 22;0 N alternative_first_exon CUFF.1461 chr17 + chr17:66509112-66511127,chr17:66509120-66511127;chr17:66508690-66511127 chr17:66508284-66511127 chr17:66508986-66509111;chr17:66508465-66508689 chr17:66507921-66508283 66;13 N alternative_donor CUFF.1400 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 150;2 N cassette CUFF.1468 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 216;51 N alternative_acceptor CUFF.1451 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 228;15 K intron_retention CUFF.1406 chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 82;84 K jcn_only_AD CUFF.1451 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 37;278 N jcn_only_AD CUFF.1461 chr17 + chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66508721-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 254;30 K intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 294;31 N alternative_donor CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79490667 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 3;17 K intron_retention CUFF.1471 chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 22;82 K cassette CUFF.1392 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 32;119 K cassette CUFF.1437 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 68;52 N alternative_acceptor CUFF.1429 chr17 - chr17:37599882-37604050 chr17:37601823-37604050 chr17:37599882-37601822 chr17:37599881-37599882 11;5 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 149;34 K intron_retention CUFF.1435 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 13;145 N alternative_donor chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 28;173 N alternative_acceptor CUFF.1394 chr17 - chr17:1616190-1616996;chr17:1615694-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 144;60 N alternative_donor CUFF.1400 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 105;47 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 36;377 N jcn_only_AA CUFF.1406 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178 chr17:15546131-15584178 426;19 N jcn_only_AA CUFF.1394 chr17 - chr17:1615694-1617149;chr17:1616190-1617149 chr17:1616199-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 381;223 N jcn_only_AD CUFF.1406 chr17 - chr17:15584268-15586349;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 493;17 N alternative_donor CUFF.1443 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 251;24 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 31;170 K intron_retention CUFF.1437 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 84;19 N jcn_only_AD CUFF.1436 chr17 - chr17:15584537-15586349 chr17:15584537-15586167 chr17:15586168-15586349 chr17:15586349-15586350 21;65 N cassette CUFF.1448 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 20;179 N alternative_donor CUFF.1396 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 160;48 N jcn_only_AD CUFF.1461 chr17 + chr17:66509112-66511127 chr17:66509120-66511127 chr17:66509112-66509119 chr17:66509111-66509112 73;10 N alternative_donor CUFF.1446 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 16;5 N cassette CUFF.1394 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 136;520 N intron_retention chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 81;29 N alternative_first_exon CUFF.1461 chr17 + chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509112-66511127,chr17:66509120-66511127 chr17:66508465-66508689;chr17:66507921-66508283 chr17:66508986-66509111 17;62 N jcn_only_AD CUFF.1396 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 13;240 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 9;23 N jcn_only_AD CUFF.1448 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 51;81 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 24;17 N coord_cassette CUFF.1464 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 20;24 K intron_retention CUFF.1419 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 151;57 K coord_cassette CUFF.1464 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 35;28 N alternative_acceptor CUFF.1448,CUFF.1474 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 192;22 N alternative_acceptor CUFF.1404 chr17 - chr17:15498141-15499827;chr17:15498205-15499827 chr17:15492542-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 7;15 N alternative_donor CUFF.1396 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 13;141 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 143;47 K intron_retention CUFF.1464 chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 29;23 K alternative_first_exon CUFF.1463 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75542954-75543174 chr17:75556778-75556925 chr17:75557027-75557293 10;4 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;12 N alternative_acceptor CUFF.1400 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 129;3 N jcn_only_AA CUFF.1467 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 714;17 N alternative_acceptor chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 76;122 N intron_retention chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 24;273 N jcn_only_AD CUFF.1471 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 222;35 N coord_cassette CUFF.1406 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 17;97 N jcn_only_AD CUFF.1398 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 11;119 N intron_retention chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 283;178 N jcn_only_AA CUFF.1414 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 13;8 K intron_retention CUFF.1407 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 14;5 N alternative_donor CUFF.1419 chr17 + chr17:29677337-29683477 chr17:29679433-29683477 chr17:29677337-29679432 chr17:29677336-29677337 31;7 K jcn_only_AA CUFF.1448 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 29;55 K alternative_donor CUFF.1439 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 34;58 N alternative_acceptor CUFF.1471 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 126;39 N alternative_donor CUFF.1460 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 213;1 K intron_retention CUFF.1404 chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 12;19 K intron_retention CUFF.1412 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 22;50 N jcn_only_AD CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66511261-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 200;85 N jcn_only_AA CUFF.1406 chr17 - chr17:15580997-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15581036-15584178 193;251 N alternative_acceptor CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15586279-15586349 chr17:15584268-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 28;244 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 80;299 N jcn_only_AD CUFF.1406,CUFF.1431 chr17 - chr17:15555261-15580489 chr17:15555261-15562115 chr17:15562116-15580489 chr17:15580489-15580490 51;18 N jcn_only_AD CUFF.1474 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 237;24 N jcn_only_AD CUFF.1446 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 43;52 N jcn_only_AD chr17 - chr17:15562191-15584178 chr17:15562191-15580489 48;57 N alternative_acceptor CUFF.1467 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 372;7 N jcn_only_AD CUFF.1396 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 234;15 N alternative_acceptor CUFF.1451 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 7;93 K intron_retention CUFF.1467 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 700;26 N jcn_only_AA CUFF.1406 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 283;82 N intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 23;4 N coord_cassette CUFF.1415 chr17 + chr17:25969375-25974055 chr17:25969375-25972339;chr17:25972376-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972340-25972375;chr17:25972887-25972937;chr17:25973573-25973614 22;88 N cassette CUFF.1398 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 29;112 N alternative_donor CUFF.1429 chr17 - chr17:37599882-37604050 chr17:37599882-37601663 chr17:37601664-37604050 chr17:37604050-37604051 11;4 K alternative_donor CUFF.1394 chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 204;180 K jcn_only_AD CUFF.1472 chr17 - chr17:79894738-79895137 chr17:79894738-79895133 chr17:79895134-79895137 chr17:79895137-79895138 48;15 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 61;34 N jcn_only_AD CUFF.1429 chr17 - chr17:37599882-37604050 chr17:37599882-37601663 chr17:37601664-37604050 chr17:37604050-37604051 11;23 N alternative_donor chr17 - chr17:15584268-15584364;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15586349 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 67;244 K intron_retention CUFF.1461 chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 134;14 N jcn_only_AA CUFF.1448,CUFF.1474 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 192;29 K alternative_donor CUFF.1398 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 173;3 N alternative_acceptor CUFF.1394 chr17 - chr17:1616190-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 184;20 N alternative_donor CUFF.1392,CUFF.1471 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 308;7 N jcn_only_AA CUFF.1471 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 153;47 N cassette CUFF.1474 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 84;229 N cassette CUFF.1461 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 346;48 K cassette CUFF.1448 chr17 + chr17:61560051-61560820 chr17:61560051-61560389;chr17:61560535-61560820 chr17:61560390-61560534 21;16 N cassette CUFF.1415 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 38;86 K cassette CUFF.1407 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 49;17 N intron_retention CUFF.1471 chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 37;139 N alternative_donor CUFF.1471 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 63;114 N intron_retention CUFF.1461 chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 10;13 K intron_retention CUFF.1469 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 232;24 N jcn_only_AA CUFF.1467 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 31;700 N alternative_donor CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66511261-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 61;12 K intron_retention CUFF.1416 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 13;42 N cassette CUFF.1398 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 41;73 K intron_retention CUFF.1474 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 128;72 N alternative_acceptor CUFF.1467 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 21;358 K intron_retention CUFF.1419 chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 177;36 K alternative_donor CUFF.1472 chr17 - chr17:79894738-79895103 chr17:79894738-79895068 chr17:79895069-79895103 chr17:79895103-79895104 9;17 N alternative_donor CUFF.1474 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 128;9 N jcn_only_AA CUFF.1394 chr17 - chr17:1615694-1617149;chr17:1616199-1617149 chr17:1616190-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 428;177 N alternative_donor chr17 - chr17:40748646-40762554 chr17:40748646-40757265 chr17:40757266-40762554 chr17:40762554-40762555 18;14 K intron_retention CUFF.1461 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 85;26 N jcn_only_AA CUFF.1451 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 225;118 K intron_retention CUFF.1451 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 123;9 K intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 299;134 K cassette CUFF.1400 chr17 + chr17:6352728-6353347 chr17:6352728-6353023;chr17:6353099-6353347 chr17:6353024-6353098 103;37 K coord_cassette CUFF.1464 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 30;28 N jcn_only_AD CUFF.1464 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 79;7 N jcn_only_AA CUFF.1471 chr17 - chr17:79994890-79995506;chr17:79995418-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 82;118 N intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 60;33 K cassette CUFF.1407 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 13;11 N alternative_acceptor CUFF.1451 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 935;34 N jcn_only_AA CUFF.1434 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 3;10 N alternative_acceptor CUFF.1461 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 522;6 N alternative_acceptor CUFF.1394 chr17 - chr17:1615694-1617149;chr17:1616190-1617149 chr17:1616199-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 316;127 K intron_retention CUFF.1451 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 46;77 N jcn_only_AA CUFF.1419 chr17 + chr17:29677337-29683477 chr17:29677337-29679274 chr17:29679275-29683477 chr17:29683477-29683478 31;54 K alternative_first_exon CUFF.1448 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554422-61554704 chr17:61554785-61555151 89;111 N alternative_donor chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479759 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 17;3 N jcn_only_AA CUFF.1398 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 123;6 N alternative_donor CUFF.1461 chr17 + chr17:66509112-66511127 chr17:66509120-66511127 chr17:66509112-66509119 chr17:66509111-66509112 73;16 N alternative_acceptor CUFF.1396 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 64;68 N mutually_exclusive CUFF.1472 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 56;17 N jcn_only_AA chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 230;65 K alternative_first_exon CUFF.1436 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685781 chr17:46710876-46711030 138;128 N alternative_donor CUFF.1472 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 13;10 K intron_retention CUFF.1471 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 284;100 N alternative_acceptor CUFF.1431 chr17 - chr17:40761746-40762554;chr17:40744181-40762554 chr17:40748646-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 31;1 K alternative_first_exon CUFF.1408 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380216-17380579 chr17:17388614-17388747 8;54 N alternative_donor CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66508637-66511534 chr17:66511294-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 54;19 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 118;98 N alternative_acceptor CUFF.1394 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 491;6 K cassette CUFF.1448 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 56;89 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 149;14 N jcn_only_AD CUFF.1448 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 110;29 K coord_cassette CUFF.1407 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 15;19 N alternative_donor CUFF.1449 chr17 - chr17:61843555-61850136;chr17:61843555-61850771 chr17:61843555-61851971 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 12;9 N cassette CUFF.1406 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 17;78 N jcn_only_AA CUFF.1415 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 123;4 N jcn_only_AD CUFF.1419 chr17 + chr17:29576138-29584704 chr17:29580019-29584704 chr17:29576138-29580018 chr17:29576137-29576138 25;6 N alternative_acceptor CUFF.1439 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 67;68 N jcn_only_AD CUFF.1448 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 90;49 N alternative_donor chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 177;191 N jcn_only_AA CUFF.1439 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 73;68 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 20;5 N cassette CUFF.1451 chr17 + chr17:61905570-61907211 chr17:61905570-61906853;chr17:61906924-61907211 chr17:61906854-61906923 12;270 K alternative_first_exon CUFF.1472 chr17 - chr17:79894738-79894845,chr17:79894738-79895055,chr17:79894738-79895403;chr17:79894738-79895137,chr17:79894738-79895133 chr17:79894738-79895103,chr17:79894738-79895068 chr17:79895138-79895287 chr17:79895104-79895109 72;24 K intron_retention CUFF.1471 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 456;19 K cassette CUFF.1432 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 61;25 N intron_retention chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 21;27 N alternative_donor CUFF.1448 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 95;35 N cassette CUFF.1406 chr17 - chr17:15546131-15562115;chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15580489,chr17:15555261-15562115 chr17:15554405-15555260 35;81 N jcn_only_AD CUFF.1472 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 184;9 K intron_retention CUFF.1419 chr17 + chr17:29683601-29683977 chr17:29683600-29683601;chr17:29683977-29683978 89;7 N jcn_only_AD CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66511261-66511534;chr17:66511294-66511534;chr17:66508637-66511534 chr17:66509413-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 262;22 N alternative_first_exon CUFF.1461 chr17 + chr17:66509112-66511127,chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66508986-66509111;chr17:66507921-66508283 chr17:66508465-66508689 75;4 N alternative_donor CUFF.1474 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 687;57 K alternative_first_exon CUFF.1436 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46711030 chr17:46685591-46685781 201;65 N alternative_acceptor CUFF.1439 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 132;3 K intron_retention CUFF.1394 chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 204;184 N intron_retention CUFF.1461 chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 3;8 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 12;30 K intron_retention CUFF.1468 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 60;44 N alternative_donor CUFF.1406 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 253;58 N cassette CUFF.1396 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 15;136 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 7;41 N alternative_acceptor CUFF.1467 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 365;14 K cassette CUFF.1400 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 32;79 N cassette CUFF.1426 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 36;29 N alternative_acceptor CUFF.1451 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 212;31 N alternative_donor CUFF.1451 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 113;150 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 14;51 N coord_cassette CUFF.1472 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 24;49 N jcn_only_AA CUFF.1406 chr17 - chr17:15584537-15586349;chr17:15586266-15586349;chr17:15586279-15586349 chr17:15584268-15586349 chr17:15584268-15584536;chr17:15584537-15586265;chr17:15586266-15586278 chr17:15584267-15584268;chr17:15584536-15584537;chr17:15586265-15586266 300;244 K alternative_donor CUFF.1472 chr17 - chr17:79894738-79895137 chr17:79894738-79895133 chr17:79895134-79895137 chr17:79895137-79895138 48;16 N alternative_donor CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640 chr17:79479387-79479631 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 20;0 N jcn_only_AA CUFF.1419 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 55;4 N jcn_only_AA CUFF.1431 chr17 - chr17:40744181-40761103;chr17:40757310-40761103 chr17:40738156-40761103 163;20 K intron_retention CUFF.1451 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 935;52 K intron_retention chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 114;13 K intron_retention CUFF.1451 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 113;58 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 22;56 N jcn_only_AD CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534 chr17:66508637-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 268;17 N jcn_only_AD CUFF.1448 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 102;29 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 5;36 N jcn_only_AD CUFF.1406 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 491;18 N cassette CUFF.1451 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 92;273 N jcn_only_AD CUFF.1467,CUFF.1469 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 207;38 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 31;194 N alternative_donor CUFF.1443,CUFF.1471 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 486;31 N alternative_donor CUFF.1398 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 11;147 N alternative_acceptor CUFF.1467 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 472;45 N alternative_acceptor CUFF.1404 chr17 - chr17:15498141-15499827;chr17:15492542-15499827 chr17:15498205-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 15;7 N alternative_donor CUFF.1406 chr17 - chr17:15584268-15586349;chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 308;3 N alternative_donor CUFF.1474 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 237;3 N intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 13;9 N intron_retention chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 101;23 N alternative_donor CUFF.1448 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 51;29 N alternative_donor CUFF.1406 chr17 - chr17:15584268-15584364;chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174;chr17:15586175-15586349 chr17:15586167-15586168;chr17:15586174-15586175;chr17:15586349-15586350 305;6 K intron_retention CUFF.1396 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 58;92 N alternative_acceptor chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 9;100 N alternative_donor CUFF.1467 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 700;18 N alternative_acceptor chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 149;22 N coord_cassette CUFF.1464 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 20;6 N jcn_only_AA chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 76;81 N jcn_only_AA CUFF.1431 chr17 - chr17:40761746-40762554;chr17:40744181-40762554 chr17:40748646-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 41;18 N jcn_only_AD CUFF.1474 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 128;4 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 59;76 K intron_retention CUFF.1451 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 351;43 N jcn_only_AA CUFF.1471 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 165;35 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 9;9 K alternative_acceptor CUFF.1424 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 40;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 18;174 N alternative_acceptor CUFF.1467 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 28;167 N intron_retention CUFF.1396 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 19;114 N coord_cassette CUFF.1464 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 5;43 N alternative_acceptor CUFF.1415 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 123;0 K intron_retention chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 299;81 K jcn_only_AA CUFF.1471 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 299;22 N alternative_donor chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 11;10 K jcn_only_AD CUFF.1431 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 39;71 K intron_retention CUFF.1461 chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 210;19 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 17;16 N coord_cassette CUFF.1419 chr17 + chr17:29664899-29667522 chr17:29664899-29665042;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665043-29665157;chr17:29665722-29665823 38;60 N jcn_only_AA CUFF.1406 chr17 - chr17:15580997-15584178;chr17:15581036-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15580595-15584178 401;44 N cassette CUFF.1460 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 9;156 N jcn_only_AA CUFF.1448 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 78;57 K intron_retention CUFF.1394 chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 223;188 N alternative_donor CUFF.1448 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 101;29 N alternative_acceptor CUFF.1449 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 23;0 K intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 15;45 N jcn_only_AD CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79481572 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 262;15 N alternative_acceptor CUFF.1404 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472345-15492541 chr17:15472344-15472345 153;5 K intron_retention CUFF.1404 chr17 - chr17:15496810-15498061 chr17:15496809-15496810;chr17:15498061-15498062 79;5 N alternative_acceptor CUFF.1419 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 55;1 N jcn_only_AA CUFF.1394 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 491;7 K alternative_last_exon CUFF.1474 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436676-80436794 chr17:80436447-80436505 67;4 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 4;113 K intron_retention CUFF.1426 chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 84;4 N jcn_only_AA CUFF.1439 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 75;66 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 31;60 N cassette CUFF.1467 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 18;400 N intron_retention chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 28;80 K cassette CUFF.1407 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 86;28 N alternative_donor CUFF.1446 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 9;12 N jcn_only_AD CUFF.1448 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 78;61 N alternative_donor CUFF.1419 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 55;9 N cassette CUFF.1445 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777238-57784731 chr17:57776232-57777237 6;156 N alternative_donor CUFF.1461 chr17 + chr17:66508721-66511534;chr17:66509413-66511534;chr17:66511261-66511534;chr17:66511294-66511534 chr17:66508637-66511534 chr17:66508637-66508720;chr17:66508721-66509412;chr17:66509413-66511260;chr17:66511261-66511293 chr17:66508636-66508637;chr17:66508720-66508721;chr17:66509412-66509413;chr17:66511260-66511261 56;17 N jcn_only_AA CUFF.1398 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 18;111 N alternative_donor CUFF.1396 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 234;5 N jcn_only_AA CUFF.1451 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 282;61 K intron_retention CUFF.1471 chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 35;145 N jcn_only_AD CUFF.1471 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 221;37 K intron_retention CUFF.1415 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 79;8 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 14;26 K intron_retention CUFF.1419 chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 21;153 N alternative_donor CUFF.1394 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 223;182 N jcn_only_AA CUFF.1451 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 935;17 K intron_retention CUFF.1474 chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 94;44 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 198;7 N jcn_only_AD CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79490667 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 260;17 N alternative_donor CUFF.1400 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 49;103 N jcn_only_AA chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 9;204 N jcn_only_AD CUFF.1451 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 113;149 N jcn_only_AD CUFF.1472 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 183;10 K alternative_last_exon CUFF.1398 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5424844-5425106 chr17:5433211-5433378 132;105 N alternative_acceptor CUFF.1471 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 186;80 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 9;27 N intron_retention CUFF.1451 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 38;67 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 2;52 N alternative_acceptor CUFF.1461 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 386;3 N jcn_only_AD CUFF.1392,CUFF.1471 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 327;14 N cassette CUFF.1415 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 30;90 N jcn_only_AD CUFF.1448 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 110;21 N alternative_donor CUFF.1469 chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479631 chr17:79479387-79479640 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 20;0 N jcn_only_AA CUFF.1471 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 186;23 N jcn_only_AA CUFF.1469 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 4;290 N jcn_only_AA CUFF.1431 chr17 - chr17:40744181-40762554;chr17:40748646-40762554 chr17:40761746-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 44;15 N jcn_only_AA CUFF.1472 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 28;212 N cassette CUFF.1464 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 109;27 N alternative_acceptor CUFF.1431 chr17 - chr17:40744181-40762554;chr17:40748646-40762554 chr17:40761746-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 28;4 N jcn_only_AA CUFF.1394 chr17 - chr17:1616190-1617149;chr17:1616199-1617149 chr17:1615694-1617149 chr17:1615694-1616189;chr17:1616190-1616198 chr17:1615693-1615694;chr17:1616189-1616190 400;204 K intron_retention CUFF.1443 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 336;50 K alternative_acceptor CUFF.1448 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 29;71 N alternative_donor CUFF.1448 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 chr17:61567390-61568729;chr17:61568730-61571020 chr17:61567389-61567390;chr17:61568729-61568730 64;66 K intron_retention CUFF.1451 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 345;35 N alternative_donor CUFF.1469 chr17 - chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479489 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 20;0 N jcn_only_AA CUFF.1404 chr17 - chr17:15492542-15499827;chr17:15498205-15499827 chr17:15498141-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 100;12 N jcn_only_AD CUFF.1431,CUFF.1449 chr17 - chr17:61843555-61851971;chr17:61843555-61850771 chr17:61843555-61850136 chr17:61850137-61850771;chr17:61850772-61851971 chr17:61850771-61850772;chr17:61851971-61851972 32;6 N alternative_first_exon CUFF.1437 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985731-46986182 chr17:46990196-46990327 73;89 N jcn_only_AA CUFF.1406 chr17 - chr17:15581036-15584178;chr17:15580595-15584178;chr17:15562191-15584178;chr17:15557746-15584178;chr17:15546131-15584178 chr17:15580997-15584178 436;9 N jcn_only_AA CUFF.1404 chr17 - chr17:15498141-15499827;chr17:15492542-15499827 chr17:15498205-15499827 chr17:15492542-15498140;chr17:15498141-15498204 chr17:15492541-15492542;chr17:15498140-15498141 28;85 N intron_retention CUFF.1451 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 61;62 N alternative_acceptor CUFF.1434 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 3;4 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 34;18 N jcn_only_AD chr17 - chr17:79479387-79479489;chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479640;chr17:79479387-79479631 chr17:79479387-79479759 chr17:79479490-79479631;chr17:79479632-79479640;chr17:79479641-79479759;chr17:79479760-79481572;chr17:79481573-79490667 chr17:79479631-79479632;chr17:79479640-79479641;chr17:79479759-79479760;chr17:79481572-79481573;chr17:79490667-79490668 69;209 N jcn_only_AD CUFF.1471 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 72;186 N alternative_donor CUFF.1471 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 290;25 K cassette CUFF.1368 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 164;26 K cassette CUFF.1317 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 5;33 N alternative_donor CUFF.1350 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 985;26 N alternative_donor CUFF.1327 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 85;104 K intron_retention CUFF.1342 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 90;5 N alternative_acceptor CUFF.1372,CUFF.1377 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 162;11 K jcn_only_AA CUFF.1340 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 168;177 N alternative_acceptor chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 6;86 N alternative_donor CUFF.1375 chr16 - chr16:23530961-23533114 chr16:23530961-23533113 chr16:23533114-23533114 chr16:23533114-23533115 1;403 K intron_retention CUFF.1364 chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 36;132 N jcn_only_AD chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 138;3 N alternative_acceptor chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 8;33 K intron_retention CUFF.1353 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 79;43 N intron_retention CUFF.1327 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 18;68 N alternative_donor chr16 + chr16:21969921-21972648 chr16:21970877-21972648 chr16:21969921-21970876 chr16:21969920-21969921 11;6 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 18;280 N cassette CUFF.1315 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 13;294 N alternative_donor CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4465715 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 178;13 N jcn_only_AD CUFF.1377 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 1057;10 K alternative_first_exon CUFF.1383 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589702-75590273 chr16:75589117-75589226 83;140 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 93;435 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 24;95 N alternative_acceptor CUFF.1327 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 182;6 N jcn_only_AA CUFF.1340 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 104;53 N alternative_acceptor CUFF.1370 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 131;6 N jcn_only_AD CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4465715 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 177;27 N jcn_only_AA chr16 + chr16:31383992-31388119 chr16:31383992-31384569 3;8 K intron_retention CUFF.1391 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 339;7 K intron_retention CUFF.1391 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 197;48 K intron_retention CUFF.1375 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 18;34 K alternative_last_exon CUFF.1384 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170194-76170263 chr16:76174260-76174301 34;15 K alternative_acceptor CUFF.1390 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 6;31 N jcn_only_AD CUFF.1372 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 8;115 K intron_retention CUFF.1353 chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 62;38 N jcn_only_AD CUFF.1302 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 133;24 N cassette CUFF.1327 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 6;186 N coord_cassette CUFF.1340 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 143;167 N jcn_only_AA CUFF.1375 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 84;5 K cassette CUFF.1353 chr16 - chr16:30005130-30006423 chr16:30005130-30005968;chr16:30006165-30006423 chr16:30005969-30006164 59;50 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 22;413 N alternative_donor CUFF.1342 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693147-21695873 chr16:21693146-21693147 86;0 K alternative_first_exon CUFF.1340 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566562-19566642 chr16:19566968-19567068 129;107 N alternative_acceptor CUFF.1342 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 147;0 K intron_retention CUFF.1377 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 57;8 K alternative_first_exon CUFF.1350 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521901 864;286 N jcn_only_AA CUFF.1340 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 243;14 N mutually_exclusive CUFF.1315 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 25;13 N jcn_only_AA CUFF.1303,CUFF.1315 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 166;30 K jcn_only_AD CUFF.1327 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 138;213 N alternative_acceptor CUFF.1364 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1204;11 N jcn_only_AA CUFF.1370 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 131;7 N alternative_donor CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766 chr16:4463406-4466785 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 185;6 K intron_retention CUFF.1353 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 91;48 N jcn_only_AD CUFF.1390 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 32;150 N alternative_acceptor chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 6;50 N jcn_only_AD CUFF.1302 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 175;3 K cassette CUFF.1385 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77775478 chr16:77769725-77769883 chr16:77775479-77776182 138;62 N alternative_acceptor CUFF.1375 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 84;2 N alternative_donor chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 312;120 N jcn_only_AA CUFF.1302 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 175;6 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 1117;19 N cassette CUFF.1340 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 3;74 N intron_retention CUFF.1377 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 9;3 N alternative_donor CUFF.1303 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 47;0 K intron_retention CUFF.1353 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 157;50 K alternative_donor CUFF.1391 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 61;89 N alternative_donor chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 159;273 K alternative_first_exon CUFF.1342 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716266-21716358 77;9 N jcn_only_AD CUFF.1303 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 47;3 N cassette CUFF.1383 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 50;62 N alternative_donor CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4464307 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 184;7 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 20;132 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 5;13 K intron_retention CUFF.1306 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 18;4 N jcn_only_AD CUFF.1372 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 21;113 K coord_cassette CUFF.1385 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77770546;chr16:77770641-77775478 chr16:77769725-77769883;chr16:77770547-77770640 chr16:77775479-77776182 138;27 K intron_retention CUFF.1383 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 95;418 N mutually_exclusive CUFF.1377 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 5;14 K intron_retention CUFF.1343 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 53;15 N jcn_only_AD CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4464307 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 182;21 N intron_retention CUFF.1350 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 24;83 K alternative_last_exon CUFF.1317 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3195669-3195779 chr16:3194985-3195653 7;19 N mutually_exclusive CUFF.1315 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 10;14 K jcn_only_AA CUFF.1390 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 6;70 N jcn_only_AA CUFF.1370 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 32;115 N jcn_only_AD CUFF.1375 chr16 - chr16:23530961-23533114 chr16:23530961-23533113 chr16:23533114-23533114 chr16:23533114-23533115 1;809 N jcn_only_AD CUFF.1340 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 180;51 N jcn_only_AD chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 4;86 N cassette CUFF.1337 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 10;155 N alternative_donor CUFF.1302 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 175;15 K jcn_only_AD CUFF.1342 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 90;5 K alternative_first_exon CUFF.1391 chr16 + chr16:89788254-89788938;chr16:89786991-89788938 chr16:89787685-89788938 chr16:89786808-89786990 chr16:89787355-89787684 36;86 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 9;15 N alternative_donor CUFF.1350 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 114;541 N cassette CUFF.1354 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 6;135 N cassette CUFF.1337 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 10;41 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 10;418 N alternative_first_exon chr16 - chr16:4445341-4447318,chr16:4445341-4466785;chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466460-4466962 chr16:4455492-4455568 49;129 K intron_retention CUFF.1350 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 985;83 N alternative_acceptor CUFF.1302 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 175;9 N jcn_only_AD chr16 - chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4466459 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 60;144 N alternative_acceptor CUFF.1303,CUFF.1315 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 166;71 K alternative_acceptor CUFF.1334 chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 16;14 K intron_retention CUFF.1315 chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 397;334 K cassette CUFF.1370 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 116;110 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 36;16 N alternative_donor CUFF.1315 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 568;111 N alternative_donor CUFF.1372 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 21;58 N alternative_donor CUFF.1383 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 510;19 N alternative_donor CUFF.1340 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 60;5 K alternative_last_exon CUFF.1351 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25096896-25097093 chr16:25111867-25112006 187;299 K cassette CUFF.1385 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 chr16:77775479-77776182 26;18 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 31;440 N intron_retention chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 187;23 N cassette CUFF.1326 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 28;332 N jcn_only_AD CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766 chr16:4463406-4466785 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 197;6 N intron_retention chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 3;11 K alternative_last_exon CUFF.1303 chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:597559-598287 chr16:596817-597392 78;62 N jcn_only_AD chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 21;120 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 3;109 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 20;206 N cassette CUFF.1315 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 23;599 N jcn_only_AD CUFF.1327 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 85;18 N cassette CUFF.1377 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 8;71 K cassette CUFF.1326 chr16 + chr16:4526489-4555484 chr16:4526489-4533637;chr16:4533740-4555484 chr16:4533638-4533739 202;62 N alternative_donor CUFF.1342 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 109;10 N jcn_only_AD CUFF.1315 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 727;74 K intron_retention CUFF.1327 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 137;11 K cassette CUFF.1356 chr16 + chr16:56226529-56309842 chr16:56226529-56268924;chr16:56269297-56309842 chr16:56268925-56269296 637;63 N alternative_donor CUFF.1375 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 6;74 K intron_retention CUFF.1373 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 64;24 N jcn_only_AD CUFF.1350 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 985;24 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 12;179 N alternative_acceptor CUFF.1303 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 3;7 N alternative_acceptor CUFF.1343 chr16 + chr16:21969921-21970659;chr16:21969921-21973780 chr16:21969921-21972648 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 54;6 N coord_cassette CUFF.1327 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 70;292 N jcn_only_AD CUFF.1375 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 6;102 K alternative_last_exon CUFF.1346 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22470676-22470812 chr16:22466771-22466858 77;1 N cassette CUFF.1327 chr16 - chr16:4466963-4475478 chr16:4466963-4470359;chr16:4470555-4475478 chr16:4470360-4470554 12;88 N alternative_donor CUFF.1372 chr16 + chr16:67233660-67234094 chr16:67233905-67234094 chr16:67233660-67233904 chr16:67233659-67233660 12;26 N cassette CUFF.1327 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 20;107 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 17;302 N cassette CUFF.1377 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 19;67 N alternative_donor chr16 - chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4465766;chr16:4463406-4466785 chr16:4463406-4466459 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 29;162 N alternative_donor CUFF.1343 chr16 + chr16:21969921-21973780 chr16:21972787-21973780 chr16:21969921-21972786 chr16:21969920-21969921 49;4 N jcn_only_AA CUFF.1364 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1204;22 N jcn_only_AA chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 6;86 K intron_retention chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 86;58 K alternative_last_exon CUFF.1331 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660269-5660675 23;59 N jcn_only_AA CUFF.1350 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 267;985 N jcn_only_AA CUFF.1327 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 182;55 N jcn_only_AD CUFF.1343 chr16 + chr16:21983444-21991867 chr16:21987565-21991867 20;2 N intron_retention CUFF.1302 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 6;10 K intron_retention CUFF.1373 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 69;37 K alternative_acceptor CUFF.1340 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 168;87 K intron_retention CUFF.1343 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 2;19 N intron_retention CUFF.1364 chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 9;94 N jcn_only_AA CUFF.1303 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 3;5 N jcn_only_AA CUFF.1370 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 209;7 N jcn_only_AD CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4466785 chr16:4463406-4465766 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 199;5 K intron_retention CUFF.1343 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 98;29 N jcn_only_AD chr16 + chr16:6028174-6400445;chr16:6093174-6400445 chr16:6093177-6400445 235;5 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 58;79 K intron_retention CUFF.1370 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 131;6 K mutually_exclusive CUFF.1353 chr16 - chr16:30005130-30006423,chr16:30006785-30006861 chr16:30005130-30005226,chr16:30006165-30006861 chr16:30006424-30006784 chr16:30005227-30006164 58;61 K coord_cassette CUFF.1385 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77769724;chr16:77769884-77775478 chr16:77759328-77759481;chr16:77769725-77769883 chr16:77775479-77776182 41;45 K jcn_only_AD CUFF.1370,CUFF.1375 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 82;42 N jcn_only_AD CUFF.1327,CUFF.1375 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 72;6 N cassette CUFF.1315 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 36;495 N jcn_only_AD CUFF.1350 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1153;209 K intron_retention CUFF.1377 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 162;8 N alternative_acceptor CUFF.1340 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 243;24 K alternative_first_exon CUFF.1352 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523467 chr16:28518102-28518155 41;21 N coord_cassette CUFF.1383 chr16 - chr16:75576582-75589701 chr16:75576582-75579249;chr16:75579394-75579723;chr16:75579853-75589701 chr16:75579250-75579393;chr16:75579724-75579852 50;162 N alternative_donor chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 4;44 N jcn_only_AA CUFF.1372,CUFF.1377 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 162;9 N coord_cassette CUFF.1340 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 41;215 N jcn_only_AD CUFF.1346 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 222;21 N alternative_acceptor CUFF.1327 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 31;3 N jcn_only_AA chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 8;131 N jcn_only_AA CUFF.1342 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 147;2 N jcn_only_AD CUFF.1350 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1326;36 K intron_retention CUFF.1303 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 20;13 N alternative_donor CUFF.1327 chr16 - chr16:4463406-4466459;chr16:4463406-4465715;chr16:4463406-4464307;chr16:4463406-4466785 chr16:4463406-4465766 chr16:4464308-4465715;chr16:4465716-4465766;chr16:4465767-4466459;chr16:4466460-4466785 chr16:4465715-4465716;chr16:4465766-4465767;chr16:4466459-4466460;chr16:4466785-4466786 188;3 N intron_retention chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 14;23 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 698;301 N alternative_donor CUFF.1315 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 605;74 N alternative_acceptor CUFF.1340,CUFF.1343 chr16 + chr16:21969921-21972648;chr16:21969921-21973780 chr16:21969921-21970659 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 55;5 N mutually_exclusive CUFF.1340 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 12;8 N alternative_acceptor chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 chr16:2203147-2203223;chr16:2203579-2204182 34;477 N alternative_acceptor chr16 + chr16:21969921-21972648;chr16:21969921-21970659 chr16:21969921-21973780 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 11;49 N alternative_donor CUFF.1377 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 1057;1 K alternative_donor CUFF.1350,CUFF.1375 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 38;75 N alternative_acceptor CUFF.1364 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 206;80 N cassette CUFF.1356 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 54;31 K mutually_exclusive CUFF.1353 chr16 - chr16:30005130-30006423,chr16:30006785-30006861 chr16:30005130-30005968,chr16:30006165-30006861 chr16:30006424-30006784 chr16:30005969-30006164 58;109 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 12;15 N jcn_only_AD CUFF.1342 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693147-21695873 chr16:21693146-21693147 86;2 N cassette CUFF.1364 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 19;568 N alternative_donor CUFF.1315 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 431;248 N jcn_only_AD CUFF.1342 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 109;9 N alternative_donor CUFF.1327,CUFF.1375 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 72;0 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 295;292 K cassette CUFF.1343 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 74;862 K intron_retention CUFF.1302 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 175;10 N intron_retention chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 6;66 N coord_cassette CUFF.1327 chr16 - chr16:4455569-4462356 chr16:4455569-4457562;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457563-4457685;chr16:4458182-4458252 70;246 N cassette CUFF.1372 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 19;99 N jcn_only_AD chr16 + chr16:31383992-31388119 chr16:31384712-31388119 3;7 K intron_retention CUFF.1391 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 120;12 K intron_retention CUFF.1370 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 56;133 K alternative_donor CUFF.1327 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 138;177 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 10;123 N alternative_acceptor CUFF.1350 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1095;52 N jcn_only_AA chr16 + chr16:31368423-31368654 chr16:31368423-31368573 22;4 N cassette CUFF.1327 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 68;192 K intron_retention CUFF.1377 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 110;12 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 12;76 K intron_retention CUFF.1327 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 143;9 K intron_retention CUFF.1353 chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 259;29 N alternative_first_exon CUFF.1343 chr16 + chr16:21964778-21974081 chr16:21973838-21974081 chr16:21963925-21964777 chr16:21973781-21973837 5;76 K intron_retention CUFF.1334 chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 16;28 N jcn_only_AA chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 6;107 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 3;298 N alternative_acceptor CUFF.1340 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 104;2 N cassette CUFF.1377 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 12;84 N intron_retention chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 chr16:2203147-2203223;chr16:2203579-2204182 34;229 N alternative_donor CUFF.1315 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 433;246 N jcn_only_AA CUFF.1327 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 31;170 K alternative_first_exon CUFF.1337 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15188002-15188249 chr16:15187809-15187943 28;8 K cassette CUFF.1369 chr16 + chr16:66613796-66620899 chr16:66613796-66613928;chr16:66614088-66620899 chr16:66613929-66614087 chr16:66613351-66613795;chr16:66620900-66621001 7;69 N jcn_only_AD chr16 + chr16:21969921-21972648 chr16:21970877-21972648 chr16:21969921-21970876 chr16:21969920-21969921 11;20 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6093174-6400445 chr16:6028174-6400445 236;4 N alternative_first_exon CUFF.1364 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 chr16:57514242-57514404 183;422 K cassette CUFF.1353 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 59;39 K alternative_donor CUFF.1390 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 9;100 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 74;204 K intron_retention CUFF.1327 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 85;66 K intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 209;20 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 4;35 K intron_retention CUFF.1327 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 118;7 N intron_retention chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 4;6 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 15;88 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 80;75 N jcn_only_AD CUFF.1315 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 766;35 K alternative_donor CUFF.1370,CUFF.1375 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 82;29 K cassette CUFF.1385 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 chr16:77775479-77776182 41;144 N coord_cassette CUFF.1377 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 12;80 N jcn_only_AD chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 123;18 N cassette CUFF.1377 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 5;1119 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 24;50 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 434;446 N jcn_only_AD CUFF.1350 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 245;1117 K jcn_only_AD CUFF.1390 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 9;121 N jcn_only_AD CUFF.1343 chr16 + chr16:21969921-21973780 chr16:21972787-21973780 chr16:21969921-21972786 chr16:21969920-21969921 49;43 N jcn_only_AD chr16 + chr16:6093177-6400445;chr16:6028174-6400445 chr16:6093174-6400445 9;231 N alternative_donor CUFF.1364 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 212;5 K alternative_first_exon CUFF.1325 chr16 - chr16:4254636-4289634 chr16:4254636-4256727 chr16:4289635-4289794 chr16:4256728-4258105 6;3 N cassette CUFF.1343 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 18;48 K jcn_only_AA CUFF.1373 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 66;202 N intron_retention CUFF.1364 chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 12;86 N alternative_donor CUFF.1340 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 180;1 N jcn_only_AD CUFF.1315 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 506;295 N intron_retention chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 22;8 K intron_retention CUFF.1326 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 349;14 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 6;44 N alternative_acceptor CUFF.1327 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 85;50 K alternative_acceptor CUFF.1373 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 66;112 K intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 565;75 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 171;1002 N jcn_only_AA chr16 + chr16:21969921-21972648;chr16:21969921-21970659 chr16:21969921-21973780 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 28;49 N jcn_only_AD CUFF.1364 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 215;12 N jcn_only_AA CUFF.1350 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1171;80 N alternative_donor CUFF.1350 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 619;36 K intron_retention chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 chr16:2203147-2203223;chr16:2203320-2204182 422;23 K jcn_only_AA CUFF.1334 chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 16;2 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 35;274 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 15;96 N intron_retention chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 2;14 N jcn_only_AD CUFF.1340 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 60;81 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 11;206 N jcn_only_AD CUFF.1364 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1204;20 N alternative_acceptor CUFF.1350 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 162;985 N jcn_only_AA CUFF.1350 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1065;187 K jcn_only_AD CUFF.1350,CUFF.1375 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 38;152 N alternative_acceptor CUFF.1340 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 60;8 K intron_retention CUFF.1350 chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 45;19 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 556;34 N jcn_only_AA CUFF.1364 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 206;22 N alternative_donor chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 18;58 N alternative_donor CUFF.1302 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 133;12 K jcn_only_AD CUFF.1391 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 61;194 N cassette CUFF.1315 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 29;483 N alternative_donor CUFF.1346 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 222;12 N cassette CUFF.1340 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 220;82 N jcn_only_AA CUFF.1340 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 60;86 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 6;117 N alternative_donor CUFF.1364 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 211;6 K alternative_donor CUFF.1310 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 68;3 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 171;574 N alternative_donor chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 393;39 K intron_retention CUFF.1311 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 chr16:2202990-2203046;chr16:2203147-2203223 428;37 K intron_retention CUFF.1377 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 37;4 N alternative_acceptor CUFF.1370 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 209;4 K intron_retention CUFF.1317 chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 5;9 N alternative_donor CUFF.1350 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 577;78 K intron_retention CUFF.1334 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 5;10 K intron_retention CUFF.1334 chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 2;24 K intron_retention CUFF.1311 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 chr16:2202821-2202886;chr16:2202990-2203046 409;47 N jcn_only_AA CUFF.1343 chr16 + chr16:21969921-21970659;chr16:21969921-21973780 chr16:21969921-21972648 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 66;11 N jcn_only_AA chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 chr16:2203147-2203223;chr16:2203579-2204182 34;422 K cassette CUFF.1311 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 chr16:2199942-2200052;chr16:2201570-2201611 376;53 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 9;77 N mutually_exclusive CUFF.1315 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 10;14 K intron_retention CUFF.1342 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 14;12 N cassette CUFF.1383 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 13;339 N jcn_only_AD chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 18;118 K intron_retention CUFF.1373 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 174;54 N jcn_only_AA CUFF.1340,CUFF.1343 chr16 + chr16:21969921-21972648;chr16:21969921-21973780 chr16:21969921-21970659 chr16:21970660-21972648;chr16:21972649-21973780 chr16:21972648-21972649;chr16:21973780-21973781 60;17 K jcn_only_AD CUFF.1310 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 68;7 K cassette CUFF.1370 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 111;35 K intron_retention CUFF.1327 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 70;40 N cassette CUFF.1340 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 19;183 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 30;116 N alternative_donor CUFF.1372 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 8;57 N jcn_only_AD CUFF.1315 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 404;397 K intron_retention CUFF.1383 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 510;19 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 91;6 N jcn_only_AD CUFF.1372 chr16 + chr16:67233660-67234094 chr16:67233905-67234094 chr16:67233660-67233904 chr16:67233659-67233660 12;82 K intron_retention CUFF.1369 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601;chr16:66614042-66614087 102;32 K alternative_donor CUFF.1342 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 90;3 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 19;17 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 5;21 N alternative_donor CUFF.1364 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1204;3 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 20;13 N intron_retention chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 7;4 K alternative_first_exon CUFF.1311 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190804-2190950 chr16:2198537-2198979 chr16:2199942-2200052 31;523 N jcn_only_AD CUFF.1364 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 218;9 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 120;210 K coord_cassette CUFF.1385 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77769724;chr16:77769884-77770546;chr16:77770641-77775478 chr16:77759328-77759481;chr16:77769725-77769883;chr16:77770547-77770640 chr16:77775479-77776182 41;37 N alternative_acceptor CUFF.1350 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1037;110 N jcn_only_AD CUFF.1383 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 510;34 N jcn_only_AA CUFF.1327 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 85;20 N cassette CUFF.1334 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 7;20 N cassette CUFF.1313 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 31;13 K cassette CUFF.1233 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 14;28 K jcn_only_AD CUFF.1298 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 77;21 N alternative_acceptor CUFF.1265 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 234;0 K cassette CUFF.1210 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 34;15 N alternative_acceptor CUFF.1243 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 5;108 N jcn_only_AD CUFF.1276 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 98;12 N jcn_only_AD chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 125;32 N alternative_acceptor CUFF.1300 chr15 - chr15:102226266-102241288;chr15:102236243-102241288 chr15:102239639-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 16;0 K intron_retention CUFF.1221 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 29;14 K cassette CUFF.1299 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 21;23 N alternative_first_exon CUFF.1215 chr15 + chr15:40545216-40545378,chr15:40544893-40545378;chr15:40544465-40545378;chr15:40532883-40545378;chr15:40531337-40545378 chr15:40509869-40545378 chr15:40544318-40544464;chr15:40532692-40532882;chr15:40530864-40531336 chr15:40509629-40509868 569;4 N alternative_donor CUFF.1243 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 265;8 N intron_retention chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 49;181 N jcn_only_AD CUFF.1229,CUFF.1238 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 104;28 N jcn_only_AA CUFF.1282 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78825552-78829641 chr15:78829641-78829642 32;41 K alternative_last_exon CUFF.1230 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45753154 32;17 N alternative_donor CUFF.1285 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83377523 chr15:83358206-83358514 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 152;2 N alternative_donor CUFF.1272 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 11;6 N cassette CUFF.1226 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 12;75 N cassette CUFF.1280 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 49;41 N alternative_donor CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 3;126 K cassette CUFF.1232 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 92;20 N alternative_acceptor CUFF.1300 chr15 - chr15:102226266-102241288;chr15:102239639-102241288 chr15:102236243-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 14;2 N alternative_acceptor CUFF.1243 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 49;0 K alternative_first_exon CUFF.1210 chr15 + chr15:29131425-29213842,chr15:29140756-29213842;chr15:29129760-29213842 chr15:29211691-29213842 chr15:29129629-29129759 chr15:29211499-29211690 31;164 N jcn_only_AD CUFF.1292 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 19;36 N alternative_first_exon CUFF.1215 chr15 + chr15:40545216-40545378,chr15:40544893-40545378;chr15:40544465-40545378;chr15:40509869-40545378;chr15:40531337-40545378 chr15:40532883-40545378 chr15:40544318-40544464;chr15:40509629-40509868;chr15:40530864-40531336 chr15:40532692-40532882 286;287 N jcn_only_AA chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 46;16 K intron_retention CUFF.1226 chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 21;44 K alternative_last_exon CUFF.1274 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779623-75780118 2;135 K alternative_first_exon CUFF.1294 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91303824-91304485 chr15:91305524-91305652 24;38 N jcn_only_AA CUFF.1243 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 391;3 N cassette CUFF.1226 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 131;88 N coord_cassette CUFF.1259 chr15 - chr15:64658275-64673156 chr15:64658275-64665896;chr15:64665964-64668941;chr15:64669105-64673156 chr15:64665897-64665963;chr15:64668942-64669104 24;12 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 3;6 N cassette CUFF.1275 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577421-77578764 chr15:77577300-77577420 5;93 K cassette CUFF.1274 chr15 - chr15:75762341-75766029 chr15:75762341-75763020;chr15:75763172-75766029 chr15:75763021-75763171 22;7 N jcn_only_AD CUFF.1272 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 11;18 N alternative_donor CUFF.1272 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 113;9 N jcn_only_AA CUFF.1285 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 115;18 K cassette CUFF.1259 chr15 - chr15:64669105-64673524 chr15:64669105-64673156;chr15:64673238-64673524 chr15:64673157-64673237 291;42 N alternative_donor CUFF.1272 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 108;14 K intron_retention CUFF.1276 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 962;8 K cassette CUFF.1215 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 386;171 K jcn_only_AD CUFF.1226 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 32;183 N jcn_only_AA CUFF.1216,CUFF.1272 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 11;13 K intron_retention CUFF.1298 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 24;94 N alternative_acceptor chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 8;24 N cassette CUFF.1229 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 59;141 N cassette CUFF.1259 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 24;276 N jcn_only_AD CUFF.1285 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 19;23 N intron_retention chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 30;39 K alternative_donor CUFF.1265 chr15 - chr15:66645294-66678987 chr15:66645294-66678757 chr15:66678758-66678987 chr15:66678987-66678988 234;233 N cassette CUFF.1275 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 69;52 K cassette CUFF.1229 chr15 - chr15:45470505-45492924 chr15:45470505-45490969;chr15:45491319-45492924 chr15:45490970-45491318 278;150 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 7;76 K cassette CUFF.1219 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 97;132 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 28;379 N jcn_only_AD CUFF.1276 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 89;22 K cassette CUFF.1215 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 30;144 N alternative_donor CUFF.1267 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 166;37 N alternative_acceptor CUFF.1292 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 50;175 K jcn_only_AD CUFF.1208 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 112;17 N mutually_exclusive CUFF.1226 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 11;12 N cassette CUFF.1285 chr15 - chr15:83350333-83357909 chr15:83350333-83357487;chr15:83357584-83357909 chr15:83357488-83357583 6;71 N jcn_only_AD CUFF.1240 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 374;10 K alternative_acceptor CUFF.1216,CUFF.1230 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 3;16 N jcn_only_AD chr15 + chr15:63047893-63053879 chr15:63050859-63053879 5;21 N jcn_only_AD CUFF.1267 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 166;17 N jcn_only_AD CUFF.1243 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 76;74 K cassette CUFF.1259 chr15 - chr15:64658275-64668941 chr15:64658275-64665896;chr15:64665964-64668941 chr15:64665897-64665963 499;12 K cassette CUFF.1240 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 55;170 N jcn_only_AD CUFF.1238 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 108;25 N jcn_only_AD CUFF.1260 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 64;5 N cassette CUFF.1267 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 140;177 K cassette CUFF.1243 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 340;555 N jcn_only_AA chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 30;61 N alternative_acceptor CUFF.1275 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 71;3 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 24;7 N alternative_donor chr15 - chr15:78500445-78537610;chr15:78500445-78501486 chr15:78500445-78526712 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 16;1 N alternative_donor CUFF.1276 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 jcn_only_AA chr15 + chr15:40531337-40545378 chr15:40531337-40532799 14;94 N jcn_only_AD CUFF.1292 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 406;64 K intron_retention CUFF.1221 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 28;35 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 16;16 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 159;311 K alternative_acceptor CUFF.1285 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;23 N jcn_only_AA CUFF.1229 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 255;20 N alternative_donor CUFF.1292 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 315;2 N jcn_only_AA CUFF.1238 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 80;27 N alternative_donor CUFF.1292 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 19;12 K intron_retention CUFF.1226 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 9;17 N jcn_only_AD CUFF.1275,CUFF.1280 chr15 - chr15:78500445-78526712;chr15:78500445-78537610 chr15:78500445-78501486 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 33;55 N jcn_only_AD CUFF.1243 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 119;31 K intron_retention CUFF.1260 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 34;72 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 28;34 N alternative_donor CUFF.1276 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 65;9 K intron_retention CUFF.1260 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 11;67 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 7;6 N jcn_only_AA chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 12;382 K coord_cassette CUFF.1226 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 131;41 N alternative_acceptor CUFF.1216,CUFF.1272 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 11;13 K intron_retention CUFF.1226 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 21;31 K cassette CUFF.1300 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 28;18 N jcn_only_AA CUFF.1300 chr15 - chr15:102236243-102241288;chr15:102239639-102241288 chr15:102226266-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 63;14 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 29;5 K alternative_first_exon CUFF.1243 chr15 + chr15:57506595-57523349;chr15:57490024-57523349 chr15:57511789-57523349 chr15:57489971-57490023 chr15:57511160-57511788 73;325 N jcn_only_AA CUFF.1275 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 71;206 N alternative_first_exon CUFF.1215 chr15 + chr15:40545216-40545378,chr15:40544893-40545378;chr15:40532883-40545378;chr15:40509869-40545378;chr15:40531337-40545378 chr15:40544465-40545378 chr15:40532692-40532882;chr15:40509629-40509868;chr15:40530864-40531336 chr15:40544318-40544464 365;208 K jcn_only_AA CUFF.1208 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 102;19 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 101;145 N alternative_donor CUFF.1300 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102196070-102197124 chr15:102197124-102197125 36;1 N jcn_only_AD CUFF.1285 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83358514 chr15:83358206-83377523 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 211;39 K alternative_first_exon CUFF.1210 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29287956-29288009 chr15:29336469-29336631 300;117 N alternative_donor chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 125;12 N jcn_only_AD CUFF.1280 chr15 - chr15:78500445-78526712;chr15:78500445-78501486 chr15:78500445-78537610 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 73;15 N alternative_acceptor CUFF.1285 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 86;12 N jcn_only_AD CUFF.1300 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102196070-102197124 chr15:102197124-102197125 36;5 N alternative_acceptor CUFF.1285 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 19;5 K intron_retention CUFF.1272 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 148;26 N alternative_first_exon CUFF.1215 chr15 + chr15:40545216-40545378,chr15:40544893-40545378;chr15:40544465-40545378;chr15:40532883-40545378;chr15:40509869-40545378 chr15:40531337-40545378 chr15:40544318-40544464;chr15:40532692-40532882;chr15:40509629-40509868 chr15:40530864-40531336 555;18 N cassette CUFF.1215 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 12;58 N jcn_only_AA CUFF.1296 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 60;2 N mutually_exclusive CUFF.1259 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 18;317 K cassette CUFF.1208 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 110;26 N jcn_only_AD CUFF.1207 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 10;6 N jcn_only_AA chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 8;34 K jcn_only_AD CUFF.1265 chr15 - chr15:66645294-66678987 chr15:66645294-66678757 chr15:66678758-66678987 chr15:66678987-66678988 234;235 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;24 K intron_retention CUFF.1260 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 62;28 N intron_retention chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 36;25 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 5;26 K alternative_first_exon CUFF.1265 chr15 - chr15:66645294-66678944;chr15:66645294-66678987,chr15:66645294-66678757 chr15:66645294-66648976 chr15:66678988-66679155 chr15:66648977-66649054 402;135 N jcn_only_AD CUFF.1292 chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 256;40 N coord_cassette CUFF.1226 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;101 N jcn_only_AD CUFF.1294 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 2;13 N jcn_only_AD CUFF.1243 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 55;204 K alternative_first_exon CUFF.1230 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742235-45742488 chr15:45752644-45752767 27;12 N jcn_only_AA CUFF.1285 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 54;79 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;311 K alternative_first_exon CUFF.1230 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45740534-45740999 chr15:45751159-45751248 20;16 N coord_cassette CUFF.1294 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 9;32 N jcn_only_AA CUFF.1275 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 3;13 N alternative_donor CUFF.1215 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 45;8 K cassette CUFF.1229 chr15 - chr15:45464517-45467416 chr15:45464517-45465773;chr15:45465915-45467416 chr15:45465774-45465914 141;162 N jcn_only_AA CUFF.1272,CUFF.1276 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 35;60 K cassette CUFF.1260 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 3;23 N jcn_only_AD CUFF.1243 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 119;31 N cassette CUFF.1226 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 89;43 N intron_retention chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 18;16 N jcn_only_AD CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 126;256 N jcn_only_AD CUFF.1243 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 272;26 K alternative_donor CUFF.1267 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 62;242 K intron_retention CUFF.1260 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 11;14 N jcn_only_AA CUFF.1292 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 50;316 N alternative_donor CUFF.1292 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 316;10 K intron_retention CUFF.1278 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 49;131 N jcn_only_AD CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 302;81 K intron_retention CUFF.1215 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 8;92 K alternative_last_exon CUFF.1233 chr15 - chr15:50793249-50821993;chr15:50793035-50821993 chr15:50805710-50821993 chr15:50793083-50793248;chr15:50792747-50793034 chr15:50805579-50805709 32;5 N alternative_donor CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 129;0 N jcn_only_AA CUFF.1274 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 2;12 N alternative_donor CUFF.1260 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 64;14 N jcn_only_AD CUFF.1276 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 51;60 N jcn_only_AA CUFF.1292 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380955-90408925 chr15:90380954-90380955 311;78 N alternative_acceptor CUFF.1243 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 46;3 N jcn_only_AA CUFF.1240 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 5;217 K cassette CUFF.1286 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 22;24 K alternative_last_exon CUFF.1215 chr15 + chr15:40558697-40564424 chr15:40558697-40559123 chr15:40564425-40564922 chr15:40559124-40559188 63;5 K jcn_only_AD CUFF.1298 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 45;53 N jcn_only_AA CUFF.1300 chr15 - chr15:102226266-102241288;chr15:102239639-102241288 chr15:102236243-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 31;46 N jcn_only_AD CUFF.1210 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 28;7 N jcn_only_AA chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 10;437 N alternative_donor chr15 - chr15:83358206-83366608;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83378345 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 9;145 N alternative_acceptor CUFF.1272,CUFF.1276 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 35;33 K alternative_first_exon CUFF.1283 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80215794-80216141 chr15:80206930-80207625 121;95 N coord_cassette CUFF.1286 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.1292 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 403;67 K alternative_last_exon CUFF.1233 chr15 - chr15:50793035-50821993;chr15:50805710-50821993 chr15:50793249-50821993 chr15:50792747-50793034;chr15:50805579-50805709 chr15:50793083-50793248 25;12 N jcn_only_AD CUFF.1243 chr15 + chr15:57213297-57355947 chr15:57293583-57355947 chr15:57213297-57293582 chr15:57213296-57213297 41;20 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 79;37 N jcn_only_AA CUFF.1207,CUFF.1216 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 60;6 K alternative_first_exon CUFF.1252,CUFF.1283 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007333 chr15:61945388-61945400 22;136 N cassette CUFF.1207 chr15 + chr15:24820151-24832713 chr15:24820151-24825373;chr15:24825478-24832713 chr15:24825374-24825477 12;38 K cassette CUFF.1238 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 143;80 K intron_retention CUFF.1260 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 3;47 N cassette CUFF.1292 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 218;218 N alternative_acceptor CUFF.1240 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 5;161 N intron_retention chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 4;14 N jcn_only_AD CUFF.1276 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 65;14 N cassette CUFF.1294 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 3;52 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.1226 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 57;47 N jcn_only_AD chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 23;9 N jcn_only_AA CUFF.1240 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 374;11 N alternative_donor CUFF.1275,CUFF.1280 chr15 - chr15:78500445-78526712;chr15:78500445-78537610 chr15:78500445-78501486 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 16;1 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 18;204 N jcn_only_AD CUFF.1210 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 339;44 N intron_retention chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 9;40 K intron_retention CUFF.1214 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 22;8 N jcn_only_AD CUFF.1272 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 36;99 N alternative_donor CUFF.1226,CUFF.1232 chr15 - chr15:47672793-47687757 chr15:47672793-47685518 chr15:47685519-47687757 chr15:47687757-47687758 12;0 N jcn_only_AA CUFF.1226 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 63;38 N jcn_only_AD CUFF.1272 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 120;15 N cassette CUFF.1243 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 107;61 N jcn_only_AA CUFF.1243 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 5;125 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 56;6 N jcn_only_AD CUFF.1300 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 14;18 N alternative_acceptor CUFF.1292 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380955-90408925 chr15:90380954-90380955 311;4 N jcn_only_AA CUFF.1215 chr15 + chr15:24803469-24811802 chr15:24803469-24811235 35;6 K intron_retention chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 94;89 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 47;35 N cassette CUFF.1286 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 11;30 N jcn_only_AD CUFF.1215 chr15 + chr15:40558697-40564424 chr15:40559199-40564424 chr15:40558697-40559198 chr15:40558696-40558697 45;7 N jcn_only_AA CUFF.1243 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 385;9 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 29;3 K intron_retention CUFF.1272 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 64;100 K cassette CUFF.1294 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 36;5 K cassette CUFF.1243 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 220;60 K cassette CUFF.1295 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 43;8 N jcn_only_AA CUFF.1265 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 234;38 N jcn_only_AD CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 381;2 N alternative_donor CUFF.1229,CUFF.1238 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 104;34 N alternative_donor CUFF.1276 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 19;26 K intron_retention CUFF.1260 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 66;23 K alternative_donor CUFF.1298 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 114;24 N jcn_only_AA chr15 + chr15:40509869-40545378 chr15:40509869-40532799 3;3 N alternative_donor CUFF.1285 chr15 - chr15:83358206-83378345;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83366608 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 154;0 N alternative_donor CUFF.1243 chr15 + chr15:57213297-57355947 chr15:57293583-57355947 chr15:57213297-57293582 chr15:57213296-57213297 41;0 K jcn_only_AA CUFF.1285 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 145;171 K jcn_only_AA CUFF.1216,CUFF.1230 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 3;31 N jcn_only_AD CUFF.1292 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 442;28 N alternative_donor CUFF.1241 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 19;4 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 29;11 N alternative_acceptor CUFF.1226 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 63;2 K jcn_only_AD CUFF.1267 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 62;129 N alternative_acceptor CUFF.1229 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 255;33 N jcn_only_AD chr15 + chr15:29131425-29140665 chr15:29139191-29140665 5;28 K alternative_donor CUFF.1226 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 32;147 N alternative_donor CUFF.1210 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 128;1 K alternative_last_exon CUFF.1240 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722506-55722977 44;30 N jcn_only_AD CUFF.1276 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 94;17 N alternative_donor CUFF.1238 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 108;11 N alternative_acceptor CUFF.1292 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 4;200 N coord_cassette CUFF.1280 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 11;66 N alternative_acceptor CUFF.1285 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 19;79 N alternative_donor CUFF.1292 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 316;1 K alternative_donor CUFF.1298 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 67;71 N jcn_only_AA CUFF.1300 chr15 - chr15:102226266-102241288;chr15:102236243-102241288 chr15:102239639-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 61;16 K cassette CUFF.1233 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 44;13 K jcn_only_AA CUFF.1285 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;24 N jcn_only_AD CUFF.1243 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 136;14 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 18;101 K intron_retention CUFF.1226 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 128;24 N jcn_only_AD CUFF.1241 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 19;41 N alternative_donor CUFF.1210 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 127;2 N alternative_donor CUFF.1226,CUFF.1265 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 63;4 N alternative_acceptor CUFF.1296 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 60;0 K alternative_first_exon CUFF.1300 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204677 24;12 N jcn_only_AD CUFF.1292 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 316;20 K coord_cassette CUFF.1233 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 16;12 K alternative_last_exon CUFF.1233 chr15 - chr15:50793249-50821993;chr15:50805710-50821993 chr15:50793035-50821993 chr15:50793083-50793248;chr15:50805579-50805709 chr15:50792747-50793034 17;20 K cassette CUFF.1215 chr15 + chr15:40545491-40556981 chr15:40545491-40556004;chr15:40556121-40556981 chr15:40556005-40556120 386;251 N jcn_only_AA CUFF.1300 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 36;4 K intron_retention CUFF.1298 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 53;84 N jcn_only_AA CUFF.1285 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 19;20 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 K alternative_first_exon CUFF.1213 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294216-31294233 chr15:31327773-31327859 18;40 N alternative_donor CUFF.1207 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 10;6 N jcn_only_AD CUFF.1272 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 114;21 N jcn_only_AA CUFF.1285 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 97;36 N jcn_only_AD chr15 + chr15:24758885-24778841 chr15:24766978-24778841 53;9 N alternative_donor CUFF.1300 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 14;2 N jcn_only_AD chr15 - chr15:83358206-83366608;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83378345 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 105;145 N alternative_donor CUFF.1243 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 272;2 K cassette CUFF.1282 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 86;18 K cassette CUFF.1226 chr15 - chr15:44892831-44898222 chr15:44892831-44896302;chr15:44896396-44898222 chr15:44896303-44896395 48;69 K alternative_first_exon CUFF.1218 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780240-40780406 chr15:40800162-40800266 3;52 K intron_retention CUFF.1214 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 10;7 K intron_retention CUFF.1260 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 64;27 N alternative_donor CUFF.1280 chr15 - chr15:78500445-78526712;chr15:78500445-78501486 chr15:78500445-78537610 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 2;15 K alternative_last_exon CUFF.1280 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471303-78471322 40;10 N alternative_acceptor chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 3;46 N alternative_donor CUFF.1206 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23114586-23115116 chr15:23115116-23115117 157;9 N alternative_donor CUFF.1240 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 374;1 N intron_retention chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 13;21 N alternative_acceptor CUFF.1285 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83350333-83355771;chr15:83355772-83357250 chr15:83350332-83350333;chr15:83355771-83355772 91;7 N jcn_only_AD CUFF.1243 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 265;174 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 6;52 K alternative_last_exon CUFF.1230 chr15 + chr15:45768751-45769966;chr15:45768751-45804570 chr15:45768751-45789310 chr15:45804571-45804647 chr15:45789311-45789479 23;8 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 75;7 N alternative_donor CUFF.1292 chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 256;1 K intron_retention CUFF.1260 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 46;24 N jcn_only_AD CUFF.1226,CUFF.1265 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 63;21 N alternative_donor CUFF.1294 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 2;8 N alternative_donor CUFF.1276 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.1292 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 314;3 N alternative_acceptor CUFF.1274 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 2;1 N cassette CUFF.1240 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 20;39 N jcn_only_AD chr15 - chr15:78500445-78537610;chr15:78500445-78501486 chr15:78500445-78526712 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 70;18 N jcn_only_AD CUFF.1226,CUFF.1232 chr15 - chr15:47672793-47687757 chr15:47672793-47685518 chr15:47685519-47687757 chr15:47687757-47687758 12;6 K intron_retention CUFF.1285 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 43;33 K intron_retention CUFF.1298 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 21;70 K cassette CUFF.1212 chr15 + chr15:30771397-30776704 chr15:30771397-30772944;chr15:30773111-30776704 chr15:30772945-30773110 28;15 N intron_retention chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 14;10 K cassette CUFF.1286 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 27;15 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 N jcn_only_AD chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 41;40 N jcn_only_AD CUFF.1285 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83377523 chr15:83358206-83358514 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 191;59 N alternative_acceptor CUFF.1282 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78825552-78829641 chr15:78829641-78829642 32;10 N alternative_acceptor chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 10;20 K alternative_first_exon CUFF.1257 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128090-63128272 chr15:63128280-63128317 88;2 N jcn_only_AD CUFF.1285 chr15 - chr15:83358206-83378345;chr15:83358206-83358514;chr15:83358206-83377523 chr15:83358206-83366608 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 243;7 N coord_cassette CUFF.1229 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45465773;chr15:45465915-45467416 chr15:45464345-45464516;chr15:45465774-45465914 59;103 N alternative_acceptor chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 30;44 N alternative_acceptor CUFF.1207,CUFF.1216 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 60;0 K alternative_last_exon CUFF.1296 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527386 chr15:94512823-94512924 34;7 K alternative_first_exon CUFF.1215 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530864-40531336 24;116 N alternative_acceptor CUFF.1238 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 80;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 27;5 N alternative_acceptor CUFF.1240 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 374;0 N alternative_acceptor CUFF.1300 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 36;0 K coord_cassette CUFF.1215 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 386;165 N jcn_only_AD CUFF.1206 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23114586-23115116 chr15:23115116-23115117 157;43 N alternative_donor CUFF.1226 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 57;19 N jcn_only_AD chr15 - chr15:78501592-78537610 chr15:78501592-78504890 48;33 K jcn_only_AD CUFF.1298 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 74;24 N jcn_only_AA CUFF.1292 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 4;327 N alternative_donor CUFF.1285 chr15 - chr15:83358206-83366608;chr15:83358206-83378345;chr15:83358206-83358514 chr15:83358206-83377523 chr15:83358515-83366608;chr15:83366609-83377523;chr15:83377524-83378345 chr15:83366608-83366609;chr15:83377523-83377524;chr15:83378345-83378346 147;7 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 56;6 N alternative_acceptor CUFF.1300 chr15 - chr15:102236243-102241288;chr15:102239639-102241288 chr15:102226266-102241288 chr15:102226266-102236242;chr15:102236243-102239638 chr15:102226265-102226266;chr15:102236242-102236243 2;14 K intron_retention CUFF.1285 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 98;60 N alternative_acceptor CUFF.1275 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 3;0 K alternative_donor CUFF.1298 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 95;43 N alternative_donor CUFF.1210 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 28;1 N alternative_donor CUFF.1272 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 23;99 K cassette CUFF.1265 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 196;361 N alternative_donor CUFF.1285 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 19;7 N alternative_donor CUFF.1276 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 33;12 N alternative_donor CUFF.1157 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 13;30 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 110;17 N jcn_only_AD chr14 - chr14:75152364-75179635 chr14:75152364-75158743 17;31 K alternative_last_exon CUFF.1156 chr14 + chr14:39961761-39982820 chr14:39961761-39962544 chr14:39982821-39982984 chr14:39962545-39962724 19;53 N alternative_acceptor chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 13;21 K alternative_acceptor CUFF.1151 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 10;126 N jcn_only_AD chr14 - chr14:75138187-75139533 chr14:75138187-75138671 79;6 N cassette CUFF.1171 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 48;70 N jcn_only_AD CUFF.1167 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 321;31 K cassette CUFF.1183 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 3;48 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75168478-75179635 chr14:75152364-75179635 45;17 N jcn_only_AA CUFF.1185 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 95;146 K cassette CUFF.1157 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 55;273 N alternative_donor CUFF.1165 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60011881-60018072 chr14:60018072-60018073 chr14:60010062-60010172;chr14:60018073-60018140 56;1 N jcn_only_AD CUFF.1157 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 307;13 K intron_retention CUFF.1153 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 chr14:24682615-24683357;chr14:24683516-24683601 13;3 N intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 31;8 K intron_retention CUFF.1183 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 44;151 K intron_retention CUFF.1158 chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 15;5 N jcn_only_AD CUFF.1167 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 328;25 N alternative_donor CUFF.1150 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 195;4 N jcn_only_AD CUFF.1183 chr14 - chr14:77275987-77278647;chr14:77275987-77276431 chr14:77275987-77280649 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 73;15 N alternative_donor CUFF.1151 chr14 + chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563464-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 109;35 N cassette CUFF.1151 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 7;90 N alternative_donor CUFF.1178 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 81;0 N alternative_donor CUFF.1167 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 49;253 N jcn_only_AD CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563343-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 276;14 N jcn_only_AD CUFF.1155 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 34;33 N jcn_only_AD chr14 - chr14:75150237-75152302 chr14:75150237-75151156 13;47 K cassette CUFF.1172 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 5;25 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 64;44 N alternative_acceptor CUFF.1167 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 220;1 N jcn_only_AA CUFF.1149,CUFF.1160 chr14 + chr14:23392414-23395669 chr14:23392414-23393509 chr14:23393510-23395669 chr14:23395669-23395670 32;35 K alternative_first_exon CUFF.1187 chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81902665-81902891 chr14:81902432-81902625 chr14:81893446-81893556 26;16 N jcn_only_AD CUFF.1193 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 108;4 N jcn_only_AA CUFF.1157 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 393;9 K intron_retention CUFF.1153 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 chr14:24683516-24683601;chr14:24683698-24683805 15;5 K alternative_last_exon CUFF.1187 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81726990-81728275 chr14:81734375-81734841 chr14:81737014-81737216 7;58 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 53;74 N jcn_only_AA CUFF.1178 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 52;49 N alternative_acceptor chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 2;219 K alternative_first_exon CUFF.1193 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874710-92874778 25;21 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 14;11 N jcn_only_AA chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 42;63 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 70;261 N jcn_only_AA chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 18;72 N jcn_only_AD CUFF.1187 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 58;6 N jcn_only_AD CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563946-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 229;61 N jcn_only_AA chr14 - chr14:104208629-104212709 chr14:104209161-104212709 6;38 N jcn_only_AD CUFF.1183 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 72;16 N alternative_acceptor CUFF.1185 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 95;63 N jcn_only_AD CUFF.1164 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 38;10 N alternative_donor CUFF.1155 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 34;19 K intron_retention CUFF.1151 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 125;18 N alternative_acceptor chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 42;31 N jcn_only_AD CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24564588-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 260;30 K intron_retention CUFF.1158 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 177;8 N alternative_donor chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 9;4 N intron_retention chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 9;59 N cassette CUFF.1149 chr14 + chr14:23390330-23393509 chr14:23390330-23392180;chr14:23392414-23393509 chr14:23392181-23392413 5;142 N alternative_donor CUFF.1167 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 292;10 N alternative_acceptor CUFF.1171 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 126;3 N cassette CUFF.1172 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 3;12 N alternative_donor CUFF.1167 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 219;2 K intron_retention CUFF.1200 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 chr14:104200056-104201000;chr14:104201337-104201532 3;149 N cassette CUFF.1157 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 18;86 N alternative_donor CUFF.1201 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046341-105047962 chr14:105046340-105046341 33;7 N alternative_donor CUFF.1187 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 58;0 N alternative_acceptor chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 40;19 N jcn_only_AA CUFF.1193 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 90;5 N cassette CUFF.1160 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 16;73 K intron_retention CUFF.1157 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 30;170 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104251252-104263707 chr14:104245159-104263707 87;9 N jcn_only_AD CUFF.1150 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 195;12 N cassette CUFF.1192 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 21;75 N jcn_only_AA CUFF.1167 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 235;10 K alternative_acceptor CUFF.1165 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 chr14:60027837-60027946;chr14:60018073-60018140 83;14 N coord_cassette CUFF.1185 chr14 + chr14:77929103-77935419 chr14:77929103-77930940;chr14:77931030-77931881;chr14:77932011-77934425;chr14:77934528-77935419 chr14:77930941-77931029;chr14:77931882-77932010;chr14:77934426-77934527 9;336 N jcn_only_AD CUFF.1178 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 81;14 N jcn_only_AD CUFF.1167 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 310;43 N jcn_only_AD CUFF.1157 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 313;7 N jcn_only_AA CUFF.1171 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 21;112 N jcn_only_AD CUFF.1149 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 158;28 N alternative_donor chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 17;11 N jcn_only_AD chr14 - chr14:104209161-104212709 chr14:104209161-104210227 38;5 N mutually_exclusive CUFF.1157 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 14;5 N alternative_acceptor CUFF.1193 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 108;1 N jcn_only_AD CUFF.1160 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 46;6 N jcn_only_AD chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 16;31 N intron_retention chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 12;20 N intron_retention chr14 + chr14:77935329-77935419 chr14:77935328-77935329;chr14:77935419-77935420 15;27 K intron_retention CUFF.1151 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 208;12 N cassette CUFF.1150 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 210;121 N alternative_donor CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24564588-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 130;14 N jcn_only_AA CUFF.1156,CUFF.1167 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 123;127 K intron_retention chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 794;24 N jcn_only_AA CUFF.1178 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 46;44 N alternative_donor CUFF.1172 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 21;1 K alternative_last_exon CUFF.1198 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237470-103237910 35;60 N jcn_only_AD CUFF.1167 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;253 N jcn_only_AA chr14 - chr14:104225643-104245081;chr14:104230817-104245081 chr14:104224089-104245081 22;11 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179556 chr14:75159032-75179635 85;19 N jcn_only_AD CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24563644-24566100 chr14:24564055-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 220;70 K jcn_only_AA CUFF.1151 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 10;101 N alternative_donor CUFF.1183 chr14 - chr14:77275987-77278647;chr14:77275987-77276431 chr14:77275987-77280649 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 13;15 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75159032-75179635 43;19 K alternative_first_exon CUFF.1164 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941943 179;87 N cassette CUFF.1178 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 40;14 N cassette CUFF.1176 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 chr14:75127595-75127643;chr14:75130602-75130842 24;325 N cassette CUFF.1158 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 12;2 N jcn_only_AA chr14 + chr14:76349246-76368484 chr14:76349246-76353042 161;90 K intron_retention CUFF.1185 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 53;19 K cassette CUFF.1171 chr14 - chr14:69589078-69619481 chr14:69589078-69616147;chr14:69616221-69619481 chr14:69616148-69616220 16;406 N alternative_donor CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563946-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 113;31 N jcn_only_AD CUFF.1193 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 15;69 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 9;26 N alternative_donor CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100 chr14:24563644-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 126;18 K intron_retention CUFF.1176 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 chr14:75130215-75130525;chr14:75130602-75130842 198;12 N jcn_only_AA chr14 + chr14:61512886-61514868;chr14:61512886-61514965 chr14:61512886-61517229 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 26;219 N alternative_acceptor chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 4;1 K intron_retention CUFF.1167 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 253;28 N alternative_donor CUFF.1160 chr14 + chr14:58899176-58907938 chr14:58900063-58907938 chr14:58899176-58900062 chr14:58899175-58899176 5;3 N jcn_only_AD CUFF.1164 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 40;7 N alternative_donor CUFF.1157 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 51;12 N cassette CUFF.1151 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 31;196 N alternative_donor CUFF.1193 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 49;8 K jcn_only_AA CUFF.1162 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 103;188 N alternative_donor CUFF.1193 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 108;1 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 19;7 N jcn_only_AD chr14 - chr14:104208629-104212709 chr14:104208629-104208990 6;99 N alternative_donor CUFF.1193 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 51;6 N intron_retention chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 32;74 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 130;9 N cassette CUFF.1150 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 3;76 N alternative_donor CUFF.1178 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 98;22 N alternative_donor CUFF.1167 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 285;17 K alternative_first_exon CUFF.1150 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457965-24458284 74;200 N cassette CUFF.1178 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 38;100 N jcn_only_AD chr14 - chr14:75159032-75165466;chr14:75159032-75179635 chr14:75159032-75179556 64;40 N jcn_only_AA chr14 - chr14:75165560-75179635;chr14:75159032-75179635;chr14:75152364-75179635 chr14:75168478-75179635 44;18 K cassette CUFF.1167 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 172;99 N cassette CUFF.1164 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 18;269 K intron_retention CUFF.1200 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 chr14:104200056-104200259;chr14:104200704-104201532 10;188 N alternative_acceptor CUFF.1165 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 chr14:60018073-60018140;chr14:60010062-60010172 56;1 N alternative_donor CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24563644-24566100 chr14:24564055-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 112;32 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213198-104213269 chr14:104213110-104213269 39;58 N alternative_donor CUFF.1178 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 108;1 N coord_cassette CUFF.1167 chr14 + chr14:61497242-61504342 chr14:61497242-61500736;chr14:61500832-61503776;chr14:61503860-61504342 chr14:61500737-61500831;chr14:61503777-61503859 11;61 N jcn_only_AD chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 chr14:60030455-60030577 10;93 N cassette CUFF.1160 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 2;31 N alternative_last_exon chr14 + chr14:58979346-58987639,chr14:58979346-59003724;chr14:58979346-59014498 chr14:58979346-59006788 chr14:59014499-59014809 chr14:59006789-59006854 96;68 K cassette CUFF.1197 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 278;16 N cassette CUFF.1189 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 19;97 N alternative_donor CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563343-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 130;14 N jcn_only_AA chr14 - chr14:104213110-104213269;chr14:104213198-104213269 chr14:104212891-104213269 85;12 N coord_cassette CUFF.1167 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 31;236 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 128;20 K intron_retention CUFF.1157 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 94;76 K cassette CUFF.1172 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 20;11 N jcn_only_AD CUFF.1167 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 219;21 N jcn_only_AA chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 40;38 N alternative_acceptor CUFF.1167 chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 19;2 K cassette CUFF.1167 chr14 + chr14:61497242-61503776 chr14:61497242-61500736;chr14:61500832-61503776 chr14:61500737-61500831 240;68 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 133;6 N jcn_only_AD chr14 - chr14:75165560-75179635 chr14:75165560-75168371 7;29 K cassette CUFF.1167 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 223;87 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 18;7 N cassette CUFF.1160 chr14 + chr14:58899176-58909423 chr14:58899176-58907938;chr14:58908062-58909423 chr14:58907939-58908061 52;28 N alternative_acceptor CUFF.1200 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 chr14:104205016-104205149;chr14:104202340-104202539 49;77 N alternative_acceptor CUFF.1178 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 52;30 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 61;47 N intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 81;45 N jcn_only_AD chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 125;14 N alternative_donor chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 16;24 K cassette CUFF.1192 chr14 - chr14:92105595-92136157 chr14:92105595-92126180;chr14:92126326-92136157 chr14:92126181-92126325 2;16 N alternative_acceptor CUFF.1149,CUFF.1160 chr14 + chr14:23392414-23395669 chr14:23392414-23393509 chr14:23393510-23395669 chr14:23395669-23395670 32;4 K intron_retention CUFF.1153 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 chr14:24684758-24684868;chr14:24684943-24685003 2;7 N alternative_acceptor CUFF.1167,CUFF.1178 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 276;6 N intron_retention CUFF.1200 chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 chr14:104202340-104202539 50;38 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104230817-104245081 chr14:104225643-104245081 18;15 N coord_cassette CUFF.1167 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 31;164 N cassette CUFF.1156 chr14 + chr14:39954462-39982820 chr14:39954462-39961458;chr14:39961761-39982820 chr14:39961459-39961760 226;77 N jcn_only_AA CUFF.1167,CUFF.1178 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 276;9 N jcn_only_AA chr14 - chr14:75152364-75158743 chr14:75157854-75158743 31;7 N jcn_only_AD chr14 - chr14:104251252-104263707 chr14:104251252-104260913 69;17 N alternative_donor CUFF.1164 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 33;7 N alternative_donor CUFF.1178 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 46;2 N jcn_only_AD chr14 + chr14:24563464-24563974 chr14:24563644-24563974 10;81 N jcn_only_AD CUFF.1178 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 98;34 N alternative_acceptor CUFF.1167 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 220;1 N jcn_only_AA CUFF.1193 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 108;4 N jcn_only_AA CUFF.1201 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 5;4 N alternative_donor chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 chr14:60030455-60030577 10;27 N jcn_only_AD CUFF.1160 chr14 + chr14:58894532-58896080;chr14:58895182-58896080 chr14:58894576-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 32;19 K intron_retention CUFF.1193 chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 6;18 K jcn_only_AD CUFF.1187 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81743245-81745083 6;67 N jcn_only_AD chr14 - chr14:75140815-75142443 chr14:75140815-75142401 36;69 N jcn_only_AD CUFF.1165 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60011881-60018072 chr14:60018072-60018073 chr14:60010062-60010172;chr14:60018073-60018140 56;7 K intron_retention CUFF.1200 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 chr14:104200056-104201416 6;96 N jcn_only_AA CUFF.1155 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 38;40 N alternative_acceptor CUFF.1178 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 86;0 N intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 10;33 N jcn_only_AD chr14 - chr14:75136830-75138110 chr14:75136830-75137464 2;53 N jcn_only_AA chr14 - chr14:75143456-75149998 chr14:75145033-75149998 26;11 N mutually_exclusive CUFF.1157 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 5;29 K alternative_first_exon CUFF.1155 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354619-31355532 chr14:31354174-31354487 16;170 N jcn_only_AD CUFF.1160 chr14 + chr14:58899176-58907938 chr14:58900063-58907938 chr14:58899176-58900062 chr14:58899175-58899176 5;4 N alternative_acceptor CUFF.1204 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 87;0 N alternative_donor CUFF.1160 chr14 + chr14:58894532-58896080;chr14:58895182-58896080 chr14:58894576-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 31;17 N jcn_only_AD chr14 - chr14:104245159-104263707 chr14:104245159-104251131 9;87 N alternative_donor CUFF.1172 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 27;2 N jcn_only_AD CUFF.1172 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 21;27 N cassette CUFF.1157 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 6;70 N alternative_donor CUFF.1149 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 158;117 N jcn_only_AD CUFF.1172 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 27;3 N jcn_only_AA CUFF.1167 chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 19;51 N jcn_only_AD CUFF.1193 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 75;9 N jcn_only_AD chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 78;12 N jcn_only_AD CUFF.1157 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 20;301 N alternative_acceptor CUFF.1155 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 38;24 N jcn_only_AA CUFF.1204 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 87;10 N alternative_acceptor CUFF.1156,CUFF.1167 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 123;62 N jcn_only_AA CUFF.1200 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 chr14:104205016-104205149;chr14:104202340-104202539 49;46 K coord_cassette CUFF.1162 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 262;164 N jcn_only_AA chr14 - chr14:75136830-75138110 chr14:75137575-75138110 2;92 N cassette CUFF.1157 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 13;546 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75149998 chr14:75143456-75151156 39;69 N jcn_only_AA chr14 - chr14:104251252-104263707;chr14:104245159-104263707 chr14:104261001-104263707 78;18 N jcn_only_AD CUFF.1151 chr14 + chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100;chr14:24563644-24566100 chr14:24563464-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 211;79 N jcn_only_AD chr14 - chr14:75159032-75179635;chr14:75159032-75179556 chr14:75159032-75165466 59;45 N cassette CUFF.1151 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 10;136 N jcn_only_AA chr14 - chr14:75150237-75152302 chr14:75151384-75152302 13;85 N cassette CUFF.1171 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 46;341 N alternative_donor CUFF.1157 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 30;13 N alternative_acceptor CUFF.1193 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 90;0 N jcn_only_AD CUFF.1157 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 51;20 N jcn_only_AA chr14 - chr14:75138187-75139533 chr14:75138724-75139533 79;11 N jcn_only_AA chr14 - chr14:75159032-75179635;chr14:75152364-75179635;chr14:75168478-75179635 chr14:75165560-75179635 54;7 K intron_retention CUFF.1200 chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 chr14:104202340-104202539;chr14:104205016-104205149 49;189 N jcn_only_AD chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 31;57 K intron_retention CUFF.1164 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 48;16 K alternative_acceptor CUFF.1159 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 13;2 N cassette CUFF.1167 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 36;215 N jcn_only_AD chr14 - chr14:104212891-104212988;chr14:104212891-104213269 chr14:104212891-104216130 81;9 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213110-104213269 chr14:104213198-104213269 70;27 N alternative_donor CUFF.1164 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 31;9 N alternative_first_exon CUFF.1200 chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204153 chr14:104202340-104202539 79;38 K jcn_only_AA CUFF.1165 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 chr14:60027837-60027946;chr14:60018073-60018140 83;27 N alternative_donor CUFF.1157 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 43;0 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 17;11 N cassette CUFF.1185 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 70;139 N jcn_only_AD chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 9;59 N jcn_only_AD CUFF.1164 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 21;69 N jcn_only_AA CUFF.1171 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 126;7 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 29;110 N jcn_only_AD chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 91;17 N jcn_only_AD CUFF.1151 chr14 + chr14:24563464-24566100;chr14:24563946-24566100;chr14:24564588-24566100;chr14:24563343-24566100;chr14:24564055-24566100 chr14:24563644-24566100 chr14:24563343-24563463;chr14:24563464-24563643;chr14:24563644-24563945;chr14:24563946-24564054;chr14:24564055-24564587 chr14:24563342-24563343;chr14:24563463-24563464;chr14:24563643-24563644;chr14:24563945-24563946;chr14:24564054-24564055 253;37 N jcn_only_AA chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 4;2 N jcn_only_AD CUFF.1160 chr14 + chr14:58894576-58896080;chr14:58895182-58896080 chr14:58894532-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 25;27 N jcn_only_AD CUFF.1193 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 78;6 N intron_retention chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 9;43 K alternative_first_exon CUFF.1185 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924213-77924325 chr14:77924348-77924612 42;294 N jcn_only_AA chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 91;36 K cassette CUFF.1160 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 328;17 K intron_retention CUFF.1157 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 72;85 N jcn_only_AA CUFF.1200 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 6;50 N alternative_donor CUFF.1167 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 280;22 N jcn_only_AD CUFF.1178 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 108;32 N jcn_only_AD chr14 - chr14:75143456-75151156;chr14:75143456-75149998 chr14:75143456-75144881 95;13 N jcn_only_AA CUFF.1167 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 228;16 N jcn_only_AD chr14 - chr14:75143456-75144881;chr14:75143456-75151156 chr14:75143456-75149998 81;26 N alternative_donor CUFF.1160 chr14 + chr14:58894576-58896080;chr14:58895182-58896080 chr14:58894532-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 21;27 N cassette CUFF.1167 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 11;208 N alternative_acceptor CUFF.1157 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 393;1 K cassette CUFF.1192 chr14 - chr14:92195824-92246919 chr14:92195824-92203037;chr14:92203194-92246919 chr14:92203038-92203193 62;35 N jcn_only_AA CUFF.1165 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 chr14:60018073-60018140;chr14:60010062-60010172 56;6 N alternative_acceptor chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 18;79 N alternative_acceptor CUFF.1171 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 21;55 N mutually_exclusive CUFF.1150 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 3;14 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104225643-104245081 chr14:104230817-104245081 27;6 N jcn_only_AA chr14 - chr14:75136830-75137464 chr14:75136846-75137464 53;8 K jcn_only_AA CUFF.1159 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 13;3 N jcn_only_AA CUFF.1178 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 86;26 N jcn_only_AA chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 13;29 K intron_retention CUFF.1151 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 136;26 N jcn_only_AD CUFF.1201 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046341-105047962 chr14:105046340-105046341 33;12 K alternative_first_exon CUFF.1193 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789865-92790304 3;37 N alternative_first_exon CUFF.1156 chr14 + chr14:39944160-39961458 chr14:39954462-39961458 chr14:39944020-39944159 chr14:39954172-39954461 54;29 N jcn_only_AD CUFF.1178 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 46;60 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104245159-104263707 chr14:104251252-104263707 27;69 N cassette CUFF.1157 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 31;53 N alternative_donor CUFF.1193 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 14;43 N jcn_only_AA chr14 - chr14:75143456-75151156 chr14:75150237-75151156 69;47 N alternative_acceptor CUFF.1178 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 46;1 N alternative_donor CUFF.1183 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77276432-77278647;chr14:77278648-77280649 chr14:77278647-77278648;chr14:77280649-77280650 26;2 N alternative_donor CUFF.1160 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894532-58894575;chr14:58894576-58895181 chr14:58894531-58894532;chr14:58894575-58894576 44;4 N alternative_donor CUFF.1633 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 18;9 K intron_retention CUFF.1533 chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 72;34 K intron_retention CUFF.1618 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 422;23 N intron_retention chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 49;748 N cassette CUFF.1565 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 9;119 K cassette CUFF.1583 chr19 - chr19:33954969-33968951 chr19:33954969-33967985;chr19:33968206-33968951 chr19:33967986-33968205 228;52 K intron_retention CUFF.1544 chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 9;12 N alternative_donor CUFF.1566 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 19;88 N alternative_donor CUFF.1625 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 35;2 K intron_retention CUFF.1554 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 chr19:10394157-10394170;chr19:10394234-10394462 53;54 K jcn_only_AA CUFF.1557 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 56;147 N alternative_acceptor CUFF.1602 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 12;48 K intron_retention CUFF.1566 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 41;16 N alternative_acceptor CUFF.1539 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 2;37 N coord_cassette CUFF.1565 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 9;41 N alternative_acceptor chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 2;12 N jcn_only_AD CUFF.1583,CUFF.1619 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 87;26 N alternative_donor CUFF.1583 chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 216;0 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 219;7 N cassette CUFF.1542 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 35;93 N alternative_acceptor CUFF.1602 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 23;63 N jcn_only_AD CUFF.1566 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 174;23 N jcn_only_AD CUFF.1633 chr19 - chr19:56307617-56312937 chr19:56307617-56309594 chr19:56309595-56312937 chr19:56312937-56312938 37;10 K jcn_only_AA CUFF.1625 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 76;23 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448457-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 405;246 K cassette CUFF.1551 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 99;11 K coord_cassette CUFF.1565 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866657-14867049 chr19:14865766-14865939;chr19:14866466-14866656 102;33 N alternative_acceptor CUFF.1579,CUFF.1621 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 20;7 N jcn_only_AA CUFF.1633 chr19 - chr19:56307617-56312937;chr19:56312543-56312937 chr19:56309671-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 40;3 K cassette CUFF.1551 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 9;22 K intron_retention CUFF.1557 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 18;47 K intron_retention CUFF.1533 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 228;121 N jcn_only_AA CUFF.1570 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 106;9 K alternative_last_exon CUFF.1595 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41937223-41938313 chr19:41938751-41939339 26;63 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 79;9 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 78;148 N intron_retention chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 18;22 K alternative_donor CUFF.1553 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 24;11 K coord_cassette CUFF.1618 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 20;271 K alternative_donor CUFF.1588 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 116;55 K cassette CUFF.1542 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 22;154 K intron_retention CUFF.1602 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 9;23 K cassette CUFF.1573 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 39;51 K alternative_last_exon CUFF.1620 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52092801-52092937 chr19:52089880-52090511 72;117 N jcn_only_AA chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 330;5 K intron_retention CUFF.1611 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 12;5 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6192041-6199490 chr19:6176455-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 15;72 K cassette CUFF.1626 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 chr19:55087274-55087576;chr19:55098668-55099042 44;58 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;70 K alternative_first_exon CUFF.1595,CUFF.1618 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945787-41945815 chr19:41945379-41945575 235;30 N alternative_acceptor CUFF.1557 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 92;63 N jcn_only_AD CUFF.1556,CUFF.1595 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 chr19:41939177-41939441 chr19:41939441-41939442 48;70 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 156;70 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 12;56 N alternative_donor CUFF.1577 chr19 - chr19:20243397-20349096;chr19:20243397-20261169 chr19:20243397-20351308 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 6;16 K intron_retention CUFF.1588 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 320;55 K alternative_last_exon CUFF.1578 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637185-21637274 chr19:21638131-21638406 63;138 K intron_retention CUFF.1611 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 52;15 N jcn_only_AD CUFF.1536 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 493;50 N alternative_donor chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 3;213 K intron_retention CUFF.1569 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 7;28 K intron_retention CUFF.1588 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 17;67 K alternative_acceptor CUFF.1533 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 16;143 N cassette CUFF.1626 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 chr19:55085298-55085379;chr19:55085768-55086049 4;80 N jcn_only_AA CUFF.1539 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 46;28 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 81;6 K intron_retention CUFF.1570 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 730;140 K intron_retention CUFF.1573 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 179;4 N alternative_acceptor chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 8;41 N alternative_acceptor CUFF.1583 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 43;0 N jcn_only_AD chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 18;213 N cassette CUFF.1551 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 21;39 N jcn_only_AA CUFF.1557 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 121;132 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816 chr19:17447967-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 257;0 N intron_retention chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 14;2 K intron_retention CUFF.1623 chr19 + chr19:52918293-52918376 chr19:52918292-52918293;chr19:52918376-52918377 37;5 N intron_retention CUFF.1625 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 14;4 N alternative_donor CUFF.1593 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 2;12 K cassette CUFF.1542 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 27;24 N alternative_acceptor chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 73;2 K intron_retention CUFF.1611 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 54;5 N jcn_only_AA CUFF.1536 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 225;18 K intron_retention CUFF.1562 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 90;59 N alternative_acceptor CUFF.1633 chr19 - chr19:56312543-56312937;chr19:56309671-56312937 chr19:56307617-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 0;37 N alternative_acceptor chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 1;25 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 166;71 K intron_retention CUFF.1566 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 294;13 K coord_cassette CUFF.1565 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 102;39 N jcn_only_AD CUFF.1566 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 115;10 K jcn_only_AA CUFF.1602,CUFF.1625 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 88;16 K intron_retention CUFF.1539 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 74;11 K intron_retention CUFF.1545 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 14;4 N jcn_only_AA CUFF.1602 chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 12;48 K cassette CUFF.1617 chr19 - chr19:51485171-51487106 chr19:51485171-51485582;chr19:51485714-51487106 chr19:51485583-51485713 19;83 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 6;30 K alternative_donor CUFF.1588,CUFF.1619 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 36;45 K intron_retention chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 36;27 K alternative_first_exon CUFF.1633 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 23;22 N jcn_only_AD CUFF.1602 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 55;44 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17447844-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 252;5 K intron_retention CUFF.1623 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 2;3 K jcn_only_AD CUFF.1584 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 12;149 N alternative_acceptor CUFF.1602 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 34;8 N cassette CUFF.1565 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 14;96 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 19;30 N jcn_only_AA CUFF.1633 chr19 - chr19:56312543-56312937;chr19:56309671-56312937 chr19:56307617-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 6;37 N jcn_only_AD CUFF.1553 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 5;4 N jcn_only_AA CUFF.1578 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 21;17 N mutually_exclusive CUFF.1542 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 32;16 N jcn_only_AD CUFF.1602 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 80;18 K intron_retention CUFF.1573 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 166;6 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 27;7 K intron_retention CUFF.1593 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 7;241 N alternative_donor CUFF.1570 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598339-17599748 chr19:17598338-17598339 15;46 N jcn_only_AD CUFF.1566 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 37;88 K alternative_first_exon CUFF.1566 chr19 + chr19:16186983-16197232 chr19:16192857-16197232 chr19:16186857-16186982 chr19:16192485-16192856 77;212 K intron_retention CUFF.1589 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 119;80 K alternative_donor CUFF.1603 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 23;26 N cassette CUFF.1565 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 138;97 K intron_retention CUFF.1607 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 51;28 N jcn_only_AA CUFF.1583 chr19 - chr19:33984244-34001933 chr19:33991908-34001933 chr19:33984244-33991907 chr19:33984243-33984244 72;39 N alternative_acceptor CUFF.1570 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 15;47 N jcn_only_AA CUFF.1583 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 43;7 N intron_retention chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 18;67 N jcn_only_AA CUFF.1565 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 116;5 N jcn_only_AD CUFF.1588 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 62;320 N jcn_only_AD CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964634-58965062;chr19:58963111-58965062 chr19:58964150-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 81;18 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 24;39 K intron_retention CUFF.1620 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 98;47 N alternative_acceptor chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 25;1 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 27;57 N alternative_acceptor chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 33;9 K cassette CUFF.1619 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 299;98 N jcn_only_AD CUFF.1539 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 37;14 N alternative_acceptor CUFF.1625 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 43;6 N jcn_only_AD CUFF.1602 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 62;37 N alternative_acceptor CUFF.1621 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 274;1 N alternative_donor CUFF.1635 chr19 + chr19:58963121-58965062;chr19:58964634-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963072-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 19;56 N jcn_only_AD CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58964634-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 89;10 N jcn_only_AA CUFF.1621 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 306;6 K cassette CUFF.1619 chr19 - chr19:51534178-51537235 chr19:51534178-51535035;chr19:51535392-51537235 chr19:51535036-51535391 299;105 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 9;8 N jcn_only_AD chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 262;168 N cassette CUFF.1570 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 11;143 N mutually_exclusive CUFF.1626 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 chr19:55084387-55084902;chr19:55085768-55086049 17;2 N jcn_only_AD chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 30;11 N jcn_only_AD CUFF.1593 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 2;24 N jcn_only_AA chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 16;116 K alternative_first_exon CUFF.1611 chr19 + chr19:50305399-50306205 chr19:50305857-50306205 chr19:50305238-50305398 chr19:50305417-50305856 11;19 N alternative_acceptor CUFF.1536 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 81;5 K intron_retention CUFF.1603 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 23;43 K cassette CUFF.1593 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 381;15 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 26;25 N intron_retention CUFF.1611 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 17;7 N alternative_donor CUFF.1566 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 174;1 K jcn_only_AA CUFF.1536 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 280;427 K intron_retention CUFF.1606 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 235;20 K intron_retention CUFF.1611 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 28;5 N cassette CUFF.1542 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 5;120 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448079-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 634;18 K cassette CUFF.1617 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 64;66 K cassette CUFF.1606 chr19 - chr19:49298722-49299684 chr19:49298722-49299403;chr19:49299587-49299684 chr19:49299404-49299586 207;12 N jcn_only_AA chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 27;41 N intron_retention CUFF.1623 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 7;2 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 18;81 N jcn_only_AA CUFF.1539 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 37;37 N alternative_donor CUFF.1553 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 5;3 N jcn_only_AA CUFF.1618 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 14;470 K alternative_donor CUFF.1533 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 88;149 N coord_cassette CUFF.1623 chr19 + chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191;chr19:52918293-52918376 chr19:52917457-52917621;chr19:52918192-52918292 4;7 N alternative_donor chr19 - chr19:20243397-20349096;chr19:20243397-20351308 chr19:20243397-20261169 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 21;1 N alternative_donor CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 23;117 K intron_retention CUFF.1566 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 88;14 N alternative_acceptor CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 65;3 K alternative_first_exon CUFF.1546 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217076 11;107 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 6;66 K jcn_only_AA CUFF.1633 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 29;10 N cassette CUFF.1565 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866657-14867049 chr19:14866466-14866656 138;70 K cassette CUFF.1595 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 240;55 N intron_retention chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 46;116 N alternative_donor CUFF.1570 chr19 + chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445921-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 91;166 N intron_retention chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 32;44 K alternative_last_exon CUFF.1578 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21636352-21636579 22;53 K cassette CUFF.1623 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 3;94 K jcn_only_AD CUFF.1553 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 24;16 K intron_retention CUFF.1611 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 32;30 N intron_retention chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 19;9 K intron_retention CUFF.1547 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 11;9 N jcn_only_AD chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 288;141 N alternative_acceptor CUFF.1633 chr19 - chr19:56307617-56312937;chr19:56312543-56312937 chr19:56309671-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 37;0 N cassette CUFF.1565 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 9;128 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448386-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 582;69 N alternative_acceptor CUFF.1618 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 131;6 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 43;8 N alternative_acceptor CUFF.1602 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 17;25 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448386-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 246;11 N alternative_acceptor chr19 + chr19:52264484-52265669;chr19:52264484-52266614 chr19:52264484-52271897 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 5;270 K mutually_exclusive CUFF.1617 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 61;17 N jcn_only_AD CUFF.1635 chr19 + chr19:58963121-58965062;chr19:58964634-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963072-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 44;56 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 12;38 N coord_cassette CUFF.1565 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 7;57 N alternative_acceptor CUFF.1556 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 30;0 K intron_retention CUFF.1570 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 148;80 K alternative_acceptor CUFF.1548,CUFF.1623 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 17;1 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 10;24 N jcn_only_AA CUFF.1556 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 30;6 K intron_retention CUFF.1536 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 290;214 K cassette CUFF.1608 chr19 - chr19:49316606-49316919 chr19:49316606-49316689;chr19:49316810-49316919 chr19:49316690-49316809 26;27 N jcn_only_AA CUFF.1635 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 72;21 K cassette CUFF.1603 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 10;54 N intron_retention chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 7;11 N cassette CUFF.1565 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 168;79 N jcn_only_AA CUFF.1602 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 39;27 K cassette CUFF.1585 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 84;64 N alternative_acceptor CUFF.1608 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 35;7 K intron_retention CUFF.1611 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 40;5 N alternative_acceptor CUFF.1539 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 37;2 K alternative_first_exon CUFF.1564 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 7;13 N jcn_only_AD CUFF.1583 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 72;6 N alternative_acceptor CUFF.1611 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 chr19:50305791-50306205 chr19:50306205-50306206 12;9 K jcn_only_AA CUFF.1625 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 46;52 N jcn_only_AD chr19 - chr19:6176455-6199490 chr19:6176455-6199486 72;18 N intron_retention chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 22;75 K intron_retention CUFF.1606 chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 100;3 N jcn_only_AA CUFF.1625 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 54;14 K intron_retention CUFF.1533 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 16;120 K intron_retention CUFF.1573 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 119;7 N alternative_donor chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 1;43 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 246;86 K cassette CUFF.1608 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 9;32 N jcn_only_AD CUFF.1566 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 97;28 N jcn_only_AA CUFF.1539 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 65;9 N jcn_only_AD CUFF.1555 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 12;53 N alternative_donor CUFF.1536 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 174;7 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 422;31 N jcn_only_AA CUFF.1625 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 55;13 N jcn_only_AD CUFF.1536 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 174;16 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 63;67 K alternative_donor CUFF.1567 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 31;33 N alternative_acceptor chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 16;135 N alternative_acceptor chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 14;0 K intron_retention CUFF.1562 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 138;41 N jcn_only_AD CUFF.1536 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 93;450 N jcn_only_AD CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58964634-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963121-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 90;9 N cassette CUFF.1623 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 27;10 N alternative_acceptor CUFF.1577 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 11;16 N alternative_acceptor CUFF.1539 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 39;0 K alternative_donor CUFF.1533 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 228;174 N jcn_only_AD CUFF.1625 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 35;4 K alternative_acceptor CUFF.1557 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 56;83 N intron_retention chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 2;2 N cassette CUFF.1542 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 68;52 N jcn_only_AD chr19 + chr19:17608274-17611086 chr19:17610764-17611086 271;123 N jcn_only_AA chr19 + chr19:52264484-52265669;chr19:52264484-52266614 chr19:52264484-52271897 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 42;270 N intron_retention chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 11;24 N jcn_only_AD CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 180;22 N jcn_only_AA CUFF.1548 chr19 + chr19:17597767-17597982 chr19:17597767-17597908 105;10 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816 chr19:17447967-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 645;6 N cassette CUFF.1595 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 19;129 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448079-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 254;3 N intron_retention chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 4;8 K intron_retention CUFF.1573 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 140;46 N jcn_only_AD chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 59;18 K jcn_only_AD CUFF.1619 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 84;365 N alternative_acceptor CUFF.1625 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 47;2 N intron_retention chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 40;157 N cassette CUFF.1625 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 6;28 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17447844-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 612;40 N alternative_acceptor chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 12;2 N jcn_only_AD chr19 - chr19:20243397-20349096;chr19:20243397-20351308 chr19:20243397-20261169 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 28;10 N jcn_only_AA CUFF.1557 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 109;71 K jcn_only_AA CUFF.1554 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10381511-10381902 18;64 N intron_retention chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 14;22 N alternative_donor CUFF.1566 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 88;19 N alternative_donor CUFF.1602 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 46;28 N alternative_acceptor chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 74;1 N jcn_only_AA CUFF.1570 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 102;13 K cassette CUFF.1608 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 26;30 N intron_retention chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 4;56 N intron_retention CUFF.1588 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 45;58 N jcn_only_AD CUFF.1566 chr19 + chr19:16191253-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16187508-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 172;31 N jcn_only_AD CUFF.1536 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 500;43 K intron_retention CUFF.1553 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 5;15 N intron_retention chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 17;14 K alternative_first_exon CUFF.1618 chr19 - chr19:51528923-51529011,chr19:51528923-51531199;chr19:51528923-51530712 chr19:51528923-51529793 chr19:51530713-51531016 chr19:51529794-51529858 295;97 N jcn_only_AA CUFF.1557 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 98;81 N jcn_only_AD CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 170;32 N jcn_only_AD CUFF.1564 chr19 - chr19:33904550-33968951 chr19:33904550-33953900 5;110 K jcn_only_AA CUFF.1548,CUFF.1623 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 17;3 N alternative_donor CUFF.1579 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 20;0 N jcn_only_AD CUFF.1623 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 56;42 N jcn_only_AD CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 86;117 N jcn_only_AA CUFF.1593 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 18;20 N jcn_only_AD CUFF.1583,CUFF.1588 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 365;17 N cassette CUFF.1556 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 11;102 N alternative_donor CUFF.1588 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 335;29 N alternative_donor CUFF.1539 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 37;4 N alternative_donor CUFF.1536 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 320;43 N alternative_donor CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58964634-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 72;3 K alternative_acceptor CUFF.1565 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 11;51 N alternative_donor CUFF.1602 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 56;18 N alternative_donor CUFF.1583 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 44;0 N jcn_only_AA CUFF.1602 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 28;215 N alternative_donor CUFF.1633 chr19 - chr19:56307617-56312937 chr19:56307617-56309594 chr19:56309595-56312937 chr19:56312937-56312938 37;0 K intron_retention CUFF.1611 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 39;26 N alternative_acceptor CUFF.1557 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 84;71 K cassette CUFF.1623 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 125;27 K alternative_acceptor CUFF.1625 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 51;9 K intron_retention CUFF.1588 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 116;53 N coord_cassette CUFF.1595 chr19 - chr19:41939579-41945378 chr19:41939579-41942296;chr19:41942378-41944122;chr19:41944320-41945378 chr19:41942297-41942377;chr19:41944123-41944319 19;42 N alternative_donor CUFF.1555 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 12;13 N jcn_only_AD CUFF.1583,CUFF.1619 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 388;27 N alternative_donor CUFF.1623 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 47;27 K alternative_acceptor CUFF.1625 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 32;28 N jcn_only_AA chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 323;12 N jcn_only_AD CUFF.1570 chr19 + chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445921-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 485;166 N alternative_donor CUFF.1565 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 242;9 N alternative_donor CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964634-58965062;chr19:58964150-58965062 chr19:58963111-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 71;4 N jcn_only_AD CUFF.1565 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 242;14 N jcn_only_AD chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 36;43 K intron_retention CUFF.1584 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 85;30 N jcn_only_AA chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 7;36 N jcn_only_AA CUFF.1536 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 233;10 N jcn_only_AA CUFF.1608 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 35;14 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17448457-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 216;41 N cassette CUFF.1623 chr19 + chr19:52909897-52918376;chr19:52917622-52918376 chr19:52909897-52918191,chr19:52917622-52918191;chr19:52918293-52918376 chr19:52918192-52918292 6;27 N jcn_only_AA chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 22;137 N intron_retention chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 11;197 K alternative_acceptor CUFF.1602,CUFF.1625 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 88;8 N alternative_donor CUFF.1602 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 46;28 K jcn_only_AA CUFF.1625 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 75;23 K mutually_exclusive CUFF.1623 chr19 + chr19:52909897-52918191,chr19:52918293-52918376 chr19:52909897-52917456,chr19:52917622-52918376 chr19:52918192-52918292 chr19:52917457-52917621 21;3 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 105;34 N jcn_only_AA CUFF.1611 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 chr19:50305791-50306205 chr19:50306205-50306206 12;17 N alternative_donor CUFF.1577 chr19 - chr19:20243397-20261169;chr19:20243397-20351308 chr19:20243397-20349096 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 17;5 N alternative_acceptor CUFF.1570 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 36;78 K alternative_donor CUFF.1584 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 12;74 N alternative_acceptor CUFF.1635 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 59;9 N jcn_only_AA chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 22;93 N intron_retention chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 148;13 N alternative_donor CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 136;4 N jcn_only_AD CUFF.1583 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 49;29 N jcn_only_AA CUFF.1577 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 11;34 K intron_retention CUFF.1533 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 147;40 K jcn_only_AA CUFF.1533 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 16;228 K intron_retention CUFF.1588 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 398;41 K alternative_first_exon CUFF.1600 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725141 4;563 K intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 39;35 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 14;344 K intron_retention CUFF.1573 chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 63;13 K intron_retention CUFF.1578 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 51;4 K alternative_donor CUFF.1557 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 5;52 N alternative_donor CUFF.1536 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 84;279 N alternative_donor CUFF.1623 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 69;5 K alternative_donor CUFF.1619 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 84;227 K alternative_first_exon CUFF.1614 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 72;9 K intron_retention CUFF.1533 chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 88;21 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 33;18 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 181;8 K alternative_acceptor CUFF.1625 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 37;23 K jcn_only_AD CUFF.1533 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 228;147 K intron_retention chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 23;55 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 14;30 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 45;4 N jcn_only_AA CUFF.1618 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 131;13 N jcn_only_AA CUFF.1570 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 36;59 N jcn_only_AD CUFF.1583 chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 226;6 N alternative_donor CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964634-58965062;chr19:58963111-58965062 chr19:58964150-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 67;8 N alternative_donor CUFF.1546,CUFF.1583 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 213;3 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 6;115 K jcn_only_AA CUFF.1566 chr19 + chr19:16186983-16197232 chr19:16186983-16192722 99;117 N alternative_donor chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 30;11 K jcn_only_AD CUFF.1608 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 29;23 N alternative_donor CUFF.1583 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 43;1 N coord_cassette CUFF.1542 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 39;36 N jcn_only_AD chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314066-49314240 chr19:49314240-49314241 19;79 K jcn_only_AD CUFF.1588 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 116;95 N intron_retention chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 7;27 K jcn_only_AD CUFF.1567 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 31;34 N alternative_acceptor CUFF.1633 chr19 - chr19:56307617-56312937;chr19:56309671-56312937 chr19:56312543-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 37;0 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445932-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 616;36 K alternative_first_exon CUFF.1585 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139538-36139810 54;16 N alternative_acceptor CUFF.1593 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 18;10 N intron_retention chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 2;9 K intron_retention CUFF.1562 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 158;18 N alternative_donor CUFF.1588 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 44;320 N jcn_only_AD CUFF.1577 chr19 - chr19:20243397-20261169;chr19:20243397-20351308 chr19:20243397-20349096 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 27;12 K cassette CUFF.1565 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 116;42 N jcn_only_AA CUFF.1557 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 152;28 N jcn_only_AA chr19 + chr19:17611442-17615263 chr19:17611442-17611520 141;228 K alternative_first_exon CUFF.1556,CUFF.1614 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546699 chr19:11545594-11545925 75;36 K alternative_donor CUFF.1608 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 29;12 K alternative_donor CUFF.1535 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 11;36 N alternative_donor CUFF.1566 chr19 + chr19:16191253-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16187508-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 127;13 N alternative_acceptor chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 7;25 K intron_retention CUFF.1635 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 27;39 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 6;27 K alternative_acceptor CUFF.1536 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 280;271 K alternative_last_exon CUFF.1539 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894665-5894865 13;67 N alternative_acceptor chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 chr19:6148341-6176454;chr19:6176455-6192040 chr19:6148340-6148341;chr19:6176454-6176455 26;0 K cassette CUFF.1567 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 18;23 N alternative_donor chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 59;2 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 11;47 N jcn_only_AD CUFF.1579 chr19 + chr19:32851525-32873372 chr19:32871527-32873372 chr19:32851525-32871526 chr19:32851524-32851525 20;18 N jcn_only_AD CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963121-58965062;chr19:58964634-58965062;chr19:58964150-58965062 chr19:58963111-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 93;6 K intron_retention chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 6;57 N jcn_only_AD CUFF.1570 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598339-17599748 chr19:17598338-17598339 15;222 N intron_retention chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 70;70 K alternative_first_exon CUFF.1621 chr19 + chr19:52266771-52271897,chr19:52265789-52271897;chr19:52264484-52271897 chr19:52271786-52271897 chr19:52264018-52264483 chr19:52271595-52271785 352;54 N alternative_donor CUFF.1623 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 32;42 N jcn_only_AA chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 16;319 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 193;27 N jcn_only_AD CUFF.1633 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56347702-56348075 chr19:56348075-56348076 18;9 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 9;33 N alternative_donor CUFF.1566 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 chr19:16186983-16187507;chr19:16187508-16191252;chr19:16191253-16191885 chr19:16186982-16186983;chr19:16187507-16187508;chr19:16191252-16191253 134;6 K intron_retention CUFF.1557 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 5;86 N jcn_only_AA CUFF.1621 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 277;36 K jcn_only_AD CUFF.1588,CUFF.1619 chr19 - chr19:51534178-51535131 chr19:51534178-51535035 chr19:51535036-51535131 chr19:51535131-51535132 36;63 N alternative_acceptor CUFF.1557 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 134;21 N alternative_acceptor CUFF.1618 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 14;283 N alternative_donor chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314066-49314240 chr19:49314240-49314241 19;80 N jcn_only_AD CUFF.1588 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 337;45 K cassette CUFF.1633 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 7;25 K alternative_last_exon CUFF.1607 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116165-49116564 chr19:49117429-49117884 96;67 K jcn_only_AD CUFF.1535 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 11;59 K intron_retention CUFF.1603 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 18;37 K jcn_only_AA CUFF.1565 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 11;79 N alternative_acceptor CUFF.1583 chr19 - chr19:33984244-34001933 chr19:33991908-34001933 chr19:33984244-33991907 chr19:33984243-33984244 72;2 N cassette CUFF.1565 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 7;202 N jcn_only_AD CUFF.1623 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 90;8 N jcn_only_AD chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 309;121 N jcn_only_AA CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 77;16 K intron_retention CUFF.1611 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 35;28 K intron_retention CUFF.1588 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 95;45 N alternative_donor CUFF.1536 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 322;41 N jcn_only_AA CUFF.1566 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 14;18 K jcn_only_AD CUFF.1533 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 88;278 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 37;56 K cassette CUFF.1533 chr19 + chr19:1438892-1440017 chr19:1438892-1439714;chr19:1439826-1440017 chr19:1439715-1439825 422;46 N jcn_only_AD CUFF.1577 chr19 - chr19:20243397-20349096;chr19:20243397-20261169 chr19:20243397-20351308 chr19:20261170-20349096;chr19:20349097-20351308 chr19:20349096-20349097;chr19:20351308-20351309 22;16 K coord_cassette CUFF.1606 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 21;183 K intron_retention CUFF.1578 chr19 - chr19:21637275-21639262 chr19:21637274-21637275;chr19:21639262-21639263 94;2 K intron_retention CUFF.1619 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 127;266 N alternative_acceptor chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 22;120 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 78;111 N alternative_acceptor CUFF.1578 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 21;5 N intron_retention chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 69;167 K intron_retention CUFF.1589 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 134;61 N cassette CUFF.1542 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 42;143 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17447967-17448816 chr19:17448474-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 244;13 K intron_retention CUFF.1578 chr19 - chr19:21638407-21639262 chr19:21638406-21638407;chr19:21639262-21639263 129;3 N alternative_acceptor CUFF.1536 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 68;18 K intron_retention CUFF.1557 chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 5;87 N alternative_donor CUFF.1566 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 107;0 N alternative_acceptor CUFF.1621 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 271;4 N alternative_acceptor chr19 - chr19:6192065-6199490;chr19:6192041-6199490 chr19:6176455-6199490 chr19:6176455-6192040;chr19:6192041-6192064 chr19:6176454-6176455;chr19:6192040-6192041 3;72 N alternative_acceptor CUFF.1565 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 116;1 K jcn_only_AD CUFF.1603 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 23;18 K cassette CUFF.1542 chr19 - chr19:6047516-6110403 chr19:6047516-6072015;chr19:6072159-6110403 chr19:6072016-6072158 114;62 N alternative_donor CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17448079-17448816;chr19:17448474-17448816;chr19:17447967-17448816 chr19:17445932-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 239;18 N jcn_only_AA CUFF.1602 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 36;30 N alternative_donor CUFF.1583,CUFF.1588 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 349;15 K alternative_last_exon CUFF.1566 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206238 208;32 N coord_cassette CUFF.1542 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 37;26 N alternative_donor CUFF.1570 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 93;0 N jcn_only_AD CUFF.1570 chr19 + chr19:17445921-17448816;chr19:17448386-17448816;chr19:17447844-17448816;chr19:17448457-17448816;chr19:17445932-17448816;chr19:17448079-17448816;chr19:17447967-17448816 chr19:17448474-17448816 chr19:17445921-17445931;chr19:17445932-17447843;chr19:17447844-17447966;chr19:17447967-17448078;chr19:17448079-17448385;chr19:17448386-17448456;chr19:17448457-17448473 chr19:17445920-17445921;chr19:17445931-17445932;chr19:17447843-17447844;chr19:17447966-17447967;chr19:17448078-17448079;chr19:17448385-17448386;chr19:17448456-17448457 581;70 N alternative_acceptor CUFF.1566 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 14;11 N cassette CUFF.1556 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 13;71 N jcn_only_AD CUFF.1623 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 50;48 K intron_retention CUFF.1606 chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 88;8 N jcn_only_AA CUFF.1570 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 15;135 K intron_retention CUFF.1606 chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 8;76 N alternative_donor CUFF.1556,CUFF.1595 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 chr19:41939177-41939441 chr19:41939441-41939442 48;33 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 10;8 N intron_retention chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 26;58 K intron_retention CUFF.1533 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 278;13 N jcn_only_AA CUFF.1579,CUFF.1621 chr19 + chr19:32851525-32873372 chr19:32851525-32871514 chr19:32871515-32873372 chr19:32873372-32873373 20;18 N jcn_only_AD CUFF.1570 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 9;124 K alternative_first_exon CUFF.1603 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254484-45254637 chr19:45258388-45258731 35;28 N alternative_donor CUFF.1583,CUFF.1619 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 87;9 K intron_retention CUFF.1619 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 388;5 N jcn_only_AA chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 56;9 K jcn_only_AD CUFF.1557 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 5;5 N jcn_only_AD CUFF.1570 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 93;11 K intron_retention CUFF.1602 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 44;19 N alternative_donor CUFF.1583,CUFF.1619 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 388;14 K intron_retention CUFF.1573 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 48;9 N cassette CUFF.1606 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 207;150 N jcn_only_AD CUFF.1546,CUFF.1583 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 219;12 N jcn_only_AA CUFF.1633 chr19 - chr19:56307617-56312937;chr19:56309671-56312937 chr19:56312543-56312937 chr19:56307617-56309670;chr19:56309671-56312542 chr19:56307616-56307617;chr19:56309670-56309671 39;4 N alternative_donor CUFF.1635 chr19 + chr19:58963072-58965062;chr19:58964634-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963121-58965062 chr19:58963072-58963110;chr19:58963111-58963120;chr19:58963121-58964149;chr19:58964150-58964633 chr19:58963071-58963072;chr19:58963110-58963111;chr19:58963120-58963121;chr19:58964149-58964150 71;4 N cassette CUFF.1583 chr19 - chr19:33984244-34003498 chr19:33984244-34001933;chr19:34002062-34003498 chr19:34001934-34002061 21;53 N cassette CUFF.1477 chr18 + chr18:166820-180235;chr18:163454-180235 chr18:163454-178932,chr18:166820-178932;chr18:179038-180235 chr18:178933-179037 80;9 N jcn_only_AA CUFF.1522 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 31;11 N alternative_donor CUFF.1493 chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 87;1 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55758860-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 232;10 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713021-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 89;3 N jcn_only_AD CUFF.1515 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 18;38 N jcn_only_AD chr18 - chr18:44483597-44484064;chr18:44483597-44486189 chr18:44483597-44500021 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 120;77 N jcn_only_AD CUFF.1477 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158715-159021 chr18:158714-158715 23;13 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55714743-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 234;9 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55711941-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 170;72 N alternative_donor CUFF.1497 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 157;2 N alternative_donor CUFF.1528 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77440262-77441517 chr18:77440261-77440262 50;4 K jcn_only_AA CUFF.1522 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 11;107 K intron_retention CUFF.1477 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 179;23 N jcn_only_AA CUFF.1483 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 52;72 N jcn_only_AD CUFF.1493 chr18 - chr18:44483597-44486189;chr18:44483597-44500021 chr18:44483597-44484064 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 88;109 N alternative_acceptor CUFF.1493 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 227;10 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55758860-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 92;0 K jcn_only_AD CUFF.1480 chr18 + chr18:11981130-11999052 chr18:11981205-11999052 chr18:11981130-11981204 chr18:11981129-11981130 13;24 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55712848-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 90;2 N jcn_only_AA CUFF.1522 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 24;72 N alternative_first_exon CUFF.1497 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711525-55711940 chr18:56056317-56056424 42;185 N jcn_only_AD CUFF.1530 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 231;63 N coord_cassette CUFF.1497 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 22;57 K alternative_last_exon CUFF.1493 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398384-44398410 132;103 K jcn_only_AD CUFF.1483 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 159;16 N jcn_only_AD CUFF.1497 chr18 + chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55816802-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 222;20 K alternative_first_exon CUFF.1496 chr18 - chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47337765 chr18:47329224-47339094 chr18:47340102-47340330;chr18:47337766-47337987 chr18:47339095-47339445 115;38 N alternative_acceptor chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 14;0 K intron_retention CUFF.1492 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 75;35 K alternative_donor CUFF.1483 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 159;35 N alternative_acceptor CUFF.1497 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 85;9 K intron_retention CUFF.1519 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 98;9 K intron_retention CUFF.1480 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 128;21 K mutually_exclusive CUFF.1477 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 7;66 N cassette CUFF.1480 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 11;181 K cassette CUFF.1506 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 79;4 N jcn_only_AD CUFF.1525 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 754;3 N jcn_only_AD CUFF.1497 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 193;126 K jcn_only_AA CUFF.1483,CUFF.1520 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 16;81 N alternative_donor CUFF.1497 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 4;10 N jcn_only_AA chr18 - chr18:44483597-44486189 chr18:44484170-44486189 chr18:44483597-44484169 chr18:44483596-44483597 11;74 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 34;5 N jcn_only_AD chr18 - chr18:76737430-76738785;chr18:76737430-76737554 chr18:76737430-76738462 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 35;42 K alternative_first_exon CUFF.1480 chr18 + chr18:11981130-11999052,chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981012-11981129 chr18:11981358-11981764 32;153 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 3;66 N jcn_only_AA chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 14;19 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55712848-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 229;14 N mutually_exclusive CUFF.1493 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 73;59 N alternative_donor CUFF.1497 chr18 + chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55816802-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 92;0 N alternative_donor CUFF.1497 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1097;4 K cassette CUFF.1480 chr18 + chr18:12014373-12028041 chr18:12014373-12021700;chr18:12021822-12028041 chr18:12021701-12021821 152;28 N jcn_only_AA CUFF.1492 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 3;75 K jcn_only_AD CUFF.1496 chr18 - chr18:47329224-47340101;chr18:47329224-47339838 chr18:47329224-47340051 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 31;64 N alternative_acceptor CUFF.1530 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 231;4 N alternative_donor CUFF.1525,CUFF.1527 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 32;7 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55711941-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 20;72 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 24;16 N alternative_first_exon chr18 - chr18:44486279-44497964;chr18:44486279-44500021 chr18:44486279-44497284 chr18:44500022-44500204 chr18:44497285-44497552 132;25 N jcn_only_AD CUFF.1497 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 1097;12 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019 chr18:55722109-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 92;0 N jcn_only_AA CUFF.1530 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 231;37 N jcn_only_AA CUFF.1522 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 20;22 N cassette CUFF.1493 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 9;133 N jcn_only_AD CUFF.1525 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 187;571 N coord_cassette CUFF.1492 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 29;17 N cassette CUFF.1528 chr18 + chr18:77489070-77513651 chr18:77489070-77496354;chr18:77496522-77513651 chr18:77496355-77496521 5;99 N cassette CUFF.1497 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 52;38 K jcn_only_AA CUFF.1512 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 52;14 K alternative_first_exon CUFF.1520 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417452-63417616 chr18:63417841-63418386 2;10 N alternative_donor chr18 - chr18:76737430-76738785;chr18:76737430-76737554 chr18:76737430-76738462 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 20;19 N alternative_donor CUFF.1530 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 231;13 N jcn_only_AA CUFF.1493 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 227;27 N alternative_donor CUFF.1525 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 93;571 K cassette CUFF.1492 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 3;23 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55722109-55833019 chr18:55816792-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 92;0 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55722109-55833019 chr18:55816792-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 231;11 N cassette CUFF.1515 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 16;274 K alternative_first_exon CUFF.1485 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728271-14728513 chr18:14796342-14796414 3;3 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55714743-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 91;1 N cassette CUFF.1493 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 55;281 N alternative_donor CUFF.1477 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158715-159021 chr18:158714-158715 23;15 K alternative_first_exon CUFF.1522 chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624455 chr18:67613970-67614305 37;60 N jcn_only_AD CUFF.1528 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77440262-77441517 chr18:77440261-77440262 50;14 N jcn_only_AD CUFF.1497 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 994;39 N alternative_donor CUFF.1497 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 994;0 N cassette CUFF.1497 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 22;110 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 34;24 N coord_cassette CUFF.1492 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 24;24 N jcn_only_AD CUFF.1515 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 323;78 K cassette CUFF.1480 chr18 + chr18:11999187-12009881 chr18:11999187-12008331;chr18:12008591-12009881 chr18:12008332-12008590 168;58 N alternative_donor CUFF.1497 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 193;20 N alternative_donor chr18 - chr18:44483597-44484064;chr18:44483597-44486189 chr18:44483597-44500021 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 11;77 K jcn_only_AA CUFF.1521 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 27;12 N alternative_donor CUFF.1527 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 26;13 K alternative_first_exon CUFF.1530 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867575-77867905 89;108 K alternative_last_exon CUFF.1520 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63476940-63477235 chr18:63470351-63471046 17;47 K alternative_donor CUFF.1496 chr18 - chr18:47329224-47340051;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 62;7 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 36;1 K alternative_donor CUFF.1530 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 130;60 N intron_retention CUFF.1493 chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 11;15 N jcn_only_AD CUFF.1525 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 574;184 N alternative_first_exon CUFF.1493,CUFF.1522 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67628828-67629124 chr18:67623991-67624455 36;13 N cassette CUFF.1497 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 7;759 N alternative_donor CUFF.1493 chr18 - chr18:44483597-44486189;chr18:44483597-44500021 chr18:44483597-44484064 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 78;10 N cassette CUFF.1477 chr18 + chr18:163454-178932;chr18:163454-180235 chr18:163454-166786;chr18:166820-180235,chr18:166820-178932 chr18:166787-166819 14;67 K jcn_only_AD CUFF.1496 chr18 - chr18:47329224-47340051;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 86;9 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713021-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 225;18 N jcn_only_AA CUFF.1497 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 85;18 N alternative_donor CUFF.1515 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 323;0 K alternative_acceptor CUFF.1512 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 52;7 N alternative_acceptor CUFF.1492 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 3;88 K alternative_first_exon CUFF.1496 chr18 - chr18:47329224-47340186;chr18:47329224-47340101,chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47339094 chr18:47329224-47337765 chr18:47340102-47340330;chr18:47339095-47339445 chr18:47337766-47337987 138;15 N jcn_only_AD CUFF.1527 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 64;13 K cassette CUFF.1512 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 37;33 K intron_retention CUFF.1483 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 159;21 N alternative_donor CUFF.1525 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 663;1 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55713251-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019 chr18:55722109-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 238;5 K cassette CUFF.1493 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483599-44497284 chr18:44483490-44483598 94;193 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 34;16 K cassette CUFF.1528 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 45;45 N cassette CUFF.1492 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 24;37 N jcn_only_AD CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713251-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 159;84 N jcn_only_AA chr18 + chr18:61377596-61390228 chr18:61377596-61378568 18;379 K cassette CUFF.1512 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 38;18 N cassette CUFF.1497 chr18 + chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061;chr18:55895140-55912658 chr18:55895062-55895139 129;751 K alternative_acceptor CUFF.1483,CUFF.1520 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 16;46 N jcn_only_AA CUFF.1522 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 45;19 N alternative_acceptor CUFF.1522 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 24;68 N jcn_only_AD CUFF.1497 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 157;12 N alternative_acceptor CUFF.1522 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 45;0 K alternative_first_exon CUFF.1497 chr18 + chr18:55862966-55895061;chr18:55833094-55895061 chr18:55888990-55895061 chr18:55833020-55833093 chr18:55888718-55888989 71;862 N alternative_acceptor chr18 - chr18:44483597-44486189 chr18:44484170-44486189 chr18:44483597-44484169 chr18:44483596-44483597 11;17 K alternative_acceptor CUFF.1521 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 27;8 N jcn_only_AD CUFF.1525,CUFF.1527 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 55;22 K alternative_first_exon CUFF.1496,CUFF.1522 chr18 - chr18:47329224-47340186;chr18:47329224-47339094;chr18:47329224-47337765 chr18:47329224-47340101,chr18:47329224-47340051,chr18:47329224-47339838 chr18:47339095-47339445;chr18:47337766-47337987 chr18:47340102-47340330 59;94 K alternative_donor CUFF.1496 chr18 - chr18:47329224-47340101;chr18:47329224-47339838 chr18:47329224-47340051 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 29;40 N cassette CUFF.1477 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 12;69 K alternative_donor CUFF.1480 chr18 + chr18:11981130-11999052 chr18:11981205-11999052 chr18:11981130-11981204 chr18:11981129-11981130 13;23 K cassette CUFF.1493 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 130;80 K cassette CUFF.1477 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 96;55 N jcn_only_AA CUFF.1522 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 33;9 K intron_retention CUFF.1493 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 276;13 K intron_retention CUFF.1497 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 262;9 K jcn_only_AD CUFF.1496 chr18 - chr18:47329224-47340051;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 73;22 N coord_cassette CUFF.1477 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-178932;chr18:179038-180235 chr18:166787-166819;chr18:178933-179037 6;1 N jcn_only_AA CUFF.1493 chr18 - chr18:44483597-44500021 chr18:44486279-44500021 chr18:44483597-44486278 chr18:44483596-44483597 77;16 N intron_retention chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 10;51 N alternative_donor CUFF.1497 chr18 + chr18:55816802-55833019;chr18:55711941-55833019;chr18:55758860-55833019;chr18:55713021-55833019;chr18:55712848-55833019;chr18:55714743-55833019;chr18:55816792-55833019;chr18:55722109-55833019 chr18:55713251-55833019 chr18:55711941-55712847;chr18:55712848-55713020;chr18:55713021-55713250;chr18:55713251-55714742;chr18:55714743-55722108;chr18:55722109-55758859;chr18:55758860-55816791;chr18:55816792-55816801 chr18:55711940-55711941;chr18:55712847-55712848;chr18:55713020-55713021;chr18:55713250-55713251;chr18:55714742-55714743;chr18:55722108-55722109;chr18:55758859-55758860;chr18:55816791-55816792 78;14 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 36;106 K alternative_last_exon CUFF.1478 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807932-4807994 12;31 N alternative_acceptor CUFF.1493 chr18 - chr18:44483597-44500021 chr18:44486279-44500021 chr18:44483597-44486278 chr18:44483596-44483597 77;10 N alternative_donor CUFF.1525 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 572;92 N jcn_only_AD CUFF.1497 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 4;75 K alternative_donor CUFF.1496 chr18 - chr18:47329224-47340051;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47339839-47340051;chr18:47340052-47340101 chr18:47340051-47340052;chr18:47340101-47340102 47;22 N mutually_exclusive CUFF.1528 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 59;5 N jcn_only_AD CUFF.1493 chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 186;11 K jcn_only_AD CUFF.1530 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 130;106 N jcn_only_AD CUFF.1768 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 45;8 N jcn_only_AA CUFF.1738 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 71;26 N jcn_only_AD CUFF.1718,CUFF.1753 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 29;6 K cassette CUFF.1743 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 178;41 K alternative_acceptor CUFF.1719 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 15;28 K jcn_only_AD CUFF.1740 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 36;79 K intron_retention CUFF.1730 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 138;8 K intron_retention CUFF.1718 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 98;7 N jcn_only_AD CUFF.1768 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 43;10 N alternative_donor CUFF.1772 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 7;9 N alternative_acceptor CUFF.1758 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119271100-119378618 chrX:119374209-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 7;0 K jcn_only_AD CUFF.1753 chrX - chrX:106224708-106235517 chrX:106224708-106228325 5;14 K intron_retention CUFF.1724 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 88;5 K intron_retention CUFF.1733 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 21;18 N alternative_acceptor CUFF.1757 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 12;1 K alternative_last_exon CUFF.1753 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106057055-106059016;chrX:106229213-106229430 chrX:106235518-106235660 35;4 K intron_retention CUFF.1743 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 65;4 K intron_retention CUFF.1722 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 170;7 N jcn_only_AD CUFF.1724 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 103;4 N jcn_only_AD CUFF.1749 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 27;99 N jcn_only_AD CUFF.1772 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 26;7 K cassette CUFF.1747 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 159;12 N alternative_donor CUFF.1730,CUFF.1731 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 12;6 N alternative_donor CUFF.1754 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 88;12 K cassette CUFF.1724 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 88;108 N jcn_only_AD CUFF.1754 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 88;15 N alternative_donor CUFF.1719,CUFF.1722 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 335;8 N intron_retention chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 53;25 K alternative_first_exon CUFF.1725 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699311-15706783 chrX:15693055-15693091;chrX:15693813-15693901 chrX:15699124-15699310 chrX:15706784-15706981 109;43 K alternative_last_exon CUFF.1753 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106057055-106059016;chrX:106235518-106235660 chrX:106229213-106229430 29;10 K jcn_only_AD CUFF.1763 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 4;35 K alternative_donor CUFF.1770 chrX - chrX:152988744-152989788;chrX:152988744-152989655 chrX:152988744-152989941 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 44;95 N alternative_donor CUFF.1718 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 26;3 K alternative_last_exon CUFF.1749 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85116173-85118099 chrX:85236741-85236813 99;7 K jcn_only_AA CUFF.1719 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 15;36 K cassette CUFF.1740 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 11;48 K intron_retention CUFF.1763 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 4;15 K cassette CUFF.1740 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 109;22 N alternative_donor CUFF.1718 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 23;6 N alternative_donor CUFF.1768 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 4;35 K intron_retention CUFF.1773 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 1049;8 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 8;4 N jcn_only_AD CUFF.1743,CUFF.1749 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 177;41 K jcn_only_AA CUFF.1736 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 30;8 K intron_retention CUFF.1753 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 29;12 N jcn_only_AA CUFF.1758 chrX - chrX:119312412-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119355498-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 22;86 N cassette CUFF.1754 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 34;61 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 13;26 K intron_retention CUFF.1749 chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 7;28 N jcn_only_AA CUFF.1731 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 64;69 K jcn_only_AD CUFF.1736 chrX + chrX:45129987-45184737 chrX:45184464-45184737 19;55 N jcn_only_AD CUFF.1765 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 15;5 N jcn_only_AD CUFF.1773 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 6;905 K intron_retention CUFF.1718 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 91;6 N alternative_donor CUFF.1773 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 6;455 N alternative_acceptor CUFF.1738 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 9;1 K intron_retention CUFF.1770 chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 95;11 K intron_retention CUFF.1730 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 108;12 K alternative_acceptor CUFF.1731 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 56;19 N alternative_donor CUFF.1765 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193765-134250852 chrX:134193764-134193765 15;0 N alternative_acceptor CUFF.1725,CUFF.1736 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 chrX:15706784-15706981;chrX:15711086-15711181 301;1 K alternative_first_exon CUFF.1736 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042419-45042589 chrX:45182792-45182892 31;36 N alternative_donor CUFF.1724 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 26;39 N alternative_acceptor CUFF.1738 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 3;3 K coord_cassette CUFF.1722 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13830989;chrX:13831028-13834962 chrX:13825769-13825888;chrX:13830990-13831027 86;77 N jcn_only_AD CUFF.1768 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 18;35 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 8;13 K intron_retention CUFF.1770 chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 86;11 N alternative_acceptor CUFF.1738 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 6;0 N alternative_acceptor CUFF.1758 chrX - chrX:119355498-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119312412-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 7;0 K alternative_last_exon CUFF.1763,CUFF.1767 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654534 chrX:133634060-133634698 9;15 N jcn_only_AD CUFF.1718 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 32;7 N jcn_only_AA chrX + chrX:47035986-47040613 chrX:47035986-47038501 6;88 N alternative_donor CUFF.1724 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 181;24 N intron_retention chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 26;31 N jcn_only_AD CUFF.1719,CUFF.1722 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 335;95 K alternative_acceptor CUFF.1736 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 30;8 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 6;44 N alternative_donor CUFF.1718,CUFF.1753 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 29;9 N alternative_donor CUFF.1738 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 27;0 K alternative_donor CUFF.1770 chrX - chrX:152988744-152989941;chrX:152988744-152989655 chrX:152988744-152989788 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 101;38 K cassette CUFF.1722 chrX - chrX:13825889-13834962 chrX:13825889-13830989;chrX:13831028-13834962 chrX:13830990-13831027 22;87 N intron_retention CUFF.1753 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 6;13 N alternative_donor CUFF.1754 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 121;9 N jcn_only_AD chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 13;27 N cassette CUFF.1773 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 27;717 K jcn_only_AD CUFF.1770 chrX - chrX:152988744-152989788;chrX:152988744-152989655 chrX:152988744-152989941 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 95;95 K alternative_last_exon CUFF.1725 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721847;chrX:15713794-15713856 chrX:15715363-15715903 chrX:15711086-15711181 99;186 K alternative_acceptor CUFF.1740,CUFF.1767 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 9;9 N jcn_only_AD CUFF.1731 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 120;19 K intron_retention CUFF.1749 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 9;20 K alternative_last_exon CUFF.1749 chrX - chrX:85219058-85233770 chrX:85226591-85233770 chrX:85218670-85219057 chrX:85224088-85226590 2;32 K alternative_last_exon CUFF.1725 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721847;chrX:15715363-15715903 chrX:15713794-15713856 chrX:15711086-15711181 228;57 N jcn_only_AD CUFF.1740 chrX + chrX:47035986-47040613 chrX:47039906-47040613 6;125 K alternative_first_exon CUFF.1731 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237169 85;95 N alternative_donor CUFF.1749 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 27;1 K alternative_last_exon CUFF.1753 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106235518-106235660;chrX:106229213-106229430 chrX:106057055-106059016 14;25 N jcn_only_AD CUFF.1754 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 121;8 K alternative_last_exon CUFF.1725 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715903 chrX:15720905-15721847 chrX:15711086-15711181 243;42 N jcn_only_AD CUFF.1772 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 28;6 K jcn_only_AA CUFF.1731 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 56;4 K cassette CUFF.1722 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 86;57 K alternative_first_exon CUFF.1719 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645816 chrX:10588330-10588680 77;87 N jcn_only_AA chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 27;5 N alternative_donor CUFF.1743,CUFF.1749 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 177;21 K alternative_last_exon CUFF.1749 chrX - chrX:85219058-85302487 chrX:85282562-85302487 chrX:85218670-85219057 chrX:85281952-85282561 24;111 K cassette CUFF.1750 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 9;18 K cassette CUFF.1754 chrX + chrX:107369418-107372010 chrX:107369418-107370022;chrX:107370325-107372010 chrX:107370023-107370324 54;34 N alternative_donor CUFF.1724 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 32;173 K alternative_first_exon CUFF.1730,CUFF.1753 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955623-19955650 chrX:19955536-19955585 12;6 N alternative_donor CUFF.1772 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 16;0 N jcn_only_AD CUFF.1724 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 82;24 K alternative_first_exon CUFF.1725 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693902-15706783;chrX:15699311-15706783 chrX:15693092-15706783 chrX:15693813-15693901;chrX:15699124-15699310 chrX:15693055-15693091 chrX:15706784-15706981 84;68 N jcn_only_AD CUFF.1738 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46382372-46387769 chrX:46387769-46387770 9;14 K alternative_donor CUFF.1740 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 36;39 K jcn_only_AA CUFF.1718 chrX - chrX:9050777-9130837 chrX:9130355-9130837 23;12 K jcn_only_AA CUFF.1740,CUFF.1767 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 9;18 K alternative_last_exon CUFF.1722 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13789114-13791149 chrX:13792073-13792743 83;81 K cassette CUFF.1730 chrX - chrX:19935453-19947902 chrX:19935453-19936189;chrX:19936218-19947902 chrX:19936190-19936217 20;8 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 12;59 K alternative_first_exon CUFF.1718 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9050620-9050776 chrX:9001893-9002249 23;79 K intron_retention CUFF.1722 chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 99;22 K mutually_exclusive CUFF.1718 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 90;8 N jcn_only_AA CUFF.1738 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 29;68 N jcn_only_AD CUFF.1757 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 12;10 N alternative_donor CUFF.1731 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 120;0 K cassette CUFF.1724 chrX - chrX:15344169-15353622 chrX:15344169-15349995;chrX:15350115-15353622 chrX:15349996-15350114 4;86 N jcn_only_AA CUFF.1725,CUFF.1736 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 chrX:15706784-15706981;chrX:15711086-15711181 301;12 N jcn_only_AA CUFF.1757 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 12;11 N jcn_only_AD CUFF.1724 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 26;53 N cassette CUFF.1724 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 6;167 K alternative_last_exon CUFF.1730 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19947098-19948772 chrX:19953927-19954016 46;9 K mutually_exclusive CUFF.1724 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 122;5 N intron_retention chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 34;102 N alternative_acceptor CUFF.1758 chrX - chrX:119312412-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119355498-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 7;0 N alternative_donor CUFF.1722 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 415;3 N cassette CUFF.1754 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 31;65 N jcn_only_AD CUFF.1718 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 34;6 K intron_retention CUFF.1754 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 88;9 N alternative_acceptor CUFF.1731 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 64;46 N jcn_only_AD CUFF.1772 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 13;20 N alternative_donor CUFF.1768 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 39;0 N alternative_acceptor CUFF.1758 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119374209-119378618 chrX:119271100-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 0;7 K jcn_only_AD CUFF.1770 chrX - chrX:152988744-152989788;chrX:152988744-152989941 chrX:152988744-152989655 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 181;9 K intron_retention CUFF.1730 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 107;12 N alternative_acceptor CUFF.1738 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 3;3 K alternative_first_exon CUFF.1725 chrX + chrX:15699171-15706783,chrX:15693696-15706783;chrX:15693092-15706783;chrX:15699311-15706783 chrX:15693902-15706783 chrX:15693055-15693091;chrX:15699124-15699310 chrX:15693813-15693901 chrX:15706784-15706981 130;22 N coord_cassette CUFF.1754 chrX + chrX:107369418-107374489 chrX:107369418-107370022;chrX:107370325-107372010;chrX:107372083-107374489 chrX:107370023-107370324;chrX:107372011-107372082 34;30 N jcn_only_AA CUFF.1758 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119374209-119378618 chrX:119271100-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 101;7 N jcn_only_AD CUFF.1722 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 415;16 N alternative_donor CUFF.1757 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 12;1 N jcn_only_AA CUFF.1738 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 9;53 K cassette CUFF.1747 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 31;66 N jcn_only_AA CUFF.1758 chrX - chrX:119355498-119378618;chrX:119271100-119378618;chrX:119374209-119378618 chrX:119312412-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 105;3 K jcn_only_AD CUFF.1770 chrX - chrX:152988744-152989941;chrX:152988744-152989655 chrX:152988744-152989788 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 103;86 K alternative_donor CUFF.1763 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 4;32 K alternative_first_exon CUFF.1731,CUFF.1749 chrX - chrX:85219058-85302487 chrX:85219058-85233770 chrX:85302488-85302635 chrX:85233771-85233897 15;2 N coord_cassette CUFF.1754 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 27;74 K alternative_first_exon CUFF.1730,CUFF.1770 chrX - chrX:152988744-152988962,chrX:152988744-152989470;chrX:152988744-152989941,chrX:152988744-152989788,chrX:152988744-152989655 chrX:152988744-152989409 chrX:152989410-152989641 212;21 N intron_retention CUFF.1770 chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 19;10 N jcn_only_AD CUFF.1730,CUFF.1731 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 12;10 N jcn_only_AA CUFF.1758 chrX - chrX:119312412-119378618;chrX:119355498-119378618;chrX:119271100-119378618 chrX:119374209-119378618 chrX:119271100-119312411;chrX:119312412-119355497;chrX:119355498-119374208 chrX:119271099-119271100;chrX:119312411-119312412;chrX:119355497-119355498 95;13 N alternative_donor chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 9;20 K alternative_first_exon CUFF.1749 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302488-85302635 chrX:85302251-85302344 68;9 N cassette CUFF.1756 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 3;1 N jcn_only_AA CUFF.1738 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 93;3 K alternative_donor CUFF.1770 chrX - chrX:152988744-152989788;chrX:152988744-152989941 chrX:152988744-152989655 chrX:152989656-152989788;chrX:152989789-152989941 chrX:152989788-152989789;chrX:152989941-152989942 133;6 N alternative_first_exon CUFF.1747 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003121-78003531 chrX:78006707-78006808 12;30 N alternative_donor CUFF.1724 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 197;8 N alternative_donor CUFF.1768 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 35;4 N jcn_only_AD CUFF.1724 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 29;78 N jcn_only_AD chrX + chrX:78010323-78455897 chrX:78010326-78455897 1;3 N alternative_donor CUFF.1772 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 9;7 K mutually_exclusive CUFF.1711 chr22 + chr22:47308085-47370185,chr22:47370296-47393529 chr22:47308085-47309229,chr22:47309343-47393529 chr22:47370186-47370295 chr22:47309230-47309342 48;42 K intron_retention CUFF.1699 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 88;10 K cassette CUFF.1708 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 142;416 N alternative_donor CUFF.1687 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 17;148 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 9;19 N alternative_donor chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 44;6 N alternative_acceptor chr22 + chr22:37697061-37697921;chr22:37697061-37697975 chr22:37697061-37699294 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 4;175 N cassette CUFF.1711 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 21;84 K intron_retention chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 35;6 N intron_retention chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 7;39 N jcn_only_AD CUFF.1683 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 114;7 N alternative_acceptor chr22 + chr22:29684776-29686401;chr22:29684776-29687553 chr22:29684776-29687550 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 73;18 K intron_retention CUFF.1677 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 187;33 K cassette CUFF.1677 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 76;100 K cassette CUFF.1682 chr22 + chr22:20755049-20759666 chr22:20755049-20755566;chr22:20755663-20759666 chr22:20755567-20755662 5;38 N alternative_acceptor CUFF.1694 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 70;18 N jcn_only_AA CUFF.1677 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 139;18 K intron_retention CUFF.1699 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 55;56 N alternative_donor CUFF.1689 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 32;0 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 18;4 K alternative_acceptor CUFF.1694 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 25;273 N intron_retention chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 128;25 K intron_retention chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 12;49 N alternative_acceptor CUFF.1693 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 27;0 N alternative_donor chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 9;14 N jcn_only_AA chr22 + chr22:29684776-29686401;chr22:29684776-29687553 chr22:29684776-29687550 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 73;35 N mutually_exclusive CUFF.1711 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 18;7 N alternative_acceptor CUFF.1689 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 32;0 N alternative_acceptor chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 31;39 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 101;6 K intron_retention CUFF.1712 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 77;12 K intron_retention CUFF.1699 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 73;22 K alternative_first_exon CUFF.1687 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700327-24700420 82;29 N jcn_only_AD CUFF.1704 chr22 + chr22:37697061-37699294 chr22:37698073-37699294 chr22:37697061-37698072 chr22:37697060-37697061 175;5 N coord_cassette CUFF.1682 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20755566;chr22:20755663-20759666 chr22:20754922-20755048;chr22:20755567-20755662 9;26 N jcn_only_AA CUFF.1684 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 53;18 N jcn_only_AD CUFF.1704 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 167;15 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 5;49 N alternative_acceptor CUFF.1704 chr22 + chr22:37697061-37699294;chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 176;3 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 20;87 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 16;26 N intron_retention chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 42;6 N jcn_only_AD CUFF.1687 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 17;95 K alternative_donor CUFF.1682 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 6;36 N cassette CUFF.1711 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 7;83 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 44;14 K jcn_only_AA CUFF.1699 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 18;91 K intron_retention CUFF.1683 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 114;32 N cassette CUFF.1694 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 84;299 N jcn_only_AA CUFF.1694 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 6;80 K alternative_donor CUFF.1678 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 64;21 N alternative_acceptor CUFF.1694 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 76;12 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 16;2 N alternative_acceptor chr22 + chr22:29669854-29670256;chr22:29669854-29670253 chr22:29669854-29674018 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 13;356 N jcn_only_AA chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 31;13 N coord_cassette CUFF.1711 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 12;31 N alternative_first_exon CUFF.1711 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158433-47158745 chr22:47159153-47159228 10;35 N alternative_donor CUFF.1704 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 163;0 N jcn_only_AD CUFF.1704 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 163;3 N jcn_only_AA CUFF.1684 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 94;10 N alternative_acceptor CUFF.1704 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 191;6 K intron_retention CUFF.1682 chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 6;12 N jcn_only_AD CUFF.1712 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 68;12 N jcn_only_AA CUFF.1694 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 113;97 N jcn_only_AD chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 65;102 N jcn_only_AD CUFF.1694 chr22 + chr22:29669854-29674018 chr22:29670272-29674018 chr22:29669854-29670271 chr22:29669853-29669854 356;144 N jcn_only_AD chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 18;101 N cassette CUFF.1712 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 7;38 K jcn_only_AA CUFF.1689 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 47;16 N jcn_only_AA CUFF.1704 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 201;25 N jcn_only_AA CUFF.1694 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 261;144 N alternative_acceptor CUFF.1694 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 30;58 N jcn_only_AA chr22 - chr22:21841217-21841853 chr22:21841265-21841853 100;27 K jcn_only_AA CUFF.1694 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 25;554 N alternative_first_exon CUFF.1708 chr22 + chr22:45162070-45182336,chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45122515-45182336 chr22:45148508-45182336 chr22:45130907-45131042;chr22:45122457-45122514 chr22:45148359-45148507 126;215 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 4;3 K cassette CUFF.1708 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 418;142 N intron_retention chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 11;75 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 11;14 N alternative_donor CUFF.1683 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 114;30 N intron_retention chr22 - chr22:51016364-51016977 chr22:51016363-51016364;chr22:51016977-51016978 24;7 N cassette CUFF.1682 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 10;25 N jcn_only_AA CUFF.1693 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 27;14 N jcn_only_AA chr22 + chr22:45122515-45182336 chr22:45122515-45127609 72;21 N coord_cassette CUFF.1712 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 35;63 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 42;78 N jcn_only_AD CUFF.1694 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 638;9 K mutually_exclusive CUFF.1708 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 122;14 N jcn_only_AD chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 103;18 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 7;190 N jcn_only_AA CUFF.1694 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 347;58 K jcn_only_AD CUFF.1678 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 64;26 N cassette CUFF.1683 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 22;26 N alternative_donor CUFF.1694 chr22 + chr22:29669854-29674018 chr22:29670272-29674018 chr22:29669854-29670271 chr22:29669853-29669854 356;34 N jcn_only_AD CUFF.1694 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 119;128 N jcn_only_AA CUFF.1694 chr22 + chr22:29669854-29670256;chr22:29669854-29674018 chr22:29669854-29670253 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 381;228 N intron_retention chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 9;82 N intron_retention CUFF.1712 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 12;13 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 12;31 N jcn_only_AD chr22 - chr22:21846384-21871613 chr22:21846384-21868422 5;19 N cassette CUFF.1687 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 18;7 N alternative_acceptor CUFF.1689 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 34;0 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 13;26 K intron_retention CUFF.1712 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 94;22 N intron_retention CUFF.1682 chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 3;25 N alternative_first_exon CUFF.1708 chr22 + chr22:45162070-45182336,chr22:45181982-45182336,chr22:45173110-45182336;chr22:45148508-45182336;chr22:45122515-45182336 chr22:45131043-45182336 chr22:45148359-45148507;chr22:45122457-45122514 chr22:45130907-45131042 325;16 N jcn_only_AA CUFF.1704 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 215;10 N jcn_only_AA CUFF.1712 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 13;94 N jcn_only_AD CUFF.1689 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 32;4 N jcn_only_AD CUFF.1683 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 14;14 N alternative_donor CUFF.1712 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 68;15 K intron_retention CUFF.1683 chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 7;13 K intron_retention CUFF.1712 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 63;59 N jcn_only_AD CUFF.1712 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 61;29 N intron_retention chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 31;16 N intron_retention CUFF.1708 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 22;101 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 2;119 N intron_retention chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 19;47 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 10;68 N intron_retention chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 113;26 N jcn_only_AA CUFF.1694,CUFF.1704 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 163;2 N alternative_acceptor CUFF.1712 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 61;13 K intron_retention CUFF.1712 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 80;44 N jcn_only_AA CUFF.1694 chr22 + chr22:29684776-29686401;chr22:29684776-29687550 chr22:29684776-29687553 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 66;42 N alternative_first_exon CUFF.1708 chr22 + chr22:45162070-45182336,chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336 chr22:45122515-45182336 chr22:45130907-45131042;chr22:45148359-45148507 chr22:45122457-45122514 286;55 N alternative_donor CUFF.1689 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 34;1 N jcn_only_AA chr22 + chr22:29683124-29688125 chr22:29683124-29684594 6;281 N alternative_donor CUFF.1693 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 10;10 K jcn_only_AD CUFF.1682 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 6;26 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 26;86 N alternative_donor chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 65;62 N intron_retention chr22 - chr22:51009963-51010434 chr22:51009962-51009963;chr22:51010434-51010435 18;37 K cassette CUFF.1711 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188565-47188701 172;104 K intron_retention CUFF.1682 chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 44;9 K intron_retention CUFF.1694 chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 119;28 K intron_retention CUFF.1712 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 38;51 N alternative_donor CUFF.1704 chr22 + chr22:37697061-37699294 chr22:37698073-37699294 chr22:37697061-37698072 chr22:37697060-37697061 175;1 N alternative_donor CUFF.1683 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 14;15 N alternative_acceptor CUFF.1694 chr22 + chr22:29669854-29674018;chr22:29669854-29670253 chr22:29669854-29670256 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 368;1 K intron_retention CUFF.1678 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 64;19 K intron_retention chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 26;4 N jcn_only_AA CUFF.1704 chr22 + chr22:37697061-37697921;chr22:37697061-37699294 chr22:37697061-37697975 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 201;13 K alternative_acceptor CUFF.1689 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 47;8 N intron_retention chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 10;4 N alternative_donor CUFF.1694 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 638;4 N jcn_only_AD chr22 - chr22:30738869-30748939 chr22:30738869-30740921 20;45 N jcn_only_AA chr22 + chr22:29669854-29670256;chr22:29669854-29670253 chr22:29669854-29674018 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 254;356 N alternative_acceptor CUFF.1694 chr22 + chr22:29684776-29686401;chr22:29684776-29687550 chr22:29684776-29687553 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 49;42 N alternative_acceptor CUFF.1712 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 13;51 N jcn_only_AA CUFF.1689 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 32;2 K intron_retention CUFF.1683 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 41;15 N alternative_donor CUFF.1694 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 119;68 K intron_retention CUFF.1694 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 81;2 N jcn_only_AA CUFF.1704 chr22 + chr22:37697061-37699294;chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 188;26 N alternative_donor chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 18;17 N jcn_only_AA chr22 - chr22:21832391-21832873 chr22:21832451-21832873 58;58 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 96;24 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 35;24 N jcn_only_AA CUFF.1694 chr22 + chr22:29669854-29674018;chr22:29669854-29670253 chr22:29669854-29670256 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 584;26 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 53;13 N jcn_only_AD chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 9;13 N jcn_only_AA CUFF.1694 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 202;203 N alternative_acceptor CUFF.1684 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 53;14 N alternative_donor CUFF.1704 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 167;4 N cassette CUFF.1677 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 10;142 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 20;13 N cassette CUFF.1711 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 123;26 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 586;19 N alternative_acceptor CUFF.1708 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 321;4 K jcn_only_AD CUFF.1683 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 34;7 N jcn_only_AA CUFF.1699 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 20;55 K alternative_first_exon CUFF.1700 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731287-31731402 34;22 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 35;190 N alternative_acceptor CUFF.1694 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 113;56 N cassette CUFF.1708 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 38;496 K cassette CUFF.1683 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 13;36 N jcn_only_AA CUFF.1712 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 61;31 N alternative_acceptor CUFF.1694 chr22 + chr22:29669854-29670256;chr22:29669854-29674018 chr22:29669854-29670253 chr22:29670254-29670256;chr22:29670257-29674018 chr22:29670256-29670257;chr22:29674018-29674019 357;12 K alternative_last_exon CUFF.1690 chr22 + chr22:25855483-25915889;chr22:25855483-25905149 chr22:25855483-25856833 chr22:25905150-25905309 chr22:25856834-25857645 28;38 N alternative_acceptor CUFF.1704 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 196;1 N alternative_acceptor CUFF.1694 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 6;72 K cassette CUFF.1708 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 18;456 N alternative_acceptor CUFF.1712 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 18;50 K intron_retention CUFF.1704 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 171;3 K intron_retention CUFF.1712 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 68;14 N jcn_only_AD CUFF.1693 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 10;20 N cassette CUFF.1711 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 12;128 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 87;15 N alternative_acceptor CUFF.1684 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 94;5 N alternative_acceptor CUFF.1677 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 139;1 N alternative_acceptor CUFF.1694,CUFF.1704 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 60;31 N alternative_acceptor CUFF.1704 chr22 + chr22:37697061-37697921;chr22:37697061-37699294 chr22:37697061-37697975 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 178;1 K intron_retention chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 97;25 N jcn_only_AA CUFF.1694,CUFF.1704 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 77;31 N alternative_acceptor CUFF.1694,CUFF.1704 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 163;0 N cassette CUFF.1682 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 9;12 N jcn_only_AA chr22 + chr22:37697061-37697921;chr22:37697061-37697975 chr22:37697061-37699294 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 39;175 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 228;26 N jcn_only_AD CUFF.1689 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 34;4 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 53;76 N coord_cassette CUFF.1711 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188417-47188473;chr22:47188565-47188701 12;101 N jcn_only_AA CUFF.1712 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 18;96 N jcn_only_AA CUFF.1689 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 34;4 N alternative_donor CUFF.1712 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 61;8 N jcn_only_AA CUFF.1708 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 321;44 N jcn_only_AD CUFF.1694 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 6;81 K alternative_donor CUFF.1638 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 42;80 N cassette CUFF.1646 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 39;10 N jcn_only_AD CUFF.1663 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 11;5 K intron_retention CUFF.1655 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 113;57 N alternative_acceptor CUFF.1649,CUFF.1655 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 113;102 N cassette CUFF.1649 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 14;156 N jcn_only_AD CUFF.1638,CUFF.1663 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 13;3 K alternative_donor CUFF.1649 chr20 + chr20:30126065-30132749 chr20:30126163-30132749 chr20:30126065-30126162 chr20:30126064-30126065 153;53 N cassette CUFF.1649 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 23;242 K alternative_last_exon CUFF.1639 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303590-14308204 chr20:14309780-14309973 120;48 K jcn_only_AA CUFF.1659 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 18;43 K jcn_only_AD CUFF.1638 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 42;114 N cassette CUFF.1646 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 21;46 N alternative_acceptor CUFF.1661 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 7;88 K jcn_only_AD CUFF.1649 chr20 + chr20:30126065-30132749 chr20:30126163-30132749 chr20:30126065-30126162 chr20:30126064-30126065 153;76 N jcn_only_AA CUFF.1652 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 31;41 K cassette CUFF.1649 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 288;260 K alternative_last_exon CUFF.1653 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33122599 chr20:33117656-33118879 84;35 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 7;6 K jcn_only_AD CUFF.1648 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 17;19 N alternative_acceptor CUFF.1652 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 1;41 K jcn_only_AD CUFF.1636,CUFF.1648 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 29;63 N jcn_only_AD CUFF.1652 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.1637 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 53;134 N jcn_only_AA CUFF.1649,CUFF.1655 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 113;152 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 21;207 N cassette CUFF.1649 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 212;51 K alternative_acceptor CUFF.1636 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 63;26 K alternative_first_exon CUFF.1652 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071480 28;79 K intron_retention CUFF.1637 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 42;11 N alternative_donor CUFF.1655 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 4;13 N jcn_only_AD CUFF.1649 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 228;44 N jcn_only_AA CUFF.1652 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 5;5 N cassette CUFF.1649 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 15;518 N alternative_donor CUFF.1649 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 307;21 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 7;46 N alternative_donor CUFF.1653 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 86;5 N alternative_donor CUFF.1638,CUFF.1663 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 17;6 N alternative_donor CUFF.1636,CUFF.1652 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 cassette CUFF.1644 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 17;18 N alternative_acceptor CUFF.1652 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 41;1 K alternative_first_exon CUFF.1648,CUFF.1659 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016439 chr20:30011623-30011735 18;25 N alternative_donor CUFF.1644 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 4;12 K alternative_last_exon CUFF.1652 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052582-31052920 85;93 N jcn_only_AD CUFF.1653 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 86;16 K intron_retention CUFF.1655 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 168;123 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 7;10 N jcn_only_AD CUFF.1644 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21284112-21284485 chr20:21284111-21284112 4;42 K alternative_acceptor CUFF.1659 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 18;20 K coord_cassette CUFF.1637 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 15;18 N coord_cassette CUFF.1646 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 21;11 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 590;35 N jcn_only_AD CUFF.1637 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 23;51 N alternative_acceptor CUFF.1652 chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 5;0 N jcn_only_AA chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;12 N alternative_acceptor chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 21;122 N alternative_donor CUFF.1652 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 jcn_only_AA chr20 + chr20:2842351-2843710 chr20:2842351-2842450 23;54 N jcn_only_AD CUFF.1649 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 307;21 N cassette CUFF.1649 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126163-30132749 chr20:30125982-30126162 14;124 N cassette CUFF.1649 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 113;272 N cassette CUFF.1649 chr20 + chr20:30154099-30156922 chr20:30154099-30155442;chr20:30155610-30156922 chr20:30155443-30155609 212;27 K alternative_donor CUFF.1659 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 43;13 N alternative_donor CUFF.1655 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 302;75 N alternative_acceptor CUFF.1652 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 42;0 K alternative_donor CUFF.1653 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 68;74 K alternative_last_exon CUFF.1653,CUFF.1661 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570176 5;29 K jcn_only_AD CUFF.1659 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 43;22 K jcn_only_AA CUFF.1636 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 63;52 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 8;8 K jcn_only_AD CUFF.1653 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 68;52 N jcn_only_AD CUFF.1655 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 302;116 N jcn_only_AA CUFF.1652 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 56;16 N jcn_only_AD chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 24;5 N alternative_donor CUFF.1663 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 14;9 N jcn_only_AA CUFF.1652 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 57;15 N alternative_acceptor chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;1 K alternative_donor CUFF.1648 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 17;9 N jcn_only_AD CUFF.1655 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 4;12 N jcn_only_AA chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 21;834 N jcn_only_AA CUFF.1661 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 7;59 K alternative_donor CUFF.1636,CUFF.1648 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 29;99 N coord_cassette CUFF.1649 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 23;210 K coord_cassette CUFF.1649 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30155442;chr20:30155610-30156922 chr20:30154013-30154098;chr20:30155443-30155609 113;29 N alternative_donor chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 15;0 N alternative_donor CUFF.1649 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 228;16 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 15;8 N jcn_only_AD CUFF.1636,CUFF.1652 chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 20;10 K alternative_last_exon CUFF.1638 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170982-3171465 chr20:3171836-3171884 64;50 K intron_retention CUFF.1638 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 63;19 N intron_retention CUFF.1655 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 152;48 K alternative_first_exon CUFF.1664 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646076-15646478 7;46 N jcn_only_AD CUFF.1676 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 105;61 N cassette CUFF.1676 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 25;131 N jcn_only_AA CUFF.1676 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 96;4 K jcn_only_AA CUFF.1676 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 147;70 N alternative_first_exon CUFF.1664 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646076-15646478 chr21:15651917-15651978 7;32 N alternative_last_exon CUFF.1672 chr21 - chr21:40978275-40981509;chr21:40969917-40981509 chr21:40977930-40981509 chr21:40969074-40969916 chr21:40977512-40977929 87;512 N alternative_first_exon chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 26;7 K intron_retention CUFF.1666 chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 chr21:15984792-15984966;chr21:15985197-15985234 54;7 N jcn_only_AD chr21 + chr21:15695909-15709500 chr21:15708579-15709500 3;10 N alternative_donor CUFF.1676 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 99;14 K alternative_acceptor CUFF.1676 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 99;16 N alternative_acceptor CUFF.1673 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 3;3 K intron_retention CUFF.1664 chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 29;43 N jcn_only_AA CUFF.1664 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 14;80 K jcn_only_AA CUFF.1664 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 29;11 N jcn_only_AD CUFF.1676 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 107;24 N jcn_only_AD CUFF.1672,CUFF.1676 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 64;102 K cassette CUFF.1668 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 40;29 N alternative_last_exon chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 6;37 N jcn_only_AD chr21 + chr21:15685442-15688521 chr21:15685453-15688521 2;2 N alternative_donor CUFF.1672,CUFF.1676 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 64;73 N alternative_donor chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 14;7 K intron_retention CUFF.1664 chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 11;37 K alternative_last_exon CUFF.1669 chr21 - chr21:39427076-39492400;chr21:39325309-39492400 chr21:39471433-39492400 chr21:39426396-39427075;chr21:39325124-39325308 chr21:39471371-39471432 95;40 K jcn_only_AA CUFF.1676 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 99;14 N alternative_acceptor CUFF.1664 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15671759-15678016 chr21:15678016-15678017 14;15 N jcn_only_AD chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 12;10 N alternative_donor chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 12;0 N jcn_only_AD CUFF.1668,CUFF.1673 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30973548-31015145 chr21:31015145-31015146 86;22 N cassette CUFF.1676 chr21 - chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558967-47565330 chr21:47558794-47558966 17;70 K alternative_acceptor CUFF.1664 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 29;59 K alternative_last_exon CUFF.1669 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39471371-39471432;chr21:39325124-39325308 chr21:39426396-39427075 60;75 K cassette CUFF.1670 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 11;36 N alternative_donor CUFF.1676 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 134;3 N alternative_donor CUFF.1668,CUFF.1673 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30973548-31015145 chr21:31015145-31015146 86;0 K alternative_acceptor CUFF.1676 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 147;37 K alternative_last_exon CUFF.1669 chr21 - chr21:39471433-39492400;chr21:39427076-39492400 chr21:39325309-39492400 chr21:39471371-39471432;chr21:39426396-39427075 chr21:39325124-39325308 115;20 K cassette CUFF.1668 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 55;51 N alternative_acceptor CUFF.1676 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 96;2 N intron_retention chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 6;11 N jcn_only_AA CUFF.1673 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 3;6 K jcn_only_AA CUFF.1666 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15985197-15985234 40;54 N jcn_only_AD CUFF.1676 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 99;32 N jcn_only_AA chr21 + chr21:15680941-15685264 chr21:15680941-15681292 15;2 N jcn_only_AD chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 14;3 N jcn_only_AA chr21 + chr21:15695909-15709500 chr21:15695909-15708400 3;11 N jcn_only_AD CUFF.1676 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 163;3 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 2;7 N jcn_only_AD chr21 + chr21:15680941-15685264 chr21:15681420-15685264 15;2 N alternative_donor CUFF.1676 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 76;61 N alternative_donor CUFF.1676 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 107;3 N jcn_only_AA CUFF.693 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 36;540 K alternative_acceptor CUFF.664,CUFF.744 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 9;74 N cassette CUFF.691 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 22;649 N alternative_donor chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 25;177 N coord_cassette CUFF.680 chr7 + chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925 chr7:73101329-73101425;chr7:73105246-73105342 106;388 N jcn_only_AD CUFF.691 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 36;11 N jcn_only_AA CUFF.652 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 120;9 N alternative_donor chr7 - chr7:156516873-156526870 chr7:156516873-156518128 chr7:156518129-156526870 chr7:156526870-156526871 12;18 K intron_retention CUFF.654 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 13;94 K alternative_first_exon CUFF.676 chr7 + chr7:54612482-54614639;chr7:54613910-54614639 chr7:54614433-54614639 chr7:54612315-54612481;chr7:54613801-54613909 chr7:54614336-54614432 246;30 N alternative_donor chr7 + chr7:150831656-150837065 chr7:150835401-150837065 chr7:150831656-150835400 chr7:150831655-150831656 4;13 K alternative_donor CUFF.694 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 9;29 N cassette CUFF.666 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 25;30 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 26;54 N alternative_acceptor CUFF.731 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 418;14 K alternative_first_exon CUFF.659 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793064-16793655 chr7:16815295-16815509 7;23 N jcn_only_AD CUFF.707 chr7 + chr7:107220747-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 413;30 K alternative_acceptor CUFF.661 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 195;31 N cassette CUFF.661 chr7 - chr7:22357657-22396448 chr7:22357657-22395596;chr7:22396231-22396448 chr7:22395597-22396230 16;99 K coord_cassette CUFF.741 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148988646;chr7:148988837-148989301 chr7:148987029-148987129;chr7:148988647-148988836 33;46 K intron_retention CUFF.731 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 91;304 K intron_retention CUFF.701 chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 5;5 N alternative_donor CUFF.737 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 chr7:136676934-136677011;chr7:136554008-136554165 36;0 N alternative_acceptor CUFF.749 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 28;28 N jcn_only_AA CUFF.691 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 3;121 K coord_cassette CUFF.679 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 51;3 N alternative_donor chr7 + chr7:6641772-6647167 chr7:6642384-6647167 chr7:6641772-6642383 chr7:6641771-6641772 25;27 N jcn_only_AA chr7 + chr7:44247798-44250440;chr7:44247798-44248005;chr7:44247798-44250621 chr7:44247798-44251845 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 78;74 N alternative_acceptor CUFF.654 chr7 + chr7:6641772-6647590;chr7:6641772-6647167 chr7:6641772-6642294 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 47;0 K alternative_last_exon CUFF.676 chr7 + chr7:54617864-54621559;chr7:54617864-54636823,chr7:54617864-54636701 chr7:54617864-54618445 chr7:54636824-54637040 chr7:54618446-54618466 329;49 N jcn_only_AD CUFF.684 chr7 + chr7:75039744-75044162;chr7:75042211-75044162;chr7:75044077-75044162 chr7:75040010-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 202;38 K intron_retention CUFF.749 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 8;21 N cassette CUFF.707 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 22;255 N jcn_only_AA CUFF.654,CUFF.684 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 12;11 N alternative_donor CUFF.702 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 3;0 N jcn_only_AD CUFF.707 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 270;26 K intron_retention CUFF.668 chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 339;4 K cassette CUFF.732 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 chr7:128850806-128850954 2;30 K intron_retention chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 281;21 N jcn_only_AA chr7 - chr7:107642179-107643293 chr7:107642830-107643293 29;22 K alternative_first_exon CUFF.671 chr7 - chr7:38937730-38969071;chr7:38937730-38971877 chr7:38937730-38948753 chr7:38971878-38972085 chr7:38948754-38948854 82;57 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 39;69 N alternative_donor CUFF.712 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 179;0 N jcn_only_AA CUFF.749 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 176;19 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 26;7 N cassette CUFF.686 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 11;73 N cassette CUFF.749 chr7 - chr7:156476858-156516805 chr7:156476858-156480723;chr7:156480886-156516805 chr7:156480724-156480885 45;98 N alternative_donor CUFF.709 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 3;229 N alternative_donor chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 3;78 N jcn_only_AA CUFF.680 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 524;9 N alternative_acceptor CUFF.749 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 198;5 N alternative_donor CUFF.684 chr7 + chr7:75039744-75044162;chr7:75040010-75044162;chr7:75044077-75044162 chr7:75042211-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 168;3 N alternative_acceptor CUFF.660 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 79;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 3;176 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 6;68 K jcn_only_AD CUFF.741 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 76;7 K alternative_first_exon CUFF.744 chr7 + chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150784160-150813879;chr7:150783148-150813879;chr7:150812729-150813879 chr7:150809332-150813879 chr7:150783775-150784159;chr7:150782918-150783147;chr7:150812719-150812728 chr7:150809269-150809331 276;35 K alternative_first_exon CUFF.744 chr7 + chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150784160-150813879;chr7:150809332-150813879;chr7:150783148-150813879 chr7:150812729-150813879 chr7:150783775-150784159;chr7:150809269-150809331;chr7:150782918-150783147 chr7:150812719-150812728 299;12 K alternative_first_exon CUFF.658 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594787-7594820 chr7:7594319-7594460 11;47 N alternative_acceptor CUFF.656 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 111;0 N alternative_first_exon chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 chr7:129007873-129008392 chr7:129015617-129015767 37;11 N alternative_acceptor CUFF.693 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 36;31 N alternative_acceptor chr7 + chr7:44247798-44250440;chr7:44247798-44248005;chr7:44247798-44250621 chr7:44247798-44251845 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 14;74 N jcn_only_AD chr7 - chr7:107642179-107643293 chr7:107642179-107642571 29;15 N cassette CUFF.679 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 12;2 N alternative_acceptor CUFF.654 chr7 + chr7:6641772-6647590;chr7:6641772-6642294 chr7:6641772-6647167 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 34;13 N jcn_only_AD CUFF.709 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 56;229 N alternative_donor CUFF.707 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107220812-107221203 chr7:107221023-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 412;3 N alternative_donor CUFF.707 chr7 + chr7:107221091-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 31;384 N jcn_only_AD chr7 + chr7:150831656-150837065 chr7:150835401-150837065 chr7:150831656-150835400 chr7:150831655-150831656 4;8 N alternative_donor CUFF.673 chr7 + chr7:44250724-44251845;chr7:44247798-44251845 chr7:44251204-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 78;10 N intron_retention chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 15;21 N jcn_only_AA CUFF.706 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 37;177 N jcn_only_AD CUFF.749 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 303;16 N cassette CUFF.706 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 13;102 N alternative_donor CUFF.712 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 179;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 9;3 K cassette CUFF.718 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 182;31 N alternative_acceptor CUFF.679 chr7 + chr7:44250724-44251845 chr7:44250724-44251152 chr7:44251153-44251845 chr7:44251845-44251846 22;12 N intron_retention chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 24;36 N jcn_only_AD CUFF.658,CUFF.668 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 65;5 K intron_retention CUFF.731 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 418;11 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 6;110 K intron_retention CUFF.709 chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 199;89 N jcn_only_AD CUFF.671 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 300;27 N jcn_only_AA CUFF.673 chr7 + chr7:44247798-44251845;chr7:44247798-44248005;chr7:44247798-44250621 chr7:44247798-44250440 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 103;49 N alternative_donor CUFF.677,CUFF.691 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 79;2 N jcn_only_AD CUFF.693 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 10;124 N jcn_only_AD CUFF.702 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 10;1 N jcn_only_AA CUFF.702 chr7 - chr7:102242853-102249207 chr7:102246435-102249207 3;28 N cassette CUFF.680 chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925 chr7:73105246-73105342 141;459 N jcn_only_AA CUFF.749 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 198;29 N cassette CUFF.679 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 51;15 N jcn_only_AA CUFF.707 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 270;20 N jcn_only_AD chr7 + chr7:75040010-75040937 chr7:75040858-75040937 15;3 N mutually_exclusive CUFF.680 chr7 + chr7:73101231-73105245,chr7:73105343-73106925 chr7:73101231-73101328,chr7:73101426-73106925 chr7:73105246-73105342 chr7:73101329-73101425 8;30 N jcn_only_AD CUFF.673 chr7 + chr7:44251204-44251845;chr7:44247798-44251845 chr7:44250724-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 131;22 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 chr7:156516873-156521414 chr7:156516872-156516873 12;145 N alternative_acceptor CUFF.702 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 24;1 N intron_retention chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 18;14 N cassette CUFF.749 chr7 - chr7:156619439-156685621 chr7:156619439-156626446;chr7:156626487-156685621 chr7:156626447-156626486 27;119 K intron_retention chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 384;30 N alternative_acceptor chr7 + chr7:75042211-75044162 chr7:75042211-75043917 chr7:75043918-75044162 chr7:75044162-75044163 26;16 K coord_cassette CUFF.741 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 45;33 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 21;179 N alternative_acceptor chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 5;185 K jcn_only_AD CUFF.735 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 6;49 N jcn_only_AA CUFF.668 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 41;21 N jcn_only_AD CUFF.709 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 248;37 N alternative_acceptor CUFF.673 chr7 + chr7:44247798-44251845;chr7:44247798-44248005;chr7:44247798-44250621 chr7:44247798-44250440 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 81;7 N alternative_donor CUFF.709 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 231;1 N jcn_only_AD CUFF.679 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 121;14 N alternative_donor CUFF.684 chr7 + chr7:75039744-75044162;chr7:75040010-75044162;chr7:75042211-75044162 chr7:75044077-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 169;2 N intron_retention chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 57;9 N alternative_donor CUFF.676 chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 249;33 K alternative_last_exon CUFF.661 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206688-22206766 chr7:22231057-22231260 96;28 K intron_retention CUFF.749 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 15;40 N jcn_only_AD CUFF.702,CUFF.749 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 4;7 K cassette CUFF.718 chr7 - chr7:117424509-117431344 chr7:117424509-117426439;chr7:117426480-117431344 chr7:117426440-117426479 2;2 K alternative_first_exon CUFF.670,CUFF.718 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 31;6 K alternative_donor CUFF.735 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 6;49 K cassette CUFF.749 chr7 - chr7:156626487-156629506 chr7:156626487-156627171;chr7:156627270-156629506 chr7:156627172-156627269 181;73 N alternative_donor chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 17;16 K cassette CUFF.732 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 chr7:128848600-128848692;chr7:128850204-128850389 11;3 N alternative_acceptor CUFF.691 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 4;134 K cassette CUFF.718 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 103;16 N jcn_only_AA chr7 - chr7:107576102-107577537 chr7:107576819-107577537 75;10 N jcn_only_AD CUFF.749 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 192;127 K alternative_first_exon CUFF.680 chr7 + chr7:73098232-73100965,chr7:73098254-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098331-73100965 chr7:73097355-73097713 chr7:73098097-73098134 74;553 N jcn_only_AD chr7 + chr7:44247798-44250621 chr7:44250531-44250621 chr7:44247798-44250530 chr7:44247797-44247798 17;29 K alternative_first_exon CUFF.656 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222111-7222451 7;115 K alternative_first_exon CUFF.661 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22259485-22259925 chr7:22234188-22234478 118;92 N alternative_acceptor CUFF.709 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 229;10 N alternative_donor CUFF.679 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 41;41 K jcn_only_AD CUFF.694 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 9;27 N intron_retention chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 74;5 N alternative_acceptor chr7 - chr7:156516873-156526870 chr7:156521415-156526870 chr7:156516873-156521414 chr7:156516872-156516873 12;15 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 81;581 N jcn_only_AA CUFF.691 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 4;153 N coord_cassette CUFF.680 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 15;199 N jcn_only_AA chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 66;123 N alternative_acceptor CUFF.664 chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 16;18 K alternative_acceptor CUFF.676 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 249;39 N alternative_donor CUFF.718 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 11;38 N coord_cassette CUFF.680 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 15;524 N cassette CUFF.680 chr7 + chr7:73108000-73111934 chr7:73108000-73108321;chr7:73108381-73111934 chr7:73108322-73108380 69;558 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 41;35 N alternative_acceptor CUFF.666 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 16;31 N alternative_acceptor CUFF.691 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 3;117 N jcn_only_AD CUFF.654 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 chr7:6641772-6647228 chr7:6641771-6641772 34;15 N alternative_acceptor CUFF.676 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 14;41 K alternative_first_exon CUFF.706 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715379 chr7:102714693-102715015 259;95 N cassette CUFF.668 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 40;52 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 37;30 N alternative_donor CUFF.706 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 290;0 N alternative_acceptor chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 66;108 N jcn_only_AD CUFF.661,CUFF.749 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 315;61 N jcn_only_AA CUFF.660 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 79;4 K alternative_first_exon CUFF.718 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117450819-117451043 chr7:117433467-117433743 179;56 N jcn_only_AA CUFF.749 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 48;10 N alternative_acceptor CUFF.673 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 5;46 N alternative_donor CUFF.661 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 137;27 N alternative_donor CUFF.673 chr7 + chr7:44251204-44251845;chr7:44247798-44251845 chr7:44250724-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 84;4 K cassette CUFF.712 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 59;81 N alternative_acceptor chr7 + chr7:75040010-75044162 chr7:75040010-75040937 chr7:75040938-75044162 chr7:75044162-75044163 38;3 K intron_retention CUFF.694 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 5;6 N jcn_only_AD CUFF.684 chr7 + chr7:75039744-75044162;chr7:75040010-75044162;chr7:75044077-75044162 chr7:75042211-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 214;26 K jcn_only_AD CUFF.733 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 165;135 N jcn_only_AD CUFF.668,CUFF.706 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 24;88 N alternative_donor CUFF.668 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 25;0 K cassette CUFF.712 chr7 - chr7:111161506-111201906 chr7:111161506-111172573;chr7:111172642-111201906 chr7:111172574-111172641 178;28 N alternative_acceptor CUFF.707 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 270;7 N intron_retention CUFF.673 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 49;20 N intron_retention chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 77;6 N alternative_donor CUFF.707 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107221023-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 404;11 N jcn_only_AA CUFF.709 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 229;44 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 52;7 N alternative_donor CUFF.707 chr7 + chr7:107220747-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 398;17 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 6;38 N jcn_only_AD CUFF.707 chr7 + chr7:107221091-107221203;chr7:107220812-107221203;chr7:107221023-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 60;384 K cassette CUFF.681 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 24;67 N coord_cassette CUFF.693 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 3;53 N cassette CUFF.666 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 25;48 N alternative_donor CUFF.709 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 230;2 K alternative_first_exon CUFF.658 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604018 15;9 N jcn_only_AD CUFF.679 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 81;2 K intron_retention CUFF.693 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 49;32 K jcn_only_AA CUFF.744 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 145;108 N alternative_acceptor CUFF.668 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 65;0 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 144;176 K alternative_first_exon CUFF.650 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:192883-193804 chr7:195177-195327 38;60 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;179 N jcn_only_AA CUFF.664 chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 16;140 N alternative_donor CUFF.668,CUFF.706 chr7 - chr7:102473422-102517913 chr7:102473422-102495223 chr7:102495224-102517913 chr7:102517913-102517914 24;1 N jcn_only_AA CUFF.702 chr7 - chr7:102236555-102240306 chr7:102236577-102240306 chr7:102236555-102236576 chr7:102236554-102236555 24;2 N alternative_donor CUFF.749 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 179;0 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 11;8 K intron_retention CUFF.676 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 249;31 N alternative_acceptor CUFF.709 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 280;13 K alternative_donor CUFF.741 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 76;7 N cassette CUFF.744 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 56;192 N alternative_acceptor CUFF.668 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 25;0 N jcn_only_AD chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 25;166 N jcn_only_AA CUFF.666 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 88;16 K alternative_first_exon CUFF.709 chr7 + chr7:107204693-107205032,chr7:107204655-107205032;chr7:107204192-107205032 chr7:107204505-107205032 chr7:107203929-107204191 chr7:107204349-107204504 48;153 N alternative_donor CUFF.707 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 270;1 N jcn_only_AD CUFF.712 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 184;16 N alternative_acceptor CUFF.749 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 186;0 K intron_retention CUFF.741 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 76;6 N jcn_only_AD CUFF.684 chr7 + chr7:75040010-75044162;chr7:75042211-75044162;chr7:75044077-75044162 chr7:75039744-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 85;155 N jcn_only_AD CUFF.668,CUFF.706 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 176;11 N alternative_donor CUFF.679 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 41;41 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 81;287 N jcn_only_AA CUFF.650 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:197130-208897 chr7:208897-208898 116;9 N alternative_acceptor CUFF.666 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 31;16 N jcn_only_AA CUFF.709 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 280;20 N jcn_only_AA CUFF.744 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 107;59 N alternative_acceptor CUFF.698 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 15;155 N alternative_acceptor CUFF.749 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 176;1 K alternative_first_exon CUFF.744 chr7 + chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150784160-150813879;chr7:150809332-150813879;chr7:150812729-150813879 chr7:150783148-150813879 chr7:150783775-150784159;chr7:150809269-150809331;chr7:150812719-150812728 chr7:150782918-150783147 230;81 N jcn_only_AA chr7 + chr7:75040010-75044162 chr7:75040010-75040937 chr7:75040938-75044162 chr7:75044162-75044163 38;15 N alternative_first_exon CUFF.750 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647136-157647567 chr7:157649995-157650240 51;102 N jcn_only_AD CUFF.673 chr7 + chr7:44250724-44251845;chr7:44247798-44251845 chr7:44251204-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 96;57 N alternative_donor CUFF.668,CUFF.706 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 176;0 N alternative_donor CUFF.702,CUFF.749 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 3;0 N alternative_donor CUFF.691 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 36;2 N cassette CUFF.706 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 9;356 K cassette CUFF.664 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 222;11 N alternative_donor CUFF.661,CUFF.749 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 315;33 N alternative_donor CUFF.744 chr7 + chr7:150831656-150838984 chr7:150837204-150838984 chr7:150831656-150837203 chr7:150831655-150831656 44;12 K cassette CUFF.684 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 135;58 N cassette CUFF.666 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 27;46 N alternative_acceptor CUFF.654,CUFF.684 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 12;6 N intron_retention chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 31;59 N jcn_only_AD CUFF.668 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 25;16 K jcn_only_AA CUFF.679,CUFF.743 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 19;40 N alternative_acceptor CUFF.673 chr7 + chr7:44247798-44250440;chr7:44247798-44251845;chr7:44247798-44250621 chr7:44247798-44248005 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 83;5 K alternative_last_exon CUFF.698 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640427 chr7:93629609-93629684 chr7:93621349-93621478 11;18 N intron_retention chr7 - chr7:36901339-36934610 chr7:36901338-36901339;chr7:36934610-36934611 2;6 N jcn_only_AA CUFF.654 chr7 + chr7:6641772-6647590;chr7:6641772-6647167 chr7:6641772-6642294 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 59;11 N jcn_only_AA CUFF.668 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 25;16 N cassette CUFF.680 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 114;447 N jcn_only_AA CUFF.656 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 111;24 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 35;9 K jcn_only_AA CUFF.676 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 249;47 K jcn_only_AD CUFF.680 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 339;326 K cassette CUFF.706 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 76;259 K alternative_donor CUFF.680 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 339;153 N alternative_acceptor CUFF.749 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.658,CUFF.668 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 65;0 N jcn_only_AA CUFF.749 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 18;40 K cassette CUFF.666 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 68;15 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 12;99 K cassette CUFF.671 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 51;52 N jcn_only_AD CUFF.709 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 266;19 N jcn_only_AD CUFF.707 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107221023-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 420;24 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 0;3 N coord_cassette CUFF.749 chr7 - chr7:156626487-156685621 chr7:156626487-156627171;chr7:156627270-156629506;chr7:156629580-156685621 chr7:156627172-156627269;chr7:156629507-156629579 46;68 N jcn_only_AD CUFF.691 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 75;6 K alternative_last_exon CUFF.712 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603556-110603621 chr7:111123476-111123784 132;86 N alternative_donor CUFF.684 chr7 + chr7:75040010-75044162;chr7:75042211-75044162;chr7:75044077-75044162 chr7:75039744-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 16;155 N jcn_only_AD CUFF.679 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 43;40 N cassette CUFF.671 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 113;112 K intron_retention CUFF.749 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 10;23 N jcn_only_AA CUFF.749 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 186;30 N cassette CUFF.749 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 46;208 N alternative_first_exon chr7 - chr7:86577239-86688640 chr7:86577239-86594219 chr7:86688641-86689015 chr7:86594220-86594340 20;407 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 41;22 N intron_retention chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 22;14 K cassette CUFF.731 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 36;367 N jcn_only_AA chr7 + chr7:75042211-75044162 chr7:75042211-75043917 chr7:75043918-75044162 chr7:75044162-75044163 26;21 K alternative_first_exon CUFF.676 chr7 + chr7:54614433-54614639;chr7:54613910-54614639 chr7:54612482-54614639 chr7:54614336-54614432;chr7:54613801-54613909 chr7:54612315-54612481 203;73 N alternative_donor CUFF.668 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 41;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 57;78 N alternative_donor CUFF.671 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 40;11 N jcn_only_AA CUFF.731 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 418;11 N jcn_only_AA CUFF.673 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 5;92 N alternative_donor CUFF.673 chr7 + chr7:44251204-44251845;chr7:44250724-44251845 chr7:44247798-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 14;74 N alternative_donor chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 40;9 N alternative_acceptor CUFF.668 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 41;5 K cassette CUFF.750 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 146;37 K jcn_only_AD CUFF.668 chr7 - chr7:36901342-36934613 chr7:36901342-36909997 339;55 K intron_retention CUFF.744 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 108;12 K alternative_acceptor CUFF.731 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 123;352 N jcn_only_AA CUFF.673 chr7 + chr7:44247798-44250440;chr7:44247798-44251845;chr7:44247798-44248005 chr7:44247798-44250621 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 135;17 N jcn_only_AA CUFF.698 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 15;281 K alternative_first_exon CUFF.737 chr7 + chr7:136553921-136554007;chr7:136553740-136554007 chr7:136553865-136554007 chr7:136553416-136553739 chr7:136553752-136553864 chr7:136554008-136554165 86;144 K alternative_acceptor CUFF.744 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 145;62 N alternative_acceptor CUFF.744 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 107;6 N jcn_only_AA CUFF.666 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.664,CUFF.744 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 9;150 N alternative_donor CUFF.654 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 chr7:6641772-6647228 chr7:6641771-6641772 34;5 N jcn_only_AA CUFF.699 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 11;206 N jcn_only_AA CUFF.676 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 14;83 N jcn_only_AA CUFF.654 chr7 + chr7:6641772-6647590;chr7:6641772-6642294 chr7:6641772-6647167 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 45;25 N jcn_only_AA chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 20;513 N alternative_donor CUFF.691 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 80;1 N intron_retention chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 3;40 N alternative_acceptor CUFF.680 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 516;3 N jcn_only_AA chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 5;282 K alternative_first_exon CUFF.700 chr7 - chr7:100818093-100823322 chr7:100818093-100822377 chr7:100823323-100823610 chr7:100822378-100822615 68;31 K intron_retention CUFF.733 chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 135;9 N jcn_only_AD CUFF.691 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 116;19 N alternative_donor CUFF.684 chr7 + chr7:75039744-75044162;chr7:75042211-75044162;chr7:75044077-75044162 chr7:75040010-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 160;11 N alternative_donor CUFF.744 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815720-150816341 chr7:150815719-150815720 244;3 N alternative_acceptor CUFF.749 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 48;8 N alternative_acceptor CUFF.650 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:197130-208897 chr7:208897-208898 116;1 K alternative_first_exon CUFF.668 chr7 - chr7:36934623-37024519;chr7:36934623-37052903 chr7:36934623-37025527 chr7:37052904-37053040 chr7:37025528-37025829 76;404 N jcn_only_AD CUFF.671 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 40;18 N jcn_only_AA CUFF.673 chr7 + chr7:44247798-44250440;chr7:44247798-44251845;chr7:44247798-44250621 chr7:44247798-44248005 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 140;12 N jcn_only_AA CUFF.680,CUFF.709 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 522;11 K alternative_last_exon CUFF.700 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100816979-100818092 chr7:100822378-100822417 79;6 N cassette CUFF.671 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 12;251 N jcn_only_AD CUFF.744 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815720-150816341 chr7:150815719-150815720 244;13 N jcn_only_AD CUFF.709 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 280;22 K alternative_last_exon CUFF.744 chr7 + chr7:150831656-150834816,chr7:150831656-150835229,chr7:150831656-150837065;chr7:150831656-150838984 chr7:150831656-150833312 chr7:150838985-150839139 chr7:150833313-150833649 101;106 N jcn_only_AD CUFF.684 chr7 + chr7:75039744-75044162;chr7:75040010-75044162;chr7:75042211-75044162 chr7:75044077-75044162 chr7:75039744-75040009;chr7:75040010-75042210;chr7:75042211-75044076 chr7:75039743-75039744;chr7:75040009-75040010;chr7:75042210-75042211 218;22 N jcn_only_AA CUFF.691 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 36;11 N alternative_last_exon chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739990 chr7:91734992-91735078 16;154 K cassette CUFF.741 chr7 + chr7:148987130-148989301 chr7:148987130-148988646;chr7:148988837-148989301 chr7:148988647-148988836 30;56 K alternative_first_exon CUFF.679 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579527-65579957 chr7:65599267-65599361 16;61 K intron_retention CUFF.718 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 160;8 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 119;30 K intron_retention CUFF.676 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 55;16 K cassette CUFF.691 chr7 - chr7:86539318-86541387 chr7:86539318-86540937;chr7:86541012-86541387 chr7:86540938-86541011 105;36 N jcn_only_AD CUFF.673 chr7 + chr7:44251204-44251845;chr7:44250724-44251845 chr7:44247798-44251845 chr7:44247798-44250723;chr7:44250724-44251203 chr7:44247797-44247798;chr7:44250723-44250724 79;74 N intron_retention chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 5;67 N jcn_only_AD chr7 + chr7:6641772-6647167 chr7:6642384-6647167 chr7:6641772-6642383 chr7:6641771-6641772 25;9 N jcn_only_AA CUFF.666 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 40;64 K intron_retention CUFF.744 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 240;16 N jcn_only_AD CUFF.744 chr7 + chr7:150831656-150838984 chr7:150837204-150838984 chr7:150831656-150837203 chr7:150831655-150831656 44;18 N intron_retention CUFF.673 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 12;37 K alternative_first_exon CUFF.733 chr7 + chr7:128991503-129019478;chr7:129008393-129019478 chr7:129015768-129019478 chr7:129007873-129008392 chr7:129015617-129015767 125;64 N alternative_donor CUFF.749 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 176;3 K intron_retention chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 599;59 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 15;23 K alternative_first_exon CUFF.676 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54614336-54614432;chr7:54612315-54612481 chr7:54613801-54613909 103;173 K intron_retention CUFF.744 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 145;20 K cassette CUFF.699 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 54;76 K jcn_only_AA CUFF.661 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 195;13 N jcn_only_AD CUFF.712 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 195;5 K alternative_first_exon CUFF.668 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 107;6 K cassette CUFF.737 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 chr7:136554008-136554165;chr7:136699567-136701593 98;51 N jcn_only_AA CUFF.668 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 65;11 N alternative_last_exon CUFF.744 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150820881-150820973 chr7:150819812-150820725 62;28 N alternative_donor CUFF.712 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 96;5 N cassette CUFF.693 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 21;6 N alternative_acceptor CUFF.652 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 120;12 N alternative_acceptor CUFF.699 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 11;3 K jcn_only_AA CUFF.684 chr7 + chr7:75039744-75044162 chr7:75039744-75039888 155;32 N jcn_only_AA CUFF.679 chr7 + chr7:44250724-44251845 chr7:44250724-44251152 chr7:44251153-44251845 chr7:44251845-44251846 22;68 K intron_retention CUFF.684 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 43;7 K alternative_first_exon CUFF.658,CUFF.677 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 8;7 N alternative_acceptor CUFF.673 chr7 + chr7:44247798-44250440;chr7:44247798-44251845;chr7:44247798-44248005 chr7:44247798-44250621 chr7:44248006-44250440;chr7:44250441-44250621;chr7:44250622-44251845 chr7:44250440-44250441;chr7:44250621-44250622;chr7:44251845-44251846 86;2 N alternative_acceptor chr7 + chr7:6641772-6642294;chr7:6641772-6647167 chr7:6641772-6647590 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 13;34 N jcn_only_AA CUFF.749 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 49;8 K jcn_only_AA CUFF.731 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 123;394 N jcn_only_AD CUFF.677,CUFF.691 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 96;38 N jcn_only_AD CUFF.718 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 130;38 K cassette CUFF.707 chr7 + chr7:107253878-107258772 chr7:107253878-107254098;chr7:107254178-107258772 chr7:107254099-107254177 68;30 N jcn_only_AD CUFF.707 chr7 + chr7:107220747-107221203;chr7:107221091-107221203;chr7:107220812-107221203 chr7:107221023-107221203 chr7:107220747-107220811;chr7:107220812-107221022;chr7:107221023-107221090 chr7:107220746-107220747;chr7:107220811-107220812;chr7:107221022-107221023 438;6 N jcn_only_AD CUFF.737 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 chr7:136676934-136677011;chr7:136554008-136554165 36;22 N jcn_only_AD CUFF.668,CUFF.706 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 204;13 K alternative_first_exon CUFF.744 chr7 + chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783148-150813879;chr7:150812729-150813879 chr7:150784160-150813879 chr7:150809269-150809331;chr7:150782918-150783147;chr7:150812719-150812728 chr7:150783775-150784159 215;96 K intron_retention CUFF.744 chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 93;19 K cassette CUFF.671 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 89;66 N jcn_only_AD CUFF.668 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 41;11 N alternative_acceptor chr7 + chr7:73108381-73111795;chr7:73108381-73110735 chr7:73108381-73111934 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 6;513 N intron_retention CUFF.673 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 17;23 N alternative_acceptor CUFF.680,CUFF.709 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 516;3 N coord_cassette CUFF.744 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 56;88 N alternative_acceptor CUFF.666 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 47;0 N alternative_donor CUFF.709 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 280;4 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 chr7:156518129-156526870 chr7:156526870-156526871 12;253 N jcn_only_AD CUFF.676 chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 249;13 N intron_retention chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 29;15 N alternative_donor CUFF.679 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 82;0 N jcn_only_AD CUFF.718 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 147;21 N cassette CUFF.702 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 5;7 N jcn_only_AD CUFF.706 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 290;6 K alternative_last_exon CUFF.660 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152670-19152763 33;28 N jcn_only_AA chr7 + chr7:6641772-6642294;chr7:6641772-6647167 chr7:6641772-6647590 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 36;34 K intron_retention CUFF.684 chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 96;8 N jcn_only_AD CUFF.661 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 137;14 N alternative_donor CUFF.679 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 121;1 N cassette CUFF.707 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 74;296 N alternative_donor CUFF.668,CUFF.706 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 204;0 N jcn_only_AA CUFF.683 chr7 - chr7:74981241-74984789 chr7:74982903-74984789 6;3 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 30;30 N jcn_only_AD chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 59;109 K cassette CUFF.741 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 33;30 N cassette CUFF.744 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 91;179 N jcn_only_AD CUFF.712 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 96;10 N alternative_donor CUFF.671 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 300;0 N jcn_only_AD CUFF.679 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 43;41 N alternative_donor CUFF.718 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 47;2 N cassette CUFF.706 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 13;160 N cassette CUFF.668 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 18;153 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 10;36 N alternative_acceptor CUFF.691 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 36;1 N coord_cassette CUFF.588 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 13;35 N alternative_last_exon CUFF.561 chr6 - chr6:5216972-5260880;chr6:5240957-5260880 chr6:5109726-5260880 chr6:5216851-5216971;chr6:5240759-5240956 chr6:5102827-5109725 116;6 N alternative_acceptor CUFF.628 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 45;0 N alternative_acceptor CUFF.598 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 17;127 K intron_retention CUFF.581 chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 7;44 N alternative_acceptor CUFF.628 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 57;0 N alternative_acceptor CUFF.561 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 14;0 N alternative_donor CUFF.606 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 chr6:88074679-88075195;chr6:88066019-88066221 343;2 K alternative_acceptor CUFF.580 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 206;39 N alternative_donor CUFF.626 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 10;30 K cassette CUFF.624 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 22;20 K intron_retention CUFF.610 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 chr6:90327673-90327750;chr6:90331641-90331745 254;16 N alternative_donor CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112604370-112627530 chr6:112558118-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 0;16 N jcn_only_AA chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 16;65 N alternative_acceptor CUFF.598 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 175;7 N alternative_acceptor CUFF.598 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 106;76 K alternative_donor CUFF.626 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 82;49 N alternative_acceptor CUFF.628 chr6 - chr6:128320050-128326228 chr6:128324378-128326228 chr6:128320050-128324377 chr6:128320049-128320050 22;5 N jcn_only_AD CUFF.588 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 14;65 N alternative_donor CUFF.579 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 87;20 N cassette CUFF.581 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122024-32122363 chr6:32121776-32122023 42;32 N intron_retention chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 16;19 N alternative_donor CUFF.574 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 27;1 N jcn_only_AA CUFF.598 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 114;77 K jcn_only_AD CUFF.640 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 10;15 K intron_retention CUFF.646 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 55;3 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 4;9 K intron_retention CUFF.598 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 186;79 K alternative_first_exon CUFF.596 chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41515198 chr6:41491964-41516115 chr6:41513738-41513824;chr6:41513827-41514040;chr6:41515199-41515369 chr6:41516116-41516450 105;18 N jcn_only_AA CUFF.628 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 188;104 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 36;29 N jcn_only_AD chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 29;11 N alternative_donor CUFF.600 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 16;1 N jcn_only_AA CUFF.628 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 222;70 K jcn_only_AD CUFF.571 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 6;43 N jcn_only_AA CUFF.630 chr6 - chr6:133050119-133055391 chr6:133052667-133055391 chr6:133050119-133052666 chr6:133050118-133050119 89;77 K cassette CUFF.595 chr6 - chr6:39859156-39864972 chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859399-39859539 6;15 N jcn_only_AA CUFF.598 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 183;7 N jcn_only_AD CUFF.644 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 12;11 K intron_retention CUFF.579 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 87;3 N alternative_donor CUFF.619 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 41;5 K intron_retention chr6 + chr6:31928872-31928972 chr6:31928871-31928872;chr6:31928972-31928973 9;2 N alternative_acceptor CUFF.628 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 72;0 N jcn_only_AA CUFF.630 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 319;21 N jcn_only_AA CUFF.581,CUFF.626 chr6 + chr6:126320760-126329537 chr6:126320760-126327987 chr6:126327988-126329537 chr6:126329537-126329538 103;6 K intron_retention CUFF.584 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 119;11 N cassette CUFF.581 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122024-32122363 chr6:32121973-32122023 42;5 N jcn_only_AD CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 46;121 N jcn_only_AD CUFF.565 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 96;89 K alternative_acceptor CUFF.600 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 53;61 N jcn_only_AA CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 134;68 N mutually_exclusive CUFF.630 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 18;26 N jcn_only_AA CUFF.561 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 40;32 K alternative_acceptor CUFF.581 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 4;46 N alternative_acceptor CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31939503-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 107;22 N alternative_donor CUFF.628 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 70;0 K alternative_first_exon CUFF.565 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486501;chr6:13472213-13472327 chr6:13486870-13487985 31;18 N jcn_only_AA CUFF.561 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 65;7 K alternative_first_exon CUFF.580,CUFF.604 chr6 - chr6:75977465-75982179;chr6:75977465-75994117 chr6:75977465-75993935 chr6:75994118-75994752 chr6:75993936-75994106 23;24 N alternative_acceptor CUFF.628 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 4;53 N jcn_only_AA chr6 - chr6:124937643-124962672 chr6:124937645-124962672 2;6 N jcn_only_AA CUFF.620 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 12;142 K intron_retention CUFF.630 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 319;9 N alternative_acceptor chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 23;8 K intron_retention CUFF.580 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 262;3 K jcn_only_AA CUFF.581 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 4;39 N alternative_donor CUFF.588 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 14;27 N alternative_acceptor CUFF.644 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 73;0 K alternative_first_exon CUFF.583 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812561-32812647;chr6:32811913-32812051 chr6:32821889-32822066 24;30 N cassette CUFF.630 chr6 - chr6:133046119-133055391;chr6:133047978-133055391;chr6:133048152-133055391 chr6:133046119-133049879,chr6:133048152-133049879,chr6:133047978-133049879;chr6:133050073-133055391 chr6:133049880-133050072 53;112 N alternative_donor CUFF.628 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 59;5 K intron_retention CUFF.623 chr6 - chr6:114270252-114270331 chr6:114270251-114270252;chr6:114270331-114270332 39;2 N alternative_last_exon CUFF.561 chr6 - chr6:5216972-5260880;chr6:5109726-5260880 chr6:5240957-5260880 chr6:5216851-5216971;chr6:5102827-5109725 chr6:5240759-5240956 62;60 N alternative_donor CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112558118-112627530 chr6:112604370-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 16;0 N jcn_only_AA chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 36;40 N alternative_donor chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 8;64 N jcn_only_AD chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 14;26 N jcn_only_AD CUFF.610 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 chr6:90338831-90338957;chr6:90337302-90337415 391;50 K alternative_last_exon CUFF.596 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491629-41491963 5;91 K jcn_only_AD CUFF.626 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 89;65 N alternative_acceptor CUFF.581,CUFF.626 chr6 + chr6:126320760-126329537 chr6:126320760-126327987 chr6:126327988-126329537 chr6:126329537-126329538 103;1 K cassette CUFF.644 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 77;145 N jcn_only_AA CUFF.598 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 119;71 K jcn_only_AA CUFF.648 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 24;65 N jcn_only_AD CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112558118-112627530 chr6:112604370-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 61;25 K cassette CUFF.637 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 571;301 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 21;9 N jcn_only_AD CUFF.581 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 187;7 N jcn_only_AA CUFF.619 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 52;24 N mutually_exclusive CUFF.610 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 chr6:90142841-90143094;chr6:90312748-90312846 105;4 N jcn_only_AA CUFF.628 chr6 - chr6:128320050-128326228 chr6:128324378-128326228 chr6:128320050-128324377 chr6:128320049-128320050 22;78 N jcn_only_AD CUFF.581 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 11;184 N jcn_only_AD CUFF.606 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066222-88068919 chr6:88066221-88066222 chr6:88074679-88075195;chr6:88066019-88066221 343;14 N alternative_donor CUFF.604,CUFF.628 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 66;6 K alternative_acceptor CUFF.584 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 123;24 N cassette CUFF.581 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122182-32122363 chr6:32121776-32122181 42;91 N alternative_acceptor CUFF.610 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 chr6:90337302-90337415;chr6:90338831-90338957 391;60 N alternative_acceptor CUFF.561 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 14;0 N cassette CUFF.581 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 42;75 N jcn_only_AA CUFF.644 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 12;19 K cassette CUFF.619 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 67;66 N alternative_acceptor CUFF.628 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 62;0 K alternative_acceptor CUFF.558 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 15;162 N jcn_only_AD CUFF.628 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 164;24 K jcn_only_AD CUFF.626 chr6 + chr6:126329619-126332398 chr6:126330581-126332398 63;20 K jcn_only_AA CUFF.600 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 53;22 K cassette CUFF.600 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 18;115 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 31;15 N cassette CUFF.610 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 chr6:90333591-90333776;chr6:90337302-90337415 112;461 K cassette CUFF.644 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 27;177 K alternative_first_exon CUFF.565 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486501;chr6:13486870-13487985 chr6:13472213-13472327 35;14 K intron_retention CUFF.598 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 174;70 N jcn_only_AD CUFF.581 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 191;4 N alternative_donor CUFF.610 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 chr6:90327673-90327750;chr6:90326278-90326376 245;17 N jcn_only_AD CUFF.610 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 chr6:90340152-90343560;chr6:90338831-90338942 63;414 K cassette CUFF.643 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 128;59 K alternative_donor CUFF.619 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 76;20 N jcn_only_AD CUFF.628 chr6 - chr6:128563748-128718710 chr6:128563748-128643183 7;48 N intron_retention chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 256;638 N cassette CUFF.617 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 5;299 N intron_retention chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 4;41 N jcn_only_AD CUFF.579 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 87;39 N alternative_acceptor CUFF.579,CUFF.584 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 186;16 N alternative_donor CUFF.596 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 28;3 N alternative_acceptor CUFF.628 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 13;32 N jcn_only_AA CUFF.628 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 81;9 N alternative_donor CUFF.644 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 25;57 N jcn_only_AD CUFF.600 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 16;12 N jcn_only_AD CUFF.626 chr6 + chr6:126320760-126329537 chr6:126328101-126329537 chr6:126320760-126328100 chr6:126320759-126320760 103;28 N jcn_only_AD CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604395-112627530;chr6:112604370-112627530 chr6:112558118-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 70;16 K intron_retention CUFF.598 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 174;16 N alternative_donor CUFF.557 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 27;11 K intron_retention CUFF.598 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 209;37 N alternative_first_exon CUFF.623 chr6 - chr6:114283559-114289797;chr6:114283559-114332294 chr6:114283559-114292020 chr6:114332295-114332579 chr6:114292021-114292449 144;8 N alternative_acceptor CUFF.580 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 28;83 N alternative_donor CUFF.644 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 12;0 K intron_retention CUFF.600 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 78;33 K intron_retention CUFF.553 chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 138;418 N jcn_only_AD CUFF.644 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 25;118 K jcn_only_AA CUFF.584 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 123;42 N alternative_acceptor CUFF.628 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 72;0 N alternative_donor CUFF.628 chr6 - chr6:128320050-128326228;chr6:128320050-128322340 chr6:128320050-128324341 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 23;4 K intron_retention CUFF.598 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 137;52 N jcn_only_AD CUFF.628 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 59;36 K intron_retention CUFF.579 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 11;19 N jcn_only_AD CUFF.628 chr6 - chr6:128320050-128326228;chr6:128320050-128324341 chr6:128320050-128322340 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 57;23 N jcn_only_AD chr6 - chr6:124937645-124962672 chr6:124937645-124962670 6;2 N jcn_only_AA CUFF.598 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 17;186 N alternative_acceptor CUFF.628 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 53;4 K alternative_donor CUFF.643 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 152;25 N intron_retention chr6 + chr6:31928872-31929117 chr6:31928871-31928872;chr6:31929117-31929118 33;4 K intron_retention CUFF.630 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 44;37 N jcn_only_AD CUFF.610 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 158;9 K cassette CUFF.583 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 11;60 N jcn_only_AA CUFF.580 chr6 - chr6:31939459-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 113;89 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 32;28 N cassette CUFF.648 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 3;21 N jcn_only_AA CUFF.628 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 98;13 N jcn_only_AD CUFF.561,CUFF.628 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 95;94 N jcn_only_AD chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 37;3 N alternative_acceptor chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 36;7 K cassette CUFF.606 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 chr6:88057126-88058624;chr6:88066019-88066221 251;15 K alternative_first_exon CUFF.596 chr6 - chr6:41491964-41513737;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41513738-41513824;chr6:41516116-41516450;chr6:41515199-41515369 chr6:41513827-41514040 59;64 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 31;12 N alternative_donor CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 9;1 N jcn_only_AD chr6 - chr6:128320050-128322340;chr6:128320050-128324341 chr6:128320050-128326228 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 59;22 N jcn_only_AA CUFF.580 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 28;166 K intron_retention CUFF.579 chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 109;8 N alternative_acceptor CUFF.630 chr6 - chr6:133050119-133055391 chr6:133052667-133055391 chr6:133050119-133052666 chr6:133050118-133050119 89;134 K jcn_only_AA CUFF.624 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 4;34 N alternative_acceptor CUFF.628 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 32;13 K intron_retention CUFF.584 chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 57;3 N alternative_donor CUFF.628 chr6 - chr6:128320050-128326228;chr6:128320050-128324341 chr6:128320050-128322340 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 26;1 N jcn_only_AD chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 30;64 N jcn_only_AD CUFF.574 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29943295-29945280 chr6:29943294-29943295 27;9 N alternative_donor CUFF.620 chr6 + chr6:112604395-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604730-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 16;0 N cassette CUFF.623 chr6 - chr6:114281183-114292020;chr6:114281183-114289797 chr6:114281183-114283530;chr6:114283559-114289797,chr6:114283559-114292020 chr6:114283531-114283558 232;90 N alternative_donor CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 1;9 K jcn_only_AD CUFF.579 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 109;28 N alternative_donor CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 10;0 N coord_cassette CUFF.600 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 9;65 N alternative_first_exon chr6 - chr6:5109726-5113304,chr6:5109726-5144371;chr6:5109726-5260880 chr6:5109726-5132951 chr6:5260881-5261260 chr6:5132952-5133224 22;97 N alternative_acceptor CUFF.561 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 0;14 N alternative_acceptor CUFF.628 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 2;70 N jcn_only_AD CUFF.628 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 90;5 N jcn_only_AA CUFF.628 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 106;5 K jcn_only_AD CUFF.643 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 152;23 N coord_cassette CUFF.595 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859082-39859155;chr6:39859399-39859539 10;16 N alternative_first_exon CUFF.644 chr6 + chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 17;77 K alternative_first_exon CUFF.596 chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41516115 chr6:41491964-41515198 chr6:41513738-41513824;chr6:41513827-41514040;chr6:41516116-41516450 chr6:41515199-41515369 106;17 N intron_retention CUFF.623 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 12;9 N alternative_acceptor CUFF.580 chr6 - chr6:31939459-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31938925-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 40;89 K intron_retention CUFF.579 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 31;5 K jcn_only_AA CUFF.557 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 27;13 K jcn_only_AD CUFF.626 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 136;19 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 28;1 K jcn_only_AD CUFF.619 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 76;43 K cassette CUFF.581 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 34;31 N cassette CUFF.553 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 119;636 N alternative_donor CUFF.628 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 53;3 N jcn_only_AD CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 159;9 K alternative_acceptor CUFF.557 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 27;50 K cassette CUFF.581 chr6 + chr6:32125498-32130344 chr6:32125498-32125616;chr6:32125702-32130344 chr6:32125617-32125701 6;153 K mutually_exclusive CUFF.620 chr6 + chr6:112558118-112666314,chr6:112666362-112668493 chr6:112558118-112664599,chr6:112664981-112668493 chr6:112666315-112666361 chr6:112664600-112664980 30;50 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 20;72 N jcn_only_AD CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 151;16 K alternative_donor CUFF.579 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 109;12 N jcn_only_AA CUFF.598 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 174;18 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 28;33 N alternative_acceptor CUFF.628 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 64;2 N alternative_first_exon CUFF.571 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109666-28109807 chr6:28109909-28110041 5;27 N jcn_only_AA CUFF.628 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 84;28 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 16;0 N alternative_acceptor CUFF.628 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 70;2 N alternative_acceptor chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 12;3 K intron_retention CUFF.595 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 14;3 N alternative_acceptor CUFF.598 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 178;4 N alternative_acceptor CUFF.561 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 14;0 N jcn_only_AD CUFF.619 chr6 + chr6:112375365-112375537 chr6:112375374-112375537 chr6:112375365-112375373 chr6:112375364-112375365 41;3 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 3;5 N jcn_only_AA CUFF.598 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 159;31 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 17;102 N jcn_only_AA CUFF.610 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 chr6:90337302-90337415;chr6:90338831-90338957 391;19 K cassette CUFF.604 chr6 - chr6:75975055-75994117 chr6:75975055-75977356;chr6:75977465-75994117 chr6:75977357-75977464 4;22 N alternative_donor chr6 - chr6:128320050-128322340;chr6:128320050-128324341 chr6:128320050-128326228 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 5;22 N jcn_only_AD CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 154;13 N cassette CUFF.610 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 chr6:90312748-90312846;chr6:90321991-90322089 10;261 N jcn_only_AA CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939503-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 181;20 K alternative_donor CUFF.626 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 66;65 N alternative_acceptor CUFF.598 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 154;28 N jcn_only_AA CUFF.579,CUFF.584 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 186;34 N jcn_only_AA chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 23;20 N alternative_acceptor CUFF.598 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 115;67 K alternative_donor CUFF.626 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 114;17 K jcn_only_AA CUFF.558 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 15;221 K alternative_first_exon CUFF.583 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812561-32812647;chr6:32821889-32822066 chr6:32811913-32812051 44;10 N alternative_donor CUFF.643 chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 89;17 N alternative_acceptor CUFF.620 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 12;59 N jcn_only_AA CUFF.628 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 61;28 N cassette CUFF.626 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 15;153 N alternative_acceptor CUFF.628 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 45;0 N jcn_only_AD CUFF.557 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 27;36 N alternative_donor CUFF.581 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 78;2 N alternative_acceptor CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 120;9 N jcn_only_AD CUFF.643 chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 89;25 N jcn_only_AD CUFF.626 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 10;54 K intron_retention CUFF.637 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 55;43 N alternative_last_exon CUFF.628 chr6 - chr6:128563748-128718710 chr6:128643456-128718710 chr6:128563666-128563747 chr6:128642184-128643455 5;140 K alternative_first_exon CUFF.644 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443156-161443259 3;17 K intron_retention CUFF.579 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 174;11 N cassette CUFF.553 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 644;94 N alternative_donor CUFF.610 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 10;0 N alternative_acceptor CUFF.619 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 52;1 N jcn_only_AA CUFF.628 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 46;65 N alternative_donor CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 16;0 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 16;13 K alternative_first_exon CUFF.635 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665143-144665440 7;681 K jcn_only_AA CUFF.580 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 206;65 N alternative_donor chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 0;70 N cassette CUFF.581 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 113;125 N cassette CUFF.630 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 36;139 N jcn_only_AA CUFF.628 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 62;22 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 3;83 N jcn_only_AD CUFF.617 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 262;38 K intron_retention CUFF.580 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 65;5 N jcn_only_AA chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 12;89 N alternative_donor CUFF.581 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 73;7 N jcn_only_AA CUFF.598 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 187;4 N alternative_donor CUFF.626 chr6 + chr6:126320760-126329537 chr6:126328101-126329537 chr6:126320760-126328100 chr6:126320759-126320760 103;1 N alternative_acceptor chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 16;30 K cassette CUFF.598 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 40;140 N jcn_only_AA CUFF.628 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 64;26 N jcn_only_AD chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 119;70 N jcn_only_AD CUFF.620 chr6 + chr6:112604730-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 58;28 N jcn_only_AD chr6 - chr6:128540242-128551876;chr6:128540242-128643183 chr6:128540242-128561179 26;62 N alternative_last_exon CUFF.561 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5240759-5240956;chr6:5102827-5109725 chr6:5216851-5216971 66;56 N jcn_only_AD CUFF.628 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 53;59 K alternative_donor CUFF.571 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 6;24 N alternative_donor CUFF.581 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 9;71 N alternative_donor CUFF.610 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 chr6:90340152-90343560;chr6:90338831-90338942 63;248 N coord_cassette CUFF.553 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 96;661 N jcn_only_AD CUFF.628 chr6 - chr6:128540242-128561179;chr6:128540242-128551876 chr6:128540242-128643183 75;13 K alternative_acceptor CUFF.648 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 24;34 N jcn_only_AA CUFF.561 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 57;14 K alternative_acceptor CUFF.624 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 4;37 K intron_retention CUFF.630 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 239;6 N alternative_donor CUFF.561,CUFF.628 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 70;0 K intron_retention CUFF.623 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 180;36 N jcn_only_AD CUFF.628 chr6 - chr6:128540242-128561179;chr6:128540242-128643183 chr6:128540242-128551876 74;13 N jcn_only_AD CUFF.610 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 chr6:90327673-90327750;chr6:90326278-90326376 245;61 K alternative_first_exon CUFF.637 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145118826-145119126 chr6:145120449-145120609 397;383 K intron_retention CUFF.619 chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 41;4 N jcn_only_AD CUFF.596 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 28;20 K alternative_first_exon CUFF.583 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821889-32822066;chr6:32811913-32812051 chr6:32812561-32812647 40;14 N jcn_only_AA CUFF.561 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 53;19 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 18;66 K jcn_only_AD CUFF.626 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 84;71 N alternative_donor CUFF.628 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 70;2 N jcn_only_AD CUFF.604,CUFF.628 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 69;26 K intron_retention CUFF.644 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 166;38 K alternative_first_exon CUFF.580 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31940165 chr6:31939097-31939462 39;97 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 32;0 N cassette CUFF.610 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 chr6:90276553-90276815;chr6:90312748-90312846 3;227 N cassette CUFF.571 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 6;12 N jcn_only_AA CUFF.628 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 278;14 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 15;15 N alternative_donor CUFF.565 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 96;65 N alternative_acceptor CUFF.630 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 319;17 N alternative_donor CUFF.610 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 chr6:90276553-90276815 10;0 N intron_retention CUFF.598 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 9;25 N alternative_donor CUFF.617 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 262;27 N jcn_only_AD CUFF.628 chr6 - chr6:128320050-128326228;chr6:128320050-128322340 chr6:128320050-128324341 chr6:128322341-128324341;chr6:128324342-128326228 chr6:128324341-128324342;chr6:128326228-128326229 45;36 N alternative_acceptor CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939459-31939705;chr6:31939503-31939705 chr6:31939359-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 120;9 N alternative_donor CUFF.610 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 chr6:90338831-90338957;chr6:90337302-90337415 391;10 N jcn_only_AD CUFF.620 chr6 + chr6:112604395-112627530;chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604730-112627530 chr6:112558118-112604369;chr6:112604370-112604394;chr6:112604395-112604729 chr6:112558117-112558118;chr6:112604369-112604370;chr6:112604394-112604395 70;16 N alternative_acceptor CUFF.598 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 174;10 N jcn_only_AA CUFF.580 chr6 - chr6:31938925-31939705;chr6:31939503-31939705;chr6:31939359-31939705 chr6:31939459-31939705 chr6:31938925-31939358;chr6:31939359-31939458;chr6:31939459-31939502 chr6:31938924-31938925;chr6:31939358-31939359;chr6:31939458-31939459 177;24 N jcn_only_AD CUFF.579 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 3;97 K alternative_first_exon CUFF.585 chr6 + chr6:34482846-34494019;chr6:34434048-34494019 chr6:34452922-34494019 chr6:34433916-34434047 chr6:34452759-34452921 18;54 N cassette CUFF.610 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 chr6:90326278-90326376;chr6:90331641-90331745 11;206 K intron_retention CUFF.580 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 206;18 N jcn_only_AA chr6 + chr6:161413116-161491639 chr6:161413116-161455290 16;3 N intron_retention chr6 + chr6:31928872-31929323 chr6:31928871-31928872;chr6:31929323-31929324 31;18 N cassette CUFF.620 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 7;67 N cassette CUFF.553 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 9;851 K cassette CUFF.610 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 chr6:90142841-90143094;chr6:90305635-90305733 118;264 K intron_retention CUFF.584 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 169;9 K jcn_only_AA CUFF.626 chr6 + chr6:126329619-126332398 chr6:126329619-126329802 63;20 K alternative_first_exon CUFF.565 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472327;chr6:13486870-13487985 chr6:13486243-13486501 32;17 K cassette CUFF.584 chr6 + chr6:33240504-33243573 chr6:33240504-33243276;chr6:33243435-33243573 chr6:33243277-33243434 99;35 K alternative_last_exon CUFF.619,CUFF.620 chr6 + chr6:112558118-112598381,chr6:112558118-112600322,chr6:112558118-112604255;chr6:112558118-112627530 chr6:112558118-112613285 chr6:112627531-112627885 chr6:112613286-112614032 76;28 K alternative_first_exon CUFF.553 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292097-292560 54;435 N jcn_only_AA CUFF.628 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 37;53 K intron_retention CUFF.579 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 28;11 K intron_retention CUFF.584 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 188;44 N jcn_only_AA CUFF.628 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 189;104 K cassette CUFF.610 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 chr6:90327673-90327750;chr6:90333129-90333263 13;209 K jcn_only_AA CUFF.577 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 24;36 N jcn_only_AA CUFF.644 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 73;3 K cassette CUFF.624 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 28;7 N cassette CUFF.579 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 31;8 N alternative_acceptor CUFF.644 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 12;5 N cassette CUFF.595 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 10;16 N jcn_only_AA CUFF.628 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 13;48 K alternative_first_exon CUFF.596 chr6 - chr6:41491964-41513826;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513737 chr6:41513827-41514040;chr6:41516116-41516450;chr6:41515199-41515369 chr6:41513738-41513824 99;24 N cassette CUFF.620 chr6 + chr6:112558118-112668493 chr6:112558118-112666314;chr6:112666362-112668493 chr6:112666315-112666361 7;30 N intron_retention chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 39;2 K cassette CUFF.536 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 chr5:139886420-139886562;chr5:139889222-139889397 12;33 N alternative_acceptor CUFF.495 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 7;7 N alternative_donor CUFF.549 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 5;17 K alternative_last_exon CUFF.516,CUFF.528 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 11;53 N alternative_donor CUFF.510 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 15;45 N cassette CUFF.533 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 10;54 N jcn_only_AD CUFF.546,CUFF.551 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 160;22 K intron_retention CUFF.537 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 89;9 N alternative_acceptor CUFF.551 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 82;5 N jcn_only_AA chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 46;15 N cassette CUFF.495 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 29;13 K intron_retention CUFF.537 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 153;24 K alternative_first_exon CUFF.537 chr5 + chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055,chr5:140027593-140028055 chr5:140026643-140026894 chr5:140027333-140027509 21;165 N jcn_only_AA CUFF.498,CUFF.502 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 65;12 N jcn_only_AA CUFF.551 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 32;186 K jcn_only_AA CUFF.497,CUFF.537 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 15;16 K alternative_donor CUFF.510 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 176;36 N cassette CUFF.551 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 306;37 N alternative_acceptor CUFF.511 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900873-64902994 chr5:64900872-64900873 46;3 K alternative_donor CUFF.537 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 153;46 K alternative_last_exon CUFF.492 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184421 chr5:36181920-36182619 55;181 N jcn_only_AA CUFF.546 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 212;178 N alternative_donor CUFF.533 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 189;16 N cassette CUFF.492 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 131;73 K alternative_first_exon CUFF.499 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809027-44809665 chr5:44809874-44810094 55;98 N jcn_only_AA CUFF.498,CUFF.509 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 11;26 N alternative_last_exon CUFF.546 chr5 - chr5:149785885-149786714 chr5:149786524-149786714 chr5:149785598-149785884 chr5:149786268-149786523 50;571 K intron_retention CUFF.536 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;51 K cassette CUFF.505 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 152;161 N alternative_donor CUFF.546 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 127;21 N alternative_donor CUFF.546,CUFF.551 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 134;14 N alternative_acceptor chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 94;2 N jcn_only_AD CUFF.494 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 12;145 N alternative_donor CUFF.543 chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 22;25 N jcn_only_AA CUFF.536 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;12 K alternative_donor CUFF.529 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 16;25 K cassette CUFF.505 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 118;38 K cassette CUFF.507 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 7;10 N alternative_acceptor CUFF.551 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 32;239 N alternative_donor CUFF.536 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 31;96 K intron_retention CUFF.549 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 59;16 K alternative_last_exon CUFF.525 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127292496-127292613 chr5:127357218-127359990 61;52 N alternative_acceptor CUFF.536 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.519 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 52;231 K intron_retention CUFF.489 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 31;47 N mutually_exclusive CUFF.525 chr5 - chr5:127302621-127412638,chr5:127412786-127417664 chr5:127302621-127396835,chr5:127396937-127417664 chr5:127412639-127412785 chr5:127396836-127396936 12;26 K alternative_last_exon CUFF.502 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52177705-52177853 chr5:52162872-52163029 56;48 N cassette CUFF.510 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 20;164 K cassette CUFF.528 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 34;18 N alternative_donor CUFF.540 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 3;27 K alternative_first_exon CUFF.519 chr5 - chr5:82969369-82970344,chr5:82969369-82978143;chr5:82969369-82971106 chr5:82969369-82969951 chr5:82971107-82971156 chr5:82969952-82970223 134;67 K jcn_only_AD CUFF.488 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 3;18 N alternative_acceptor CUFF.536 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 17;8 K alternative_last_exon CUFF.498,CUFF.542 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980452 42;185 N alternative_donor CUFF.488,CUFF.510 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 223;1 K jcn_only_AA CUFF.500,CUFF.536 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;47 K alternative_acceptor CUFF.497,CUFF.537 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 15;9 K intron_retention CUFF.507 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 37;23 N jcn_only_AA CUFF.509 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 5;20 N cassette CUFF.510 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 26;96 N intron_retention chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 42;169 K alternative_donor CUFF.511 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 98;31 K intron_retention chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 32;151 N jcn_only_AD CUFF.526 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 2;14 K jcn_only_AA CUFF.507 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 33;38 K intron_retention CUFF.511 chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 10;19 K alternative_first_exon CUFF.542 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616861-145616995 chr5:145631387-145631438 52;2 K intron_retention CUFF.529 chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 5;27 K jcn_only_AD CUFF.537 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 153;78 N jcn_only_AA CUFF.546 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 386;3 K jcn_only_AD CUFF.540 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 5;63 N mutually_exclusive CUFF.525 chr5 - chr5:127302621-127412638,chr5:127412786-127418426 chr5:127302621-127396835,chr5:127396937-127418426 chr5:127412639-127412785 chr5:127396836-127396936 12;26 K jcn_only_AA CUFF.492,CUFF.542 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 113;3 N intron_retention chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 7;26 K intron_retention CUFF.538 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 17;13 K alternative_donor CUFF.507,CUFF.551 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 16;4 K alternative_last_exon CUFF.536 chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 chr5:139907769-139909381 64;90 K alternative_donor CUFF.540 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 5;37 N alternative_acceptor CUFF.523 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 10;65 K jcn_only_AD CUFF.506 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 144;62 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 35;113 K intron_retention CUFF.551 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 106;86 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 43;23 N jcn_only_AD CUFF.533 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 84;159 N alternative_acceptor chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 7;11 K intron_retention CUFF.551 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 186;56 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 10;10 K intron_retention CUFF.509 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 18;7 N jcn_only_AA CUFF.523 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 10;94 K intron_retention CUFF.540 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 43;13 K alternative_donor CUFF.494,CUFF.519 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 31;11 K jcn_only_AD CUFF.507,CUFF.551 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 16;5 K alternative_acceptor CUFF.537 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 153;53 N alternative_donor CUFF.533 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 175;30 K alternative_last_exon CUFF.501,CUFF.502 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52183647-52183797 chr5:52178712-52178772 9;16 N jcn_only_AD CUFF.510 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 15;15 N jcn_only_AA CUFF.546 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 276;113 N jcn_only_AA CUFF.551 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 82;22 K intron_retention CUFF.537 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 20;3 N jcn_only_AA CUFF.536 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 23;14 K alternative_first_exon CUFF.510 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214537 147;59 N alternative_acceptor CUFF.546 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 96;69 N cassette CUFF.536 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 chr5:139866543-139866645;chr5:139884406-139884551 20;14 K jcn_only_AA CUFF.505 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 147;97 N jcn_only_AD CUFF.536 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 31;162 K alternative_last_exon CUFF.528,CUFF.536 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656666 31;19 N jcn_only_AD CUFF.547 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 23;46 N alternative_acceptor CUFF.498,CUFF.509 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 11;0 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 26;11 K cassette CUFF.540 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 7;87 N alternative_acceptor chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 46;8 K alternative_donor CUFF.488 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 3;20 K alternative_first_exon CUFF.547 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684032 47;37 N coord_cassette CUFF.510 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60200614;chr5:60200701-60214091 chr5:60199475-60199543;chr5:60200615-60200700 26;92 N cassette CUFF.525 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 70;46 N jcn_only_AA chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121362637-121411009 chr5:121411009-121411010 94;30 K jcn_only_AD CUFF.536 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 chr5:139916974-139917174 43;64 N alternative_acceptor CUFF.536 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 13;12 K intron_retention CUFF.551 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 26;29 N intron_retention chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 38;44 K alternative_acceptor CUFF.507 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 33;23 N jcn_only_AA CUFF.536 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 chr5:139918504-139918668 22;205 K jcn_only_AA CUFF.537 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 153;113 N cassette CUFF.529 chr5 + chr5:134181903-134190587 chr5:134181903-134182352;chr5:134182554-134190587 chr5:134182353-134182553 5;60 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 68;113 N alternative_acceptor CUFF.546 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 165;0 K alternative_first_exon CUFF.500 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681968-50682460 chr5:50683324-50683583 11;26 K alternative_first_exon CUFF.526 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795880-128796175 chr5:128796795-128797450 52;8 K alternative_last_exon CUFF.501 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 19;113 K intron_retention CUFF.529 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 16;26 K intron_retention CUFF.537 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 24;13 K alternative_last_exon CUFF.532 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194745-137194952 chr5:137219277-137219310 39;29 K intron_retention CUFF.551 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 116;117 K alternative_first_exon CUFF.543 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783855 chr5:148758768-148758858 29;8 N alternative_donor CUFF.533 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 46;159 N jcn_only_AD CUFF.510 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 32;32 N cassette CUFF.549 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 29;36 N intron_retention chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 69;177 N alternative_acceptor CUFF.498,CUFF.502 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 65;11 N cassette CUFF.510 chr5 - chr5:60199544-60214091 chr5:60199544-60200614;chr5:60200701-60214091 chr5:60200615-60200700 20;121 K alternative_first_exon CUFF.528 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630136-131630702 chr5:131631060-131631314 40;31 N jcn_only_AD CUFF.546 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 135;46 K jcn_only_AA CUFF.547 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 59;26 N intron_retention chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 17;38 N jcn_only_AA CUFF.510 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 136;4 K intron_retention CUFF.511 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 27;35 K intron_retention chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 chr5:139865174-139865317;chr5:139866543-139866645 19;30 N jcn_only_AA CUFF.546 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 363;27 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 10;102 K intron_retention CUFF.546 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 181;7 N alternative_donor CUFF.494 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 12;78 N jcn_only_AA chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 7;19 K jcn_only_AD CUFF.529 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 16;5 K alternative_last_exon CUFF.547 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683063-162683276 18;18 K jcn_only_AD CUFF.510 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 176;73 K jcn_only_AD CUFF.511 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 98;29 K jcn_only_AD CUFF.494,CUFF.519 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 31;21 N jcn_only_AA CUFF.536 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 chr5:139876105-139876863;chr5:139884406-139884551 2;10 K intron_retention CUFF.546 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 814;185 N cassette CUFF.551 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 53;73 N jcn_only_AA CUFF.546 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 321;69 N jcn_only_AD CUFF.549 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 5;28 N cassette CUFF.525 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 46;84 N jcn_only_AD CUFF.540 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 3;15 N alternative_donor CUFF.510 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 136;1 N alternative_donor CUFF.510 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 32;99 N jcn_only_AD CUFF.495,CUFF.511 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 16;27 K alternative_acceptor CUFF.500,CUFF.536 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 64;53 K cassette CUFF.510 chr5 - chr5:60224787-60240758 chr5:60224787-60227933;chr5:60227976-60240758 chr5:60227934-60227975 121;40 N jcn_only_AD CUFF.533 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 205;38 N alternative_donor CUFF.495,CUFF.511 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 16;29 K alternative_last_exon CUFF.547 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465059-162465479 11;44 K cassette CUFF.492 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 105;66 N intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 112;28 N jcn_only_AA CUFF.511 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900873-64902994 chr5:64900872-64900873 46;14 N jcn_only_AD CUFF.533 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 196;46 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 chr5:139862165-139862252 11;16 K jcn_only_AA CUFF.494 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 39;63 N jcn_only_AD CUFF.488,CUFF.510 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 223;2 K intron_retention CUFF.536 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 chr5:139914947-139915123 47;47 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 15;107 K intron_retention CUFF.540 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 91;4 K alternative_first_exon CUFF.489 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2753065 chr5:2751279-2751852 30;128 N alternative_acceptor CUFF.546 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 157;8 N cassette CUFF.505 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 11;149 K cassette CUFF.540 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 21;115 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 5;7 N cassette CUFF.509 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 6;15 N jcn_only_AD CUFF.543 chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 22;284 N cassette CUFF.546 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 21;562 N alternative_acceptor CUFF.546 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 135;30 N alternative_donor CUFF.526 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 2;2 K alternative_donor CUFF.506 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 144;41 K cassette CUFF.511 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 125;10 N cassette CUFF.506 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 26;188 K intron_retention CUFF.511 chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 14;17 N intron_retention chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 46;24 N alternative_acceptor CUFF.546 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 107;58 N alternative_acceptor CUFF.519 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 52;115 N intron_retention chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 32;61 K alternative_last_exon CUFF.486 chr5 - chr5:472081-472793,chr5:472709-472793;chr5:466642-472793 chr5:471939-472793 chr5:466239-466641 chr5:471893-471938 98;41 K alternative_donor CUFF.511 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 14;11 N jcn_only_AA CUFF.495 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 7;12 N cassette CUFF.525 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 13;48 K coord_cassette CUFF.525 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 35;43 N cassette CUFF.509 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 49;18 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 43;32 N alternative_acceptor CUFF.509 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 5;16 N jcn_only_AA chr5 + chr5:36163859-36177066 chr5:36163859-36166620 24;76 N alternative_acceptor CUFF.536 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 chr5:139918504-139918668 22;63 K cassette CUFF.510 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 154;103 N alternative_acceptor CUFF.510 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 136;2 K cassette CUFF.511 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 66;42 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 20;5 K jcn_only_AD CUFF.511 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 14;10 N jcn_only_AD CUFF.510 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 136;4 K cassette CUFF.537 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 113;77 K cassette CUFF.453 chr4 + chr4:77192922-77230296 chr4:77192922-77211054;chr4:77211214-77230296 chr4:77211055-77211213 14;4 N cassette CUFF.461 chr4 - chr4:83819216-83821229;chr4:83816928-83821229 chr4:83816928-83820865,chr4:83819216-83820865;chr4:83820891-83821229 chr4:83820866-83820890 194;258 N jcn_only_AA CUFF.476 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 162;14 K jcn_only_AA CUFF.459 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 11;82 K jcn_only_AA CUFF.480 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 19;10 N alternative_acceptor CUFF.436 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 10;5 N jcn_only_AD chr4 + chr4:120449945-120471533 chr4:120465001-120471533 35;12 K cassette CUFF.425 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 42;192 K alternative_first_exon CUFF.426,CUFF.480 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162680563-162680683 chr4:162585968-162586132 32;56 K cassette CUFF.480 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 20;37 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;26 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 18;99 N alternative_donor CUFF.427 chr4 + chr4:6911233-6925099;chr4:6912329-6925099 chr4:6911679-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 31;0 K alternative_first_exon CUFF.426 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6473290;chr4:6382822-6383503 chr4:6382822-6525169 chr4:6473291-6473461;chr4:6383504-6383675 chr4:6525170-6525359 207;122 N jcn_only_AA chr4 - chr4:36152667-36160351 chr4:36159173-36160351 12;27 N jcn_only_AA CUFF.436 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 10;4 K alternative_first_exon CUFF.466 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133845 chr4:120116866-120116996 7;30 N jcn_only_AD CUFF.427 chr4 + chr4:6911233-6925099;chr4:6911679-6925099 chr4:6912329-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 27;10 K intron_retention CUFF.437 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 132;20 N coord_cassette CUFF.463 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 103;73 K cassette CUFF.424 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 131;92 K jcn_only_AD CUFF.451,CUFF.452 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 53;14 K alternative_last_exon CUFF.418,CUFF.484 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186291344 chr4:186284539-186285125 24;65 K cassette CUFF.417 chr4 + chr4:647109-647640 chr4:647109-647225;chr4:647497-647640 chr4:647226-647496 92;44 N jcn_only_AD CUFF.463 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 287;62 K cassette CUFF.434 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 43;23 N jcn_only_AA CUFF.424 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 218;12 N jcn_only_AA CUFF.476 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 10;2 K jcn_only_AA CUFF.417 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 10;39 K cassette CUFF.425 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 45;183 N jcn_only_AA CUFF.434 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 35;9 K jcn_only_AD CUFF.484 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 7;16 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 7;12 K jcn_only_AA CUFF.463 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 6;141 N alternative_acceptor CUFF.463 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 267;17 N jcn_only_AA CUFF.463 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 287;112 K jcn_only_AA CUFF.437 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 70;74 N jcn_only_AA CUFF.451 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 3;78 K intron_retention chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 170;8 N jcn_only_AA CUFF.484 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 18;52 N alternative_donor CUFF.463 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 271;21 N alternative_acceptor CUFF.476 chr4 - chr4:152065203-152069073 chr4:152065441-152069073 chr4:152065203-152065440 chr4:152065202-152065203 25;12 K alternative_donor CUFF.453 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 8;12 N jcn_only_AD CUFF.427 chr4 + chr4:6911233-6925099;chr4:6912329-6925099 chr4:6911679-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 36;2 K intron_retention CUFF.422 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 186;64 N alternative_acceptor CUFF.417 chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 91;27 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 12;75 K alternative_first_exon CUFF.442 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502957 chr4:56502248-56502546 77;267 K alternative_first_exon CUFF.476,CUFF.480 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152187238-152187491 chr4:152147320-152147392 114;28 N jcn_only_AD CUFF.476 chr4 - chr4:152065203-152069073 chr4:152065203-152065371 chr4:152065372-152069073 chr4:152069073-152069074 25;7 N alternative_acceptor CUFF.454 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 14;14 K jcn_only_AD CUFF.453 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 8;15 K cassette CUFF.453 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 14;10 K cassette CUFF.467 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 84;93 K jcn_only_AD CUFF.468 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 12;71 K cassette CUFF.480 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 63;53 N cassette CUFF.442 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 101;180 N cassette CUFF.451 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 6;55 K cassette CUFF.450 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 33;12 K cassette CUFF.443 chr4 + chr4:57308027-57312860 chr4:57308027-57312522;chr4:57312544-57312860 chr4:57312523-57312543 46;24 K cassette CUFF.419 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 36;75 K alternative_first_exon CUFF.428 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430276 9;16 K jcn_only_AD CUFF.426,CUFF.461 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 197;260 N alternative_donor CUFF.467 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 21;106 K alternative_first_exon CUFF.434 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256472-20256698 4;39 N alternative_donor CUFF.467 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 54;0 K intron_retention CUFF.424 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 170;59 N alternative_acceptor CUFF.476 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 10;1 N jcn_only_AA CUFF.454 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 14;111 N alternative_donor CUFF.476 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 162;0 K alternative_donor CUFF.426 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 54;35 N intron_retention chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 38;30 N alternative_donor chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 22;11 N alternative_donor CUFF.427 chr4 + chr4:6911233-6925099;chr4:6911679-6925099 chr4:6912329-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 26;5 N jcn_only_AA CUFF.467 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 21;15 N alternative_donor CUFF.437 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 2;7 N jcn_only_AD CUFF.427 chr4 + chr4:6912329-6925099;chr4:6911679-6925099 chr4:6911233-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 12;26 K alternative_first_exon CUFF.425,CUFF.463 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202392 chr4:6196218-6196311 200;9 K jcn_only_AA CUFF.470 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 11;25 K alternative_acceptor CUFF.463 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 6;69 N cassette CUFF.476 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 12;11 N coord_cassette CUFF.456 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 9;48 N cassette CUFF.422 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 36;154 N alternative_acceptor CUFF.436 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 10;1 N jcn_only_AA CUFF.467 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 116;11 K coord_cassette CUFF.453 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189922-77192720;chr4:77192922-77211054;chr4:77211214-77230296 chr4:77189813-77189921;chr4:77192721-77192921;chr4:77211055-77211213 14;8 N cassette CUFF.454 chr4 - chr4:77979789-77996624 chr4:77979789-77987401;chr4:77987559-77996624 chr4:77987402-77987558 23;117 K intron_retention CUFF.449 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 6;108 N alternative_acceptor CUFF.422 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 19;99 N jcn_only_AA chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 56;12 N jcn_only_AD CUFF.467 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 21;216 K cassette CUFF.425 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 114;136 N alternative_acceptor CUFF.422 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 6;136 N cassette CUFF.437 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 14;96 N cassette CUFF.454 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 9;35 N alternative_donor CUFF.434 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 13;0 N cassette CUFF.442 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 58;201 K alternative_donor CUFF.468 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 12;35 N alternative_donor CUFF.476 chr4 - chr4:152065203-152069073 chr4:152065203-152065371 chr4:152065372-152069073 chr4:152069073-152069074 25;1 N alternative_donor CUFF.434 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 29;1 N jcn_only_AA CUFF.463 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 134;264 N jcn_only_AA CUFF.422 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 6;207 K alternative_acceptor CUFF.417 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 10;20 K intron_retention CUFF.422 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 199;22 N alternative_acceptor CUFF.463 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 20;264 K jcn_only_AD CUFF.426 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 54;78 N coord_cassette CUFF.442 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 58;159 N alternative_acceptor CUFF.463 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 281;3 N alternative_acceptor CUFF.476 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 162;1 N alternative_acceptor CUFF.450 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 13;13 K cassette CUFF.424 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 72;147 N jcn_only_AA CUFF.467 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 54;20 N jcn_only_AD CUFF.434 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 29;6 K alternative_first_exon CUFF.424,CUFF.451 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3957051-3957241 chr4:3956687-3956861 155;102 K alternative_donor CUFF.484 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 13;27 K alternative_first_exon CUFF.426 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6473290 chr4:6382822-6383503 chr4:6525170-6525359;chr4:6473291-6473461 chr4:6383504-6383675 266;63 K alternative_first_exon CUFF.454 chr4 - chr4:77987559-77996251;chr4:77987559-77996624 chr4:77987559-77995942 chr4:77996625-77997230 chr4:77995943-77996153 96;52 N alternative_acceptor CUFF.467 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 116;10 N jcn_only_AA CUFF.450 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 13;9 K alternative_first_exon CUFF.429 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821681-13821895 55;42 N jcn_only_AD CUFF.434 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 13;3 K alternative_last_exon CUFF.480 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416335-162416632 49;17 K intron_retention CUFF.463 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 264;65 K intron_retention CUFF.422 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 150;12 N jcn_only_AD chr4 - chr4:6537105-6565286 chr4:6537105-6557260 15;13 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 18;3 N cassette CUFF.417 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 20;40 N intron_retention chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 13;10 K alternative_last_exon CUFF.470 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849885 chr4:130829789-130829858 12;13 K alternative_last_exon CUFF.429 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932853 29;153 K cassette CUFF.426 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 125;119 K intron_retention CUFF.443 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 11;61 K alternative_last_exon CUFF.477 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143656-153143911 96;22 N cassette CUFF.442 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 110;176 K alternative_first_exon CUFF.452 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 chr4:77116860-77117059 chr4:77097590-77097681 18;8 N jcn_only_AA CUFF.463 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 376;22 K intron_retention CUFF.461 chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 197;45 N jcn_only_AD chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 22;10 N intron_retention chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 11;59 K cassette CUFF.465 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 10;32 N alternative_acceptor CUFF.467 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 21;3 K cassette CUFF.456 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 63;46 N jcn_only_AA CUFF.434 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 13;2 K coord_cassette CUFF.422 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 47;135 K alternative_last_exon CUFF.434 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554365 57;25 N jcn_only_AA CUFF.434 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 29;7 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 10;22 K alternative_first_exon CUFF.445 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774990-57775205 chr4:57775305-57775753 18;22 N intron_retention CUFF.476 chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 7;13 N alternative_donor CUFF.443 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 11;4 N alternative_acceptor CUFF.424 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 218;2 N jcn_only_AA CUFF.417,CUFF.434 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 10;3 N jcn_only_AA CUFF.437 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 2;40 K intron_retention CUFF.417 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 64;12 N alternative_donor CUFF.427 chr4 + chr4:6912329-6925099;chr4:6911679-6925099 chr4:6911233-6925099 chr4:6911233-6911678;chr4:6911679-6912328 chr4:6911232-6911233;chr4:6911678-6911679 5;26 N alternative_donor chr4 - chr4:99403327-99405549;chr4:99403327-99405535 chr4:99403327-99407888 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 28;264 K coord_cassette CUFF.453 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189967-77192720;chr4:77192922-77211054;chr4:77211214-77230296 chr4:77189813-77189966;chr4:77192721-77192921;chr4:77211055-77211213 14;9 K alternative_acceptor CUFF.459 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 11;62 K alternative_last_exon CUFF.451 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464357-74464435 chr4:74469796-74470304 6;40 K alternative_donor CUFF.484 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 7;10 N jcn_only_AA CUFF.422 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 19;202 K alternative_first_exon CUFF.484 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125327-186125621 chr4:186131273-186131409 15;14 N jcn_only_AD CUFF.476 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 162;15 K intron_retention CUFF.481 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 20;10 N coord_cassette CUFF.437 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 9;67 N jcn_only_AA CUFF.436 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 10;102 N jcn_only_AD chr4 + chr4:6969152-6995910 chr4:6989077-6995910 5;3 K intron_retention CUFF.474 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 10;16 N alternative_acceptor CUFF.437 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 2;20 N alternative_acceptor CUFF.422 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 12;123 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 3;23 K alternative_last_exon CUFF.468 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124846339-124846492 chr4:124784730-124786728 73;109 K alternative_first_exon CUFF.462 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419694 chr4:85417646-85418103 35;4 K alternative_first_exon CUFF.456 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81104955-81105209 chr4:81106519-81106672 44;36 K mutually_exclusive CUFF.442 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 75;71 K cassette CUFF.453 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 34;11 K intron_retention CUFF.461 chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 260;25 K mutually_exclusive CUFF.449 chr4 - chr4:69057035-69071752,chr4:69071816-69078079 chr4:69057035-69057124,chr4:69057243-69078079 chr4:69071753-69071815 chr4:69057125-69057242 110;13 N alternative_donor CUFF.434 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 10;0 K cassette CUFF.449 chr4 - chr4:69071816-69083623 chr4:69071816-69078079;chr4:69078196-69083623 chr4:69078080-69078195 49;116 K cassette CUFF.452 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 30;16 N coord_cassette CUFF.436 chr4 - chr4:36014454-36047600 chr4:36014454-36017007;chr4:36017255-36017521;chr4:36017581-36020765;chr4:36020909-36047600 chr4:36017008-36017254;chr4:36017522-36017580;chr4:36020766-36020908 6;12 N jcn_only_AD CUFF.437 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 2;49 N jcn_only_AA CUFF.422 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 12;150 K cassette CUFF.450 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 81;25 K cassette CUFF.484 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 26;38 K alternative_acceptor CUFF.480 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 19;5 K intron_retention CUFF.467 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 21;16 N alternative_acceptor CUFF.434 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 13;0 K intron_retention CUFF.422 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 207;24 K alternative_first_exon CUFF.484 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186216940-186217184 14;21 N intron_retention chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 6;62 N jcn_only_AD CUFF.467 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 54;21 N cassette CUFF.461 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83821229 chr4:83816845-83816927 13;21 K intron_retention CUFF.465 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 52;30 N jcn_only_AA CUFF.417 chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 91;9 K jcn_only_AD CUFF.484 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 13;40 N jcn_only_AA CUFF.476 chr4 - chr4:152065203-152069073 chr4:152065441-152069073 chr4:152065203-152065440 chr4:152065202-152065203 25;6 N intron_retention chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 36;17 N jcn_only_AD chr4 - chr4:99403327-99405549;chr4:99403327-99405535 chr4:99403327-99407888 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 85;264 N alternative_acceptor CUFF.434 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 29;0 N alternative_acceptor CUFF.484 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 18;104 K cassette CUFF.442 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 132;293 N alternative_acceptor CUFF.417,CUFF.434 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 10;0 K intron_retention CUFF.448 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 5;8 N intron_retention chr4 - chr4:36161128-36162080 chr4:36161127-36161128;chr4:36162080-36162081 2;15 K cassette CUFF.417 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 67;25 N alternative_acceptor CUFF.467 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 54;1 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 10;0 K alternative_last_exon CUFF.474 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240564-142241054 chr4:142242518-142242535 92;17 N alternative_acceptor chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 56;9 N cassette CUFF.424 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 4;125 N jcn_only_AD CUFF.434 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 10;3 K alternative_first_exon CUFF.468 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582908-124582988 chr4:124695373-124695530 52;44 N coord_cassette CUFF.442 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 21;89 N coord_cassette CUFF.424 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 4;74 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 13;10 K mutually_exclusive CUFF.419 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 22;27 K alternative_first_exon CUFF.426 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6383503 chr4:6382822-6473290 chr4:6525170-6525359;chr4:6383504-6383675 chr4:6473291-6473461 244;85 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 22;81 K alternative_donor CUFF.426,CUFF.461 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 197;151 N cassette CUFF.427 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 12;89 N alternative_donor CUFF.463 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 285;7 N jcn_only_AD CUFF.463 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 327;23 N jcn_only_AD CUFF.443 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 11;6 N alternative_acceptor CUFF.380 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 244;47 K cassette CUFF.387 chr3 + chr3:132948196-133098595 chr3:132948196-133097185;chr3:133097401-133098595 chr3:133097186-133097400 229;77 K alternative_first_exon CUFF.315,CUFF.329 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071350 chr3:38065647-38066196 89;51 K alternative_first_exon CUFF.357 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97642984-97643255;chr3:97634454-97634580 chr3:97652346-97652351 55;17 N jcn_only_AD CUFF.329 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 64;13 N jcn_only_AA CUFF.360 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107574077-107575926 chr3:107567966-107575926 257;5 N jcn_only_AD chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 12;20 N alternative_acceptor CUFF.376,CUFF.408 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 82;1 K alternative_first_exon CUFF.415 chr3 - chr3:196214450-196229743 chr3:196214450-196215477 chr3:196229744-196230644 chr3:196215478-196215554 15;1 K intron_retention CUFF.324 chr3 - chr3:33434107-33434803 chr3:33434106-33434107;chr3:33434803-33434804 70;2 N jcn_only_AD CUFF.343 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 18;6 N jcn_only_AA CUFF.360 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 45;20 N jcn_only_AA CUFF.310 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 139;38 K intron_retention CUFF.319 chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 48;8 N cassette CUFF.387 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 58;14 N alternative_acceptor CUFF.360 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 44;3 N intron_retention chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 36;7 N jcn_only_AA CUFF.374 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 27;18 N alternative_donor CUFF.405 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 13;3 K coord_cassette CUFF.346 chr3 - chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110;chr3:57570192-57582800 chr3:57569625-57569734;chr3:57570111-57570191 175;41 N jcn_only_AA chr3 - chr3:107578109-107586157 chr3:107585601-107586157 21;35 N mutually_exclusive CUFF.386 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 16;21 K cassette CUFF.312 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 37;12 N alternative_donor CUFF.336,CUFF.355 chr3 - chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 109;0 N alternative_first_exon CUFF.319 chr3 + chr3:28336018-28357823;chr3:28304872-28357823;chr3:28283304-28357823;chr3:28339842-28357823 chr3:28333446-28357823 chr3:28304564-28304871;chr3:28283075-28283303;chr3:28339710-28339841 chr3:28333224-28333445 150;51 N alternative_donor chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 15;6 N alternative_donor CUFF.378 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 37;0 N jcn_only_AD CUFF.351 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 70;11 K alternative_donor CUFF.310 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 79;86 K intron_retention CUFF.384 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 94;44 K intron_retention CUFF.329 chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 153;17 N cassette CUFF.386 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 85;61 N jcn_only_AD CUFF.402 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 481;19 N mutually_exclusive CUFF.360 chr3 - chr3:107576050-107591814,chr3:107591874-107594976 chr3:107576050-107586157,chr3:107586273-107594976 chr3:107591815-107591873 chr3:107586158-107586272 92;30 K intron_retention CUFF.324 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 23;35 N intron_retention chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 17;88 K alternative_last_exon CUFF.376 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 11;112 N jcn_only_AA chr3 - chr3:33592888-33600798 chr3:33600668-33600798 18;39 K intron_retention CUFF.319 chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 199;9 N jcn_only_AA 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;99 N alternative_acceptor CUFF.364 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 660;6 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 5;39 N alternative_acceptor chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 37;6 N alternative_donor CUFF.360 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 222;2 N jcn_only_AA chr3 - chr3:49349088-49355741 chr3:49354912-49355741 18;20 N jcn_only_AA CUFF.315 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 65;119 K jcn_only_AA CUFF.374 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 7;94 K intron_retention CUFF.319 chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 22;10 N mutually_exclusive CUFF.398 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 127;8 N alternative_acceptor CUFF.360 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 60;17 N alternative_donor CUFF.402 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 9;30 N jcn_only_AD CUFF.376 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 38;6 K cassette CUFF.378 chr3 - chr3:125032501-125042152 chr3:125032501-125033780;chr3:125033898-125042152 chr3:125033781-125033897 94;9 K alternative_last_exon CUFF.384 chr3 + chr3:126135352-126137300;chr3:126135352-126137297 chr3:126135352-126135614 chr3:126137298-126137368 chr3:126135615-126135706 49;65 K intron_retention CUFF.370 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 71;17 N jcn_only_AD CUFF.351 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 57;23 N jcn_only_AA chr3 - chr3:33638227-33644443 chr3:33644082-33644443 11;12 N jcn_only_AD CUFF.367 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 140;106 K jcn_only_AA CUFF.376 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 48;93 N cassette CUFF.398 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 14;69 N alternative_donor chr3 - chr3:93646252-93647545;chr3:93646252-93677354 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 0;109 K cassette CUFF.336 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 18;12 N cassette CUFF.315 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 23;83 N jcn_only_AA CUFF.360 chr3 - chr3:107575172-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107574273-107575926 228;35 N jcn_only_AA chr3 - chr3:33556172-33557514;chr3:33543261-33557514 chr3:33552257-33557514 56;47 N cassette CUFF.398 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 22;574 N jcn_only_AD chr3 - chr3:46982556-47007473;chr3:46982556-47017842 chr3:46982556-47018126 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 116;372 N jcn_only_AD chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;37 K cassette CUFF.403 chr3 - chr3:165504100-165547304 chr3:165504100-165545773;chr3:165545858-165547304 chr3:165545774-165545857 chr3:165503933-165504099;chr3:165547305-165548829 32;17 N jcn_only_AD chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 12;20 N alternative_donor CUFF.364 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 827;4 N alternative_acceptor CUFF.387 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133426337-133472438 chr3:133472438-133472439 28;1 N jcn_only_AD CUFF.402 chr3 - chr3:33614847-33617660;chr3:33614847-33615964 chr3:33614847-33614931 135;3 K cassette CUFF.324 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 22;77 N mutually_exclusive CUFF.398 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 127;8 K intron_retention CUFF.319 chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 70;11 N coord_cassette CUFF.398 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 16;235 N jcn_only_AD chr3 - chr3:33614847-33617660;chr3:33614847-33614931 chr3:33614847-33615964 113;24 N alternative_donor CUFF.324 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 36;1 K intron_retention CUFF.380 chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 75;160 K coord_cassette CUFF.368 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 12;10 K alternative_acceptor CUFF.374 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 7;46 N alternative_acceptor CUFF.315 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 539;1 K intron_retention CUFF.319 chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 50;4 N cassette CUFF.408 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 31;221 K alternative_first_exon CUFF.357 chr3 + chr3:97643256-97652537;chr3:97652352-97652537 chr3:97634581-97652537 chr3:97642984-97643255;chr3:97652346-97652351 chr3:97634454-97634580 69;3 K alternative_last_exon CUFF.387 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133109024-133109178 chr3:133105268-133105495 79;4 N intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 24;24 N intron_retention chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 12;21 N alternative_donor CUFF.408 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 82;0 K alternative_first_exon CUFF.324 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482416 chr3:33481228-33481870 10;23 N alternative_donor CUFF.367 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 123;80 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 20;30 N alternative_acceptor CUFF.374 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120352176-120352437 chr3:120352175-120352176 27;19 K cassette CUFF.401 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 41;63 N jcn_only_AA CUFF.324 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 36;20 N alternative_acceptor CUFF.384 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 5;74 N jcn_only_AD CUFF.341 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 30;15 N jcn_only_AD CUFF.382 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45729868-45730511 chr3:45730511-45730512 16;2284 K cassette CUFF.340 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 49;142 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 89;35 N jcn_only_AD CUFF.315,CUFF.351 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 73;7 N mutually_exclusive CUFF.360 chr3 - chr3:107586273-107591814,chr3:107591874-107596748;chr3:107586273-107594976,chr3:107595034-107596748 chr3:107586273-107596159,chr3:107596345-107596748 chr3:107591815-107591873;chr3:107594977-107595033 chr3:107596160-107596344 35;94 N jcn_only_AD CUFF.370 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 91;10 N jcn_only_AD chr3 - chr3:33602464-33612218 chr3:33602464-33605455 13;6 K alternative_first_exon CUFF.357 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97652346-97652351;chr3:97634454-97634580 chr3:97642984-97643255 20;52 K cassette CUFF.387 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 54;216 N jcn_only_AD chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73618301 chr3:73453547-73605850 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 68;45 N jcn_only_AA chr3 - chr3:33614847-33617660 chr3:33615989-33617660 111;26 N jcn_only_AA CUFF.310 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 162;16 N jcn_only_AD CUFF.342 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 336;39 N alternative_donor CUFF.364 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 649;50 N alternative_acceptor CUFF.310 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 alternative_acceptor CUFF.340 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 82;18 N jcn_only_AA chr3 - chr3:33552257-33557514;chr3:33556172-33557514 chr3:33543261-33557514 59;44 N jcn_only_AD CUFF.387 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 163;16 N jcn_only_AD CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73651504 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 97;15 N cassette CUFF.380 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 104;259 K intron_retention CUFF.342 chr3 + chr3:51747327-51747979 chr3:51747326-51747327;chr3:51747979-51747980 351;3 K jcn_only_AD CUFF.310 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 99;43 N intron_retention chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 27;264 K alternative_first_exon CUFF.402 chr3 - chr3:156271571-156272745;chr3:156271571-156271781 chr3:156271571-156272525 chr3:156272746-156272973;chr3:156271782-156272006 chr3:156272526-156272725 311;43 K intron_retention CUFF.329 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 172;32 N jcn_only_AA CUFF.360 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 28;37 N jcn_only_AD CUFF.384 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 88;31 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 7;13 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 chr3:73453299-73453546 15;4 N mutually_exclusive CUFF.360 chr3 - chr3:107586273-107591814,chr3:107591874-107596748;chr3:107586273-107596159,chr3:107596345-107596748 chr3:107586273-107594976,chr3:107595034-107596748 chr3:107591815-107591873;chr3:107596160-107596344 chr3:107594977-107595033 104;25 N alternative_donor CUFF.361 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 30;1 K intron_retention CUFF.308 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 16;24 N jcn_only_AD CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 99;13 N coord_cassette CUFF.408 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;153 N mutually_exclusive CUFF.380 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 48;25 K intron_retention CUFF.400 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 37;10 N alternative_donor CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73651504 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 0;15 K intron_retention CUFF.367 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 21;40 K coord_cassette CUFF.374 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 14;17 N cassette CUFF.346 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 18;75 N jcn_only_AD chr3 - chr3:124951499-124953143 chr3:124951499-124951952 23;17 K cassette CUFF.324 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 25;32 N jcn_only_AD chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 27;11 K intron_retention CUFF.324 chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 16;2 N alternative_donor CUFF.382 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45729868-45730511 chr3:45730511-45730512 16;2725 N jcn_only_AA chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 53;35 N alternative_donor CUFF.381 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 406;7 K mutually_exclusive CUFF.319 chr3 + chr3:28357915-28360222,chr3:28360371-28360999 chr3:28357915-28358243,chr3:28358351-28360999 chr3:28360223-28360370 chr3:28358244-28358350 59;28 N cassette CUFF.341 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 26;38 N jcn_only_AD CUFF.336,CUFF.355 chr3 - chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 133;18 N jcn_only_AD CUFF.378 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 37;11 N jcn_only_AA CUFF.384 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 5;85 N coord_cassette CUFF.398 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 22;128 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 406;26 N cassette CUFF.360 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 113;198 K alternative_first_exon CUFF.319 chr3 + chr3:28283304-28304781,chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283075-28283303 chr3:28295160-28295256 44;36 N alternative_first_exon CUFF.319 chr3 + chr3:28336018-28357823;chr3:28304872-28357823;chr3:28283304-28357823;chr3:28333446-28357823 chr3:28339842-28357823 chr3:28304564-28304871;chr3:28283075-28283303;chr3:28333224-28333445 chr3:28339710-28339841 170;31 N jcn_only_AA chr3 - chr3:33602464-33612218 chr3:33605459-33612218 13;6 N jcn_only_AA CUFF.387,CUFF.393 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 60;112 N alternative_acceptor CUFF.346 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 42;48 N jcn_only_AA chr3 - chr3:33673864-33686248 chr3:33673867-33686248 161;18 N cassette CUFF.315 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 140;112 K intron_retention CUFF.324 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 39;42 N alternative_donor chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 34;0 N jcn_only_AA CUFF.364 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 660;69 K cassette CUFF.403 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 chr3:165503933-165504099;chr3:165555102-165555260 77;61 N jcn_only_AA chr3 - chr3:124996654-125042231 chr3:125032501-125042231 30;28 N cassette CUFF.408 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 33;80 N alternative_donor CUFF.384 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 88;17 N alternative_donor CUFF.398 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 141;0 N alternative_donor chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73618301 chr3:73453547-73605850 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 15;0 N alternative_acceptor CUFF.395 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 135;9 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27258056 57;99 N jcn_only_AD CUFF.415 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 20;11 N alternative_donor CUFF.353 chr3 - chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73482789 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 15;0 K cassette CUFF.319 chr3 + chr3:28357915-28360999 chr3:28357915-28358243;chr3:28358351-28360999 chr3:28358244-28358350 199;29 N jcn_only_AA CUFF.360 chr3 - chr3:107574273-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107575172-107575926 255;8 N jcn_only_AA CUFF.360 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 61;11 N jcn_only_AD CUFF.360 chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 55;5 K cassette CUFF.404 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 chr3:173628260-173628659;chr3:173632680-173632779 45;18 K cassette CUFF.401 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 43;93 N cassette CUFF.381 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 4;264 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 16;42 N alternative_acceptor CUFF.360 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 38;5 K coord_cassette CUFF.403 chr3 - chr3:165504100-165555101 chr3:165504100-165545773;chr3:165545858-165547304;chr3:165548830-165555101 chr3:165545774-165545857;chr3:165547305-165548829 chr3:165503933-165504099;chr3:165555102-165555260 77;25 K intron_retention CUFF.380 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 26;122 K alternative_acceptor CUFF.376 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 48;53 N jcn_only_AD chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 15;60 N alternative_donor CUFF.341 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 30;4 N alternative_acceptor chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 53;0 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 25;56 K alternative_last_exon CUFF.361 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474484-108474752 19;24 N alternative_donor CUFF.387 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 163;1 N alternative_last_exon chr3 + chr3:28283304-28357823 chr3:28283304-28304781 chr3:28357824-28361253 chr3:28304782-28304871 1;2 N jcn_only_AD CUFF.381 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 406;5 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 112;12 N mutually_exclusive CUFF.360 chr3 - chr3:107586273-107594976,chr3:107595034-107596748;chr3:107586273-107596159,chr3:107596345-107596748 chr3:107586273-107591814,chr3:107591874-107596748 chr3:107594977-107595033;chr3:107596160-107596344 chr3:107591815-107591873 119;10 K jcn_only_AA CUFF.414 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 27;4 K intron_retention CUFF.336 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 281;149 K intron_retention CUFF.336 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 110;14 N jcn_only_AA CUFF.360 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 64;8 K cassette CUFF.342 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 18;318 K intron_retention CUFF.336 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 165;55 N jcn_only_AA CUFF.360 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 56;8 N jcn_only_AA chr3 - chr3:49354912-49362134;chr3:49349088-49362134 chr3:49350047-49362134 22;8 N alternative_donor CUFF.402 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 445;14 N cassette CUFF.360 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 132;130 K intron_retention CUFF.329 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 176;6 N cassette CUFF.341 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 73;24 N jcn_only_AA CUFF.319 chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 51;11 N jcn_only_AA CUFF.387 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133426337-133472438 chr3:133472438-133472439 28;15 K jcn_only_AD CUFF.347 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 20;137 K alternative_first_exon CUFF.343 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263798 chr3:52259543-52260179 6;9 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 30;439 N jcn_only_AD chr3 - chr3:107574077-107574854;chr3:107574077-107574159 chr3:107574077-107575926 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 58;215 K cassette CUFF.374 chr3 - chr3:120394711-120400943 chr3:120394711-120396750;chr3:120396839-120400943 chr3:120396751-120396838 84;39 K alternative_first_exon CUFF.393 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133406976-133407208 chr3:133418289-133418467 46;177 N alternative_donor chr3 - chr3:49349088-49362134;chr3:49349088-49351303 chr3:49349088-49355741 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 13;2 N jcn_only_AA CUFF.376,CUFF.408 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 82;30 K jcn_only_AD CUFF.319 chr3 + chr3:28283304-28304781 chr3:28283393-28304781 chr3:28283304-28283392 chr3:28283303-28283304 3;41 N alternative_donor CUFF.367 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 156;47 N jcn_only_AA chr3 - chr3:49349088-49362134;chr3:49350047-49362134 chr3:49354912-49362134 18;12 K intron_retention CUFF.329 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 131;18 N jcn_only_AD CUFF.367 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 21;62 K alternative_last_exon CUFF.315 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203757-27204092 210;198 K alternative_acceptor CUFF.324 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 37;32 K intron_retention CUFF.324 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 57;10 N alternative_donor CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850 chr3:73453547-73618301 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 15;0 N alternative_donor CUFF.353 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 chr3:73450073-73450160;chr3:73453299-73453546 128;2 N alternative_donor CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73610601 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 15;0 N alternative_acceptor CUFF.398 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 688;1 K intron_retention CUFF.357 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 38;45 K cassette CUFF.384 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 81;282 K intron_retention CUFF.353 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 chr3:73431578-73432956;chr3:73433800-73434081 26;93 N cassette CUFF.386 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 87;49 N alternative_acceptor CUFF.386 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 151;1 N jcn_only_AA CUFF.360 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107567966-107575926 chr3:107574077-107575926 48;215 K jcn_only_AA CUFF.395 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 14;59 K alternative_donor CUFF.402 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 347;47 K cassette CUFF.330 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 19;11 N cassette CUFF.398 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 46;345 N alternative_donor CUFF.360 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 53;2 N jcn_only_AD CUFF.405 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 13;7 K alternative_first_exon CUFF.341,CUFF.361 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476313 chr3:108475667-108475862 28;15 N jcn_only_AD CUFF.402 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 449;20 N alternative_donor CUFF.360 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 217;7 N jcn_only_AA chr3 - chr3:33552257-33557514;chr3:33543261-33557514 chr3:33556172-33557514 91;12 N intron_retention chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 26;12 N jcn_only_AA CUFF.346 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 114;9 N jcn_only_AA CUFF.393 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 133;38 N jcn_only_AD chr3 - chr3:49349088-49355741;chr3:49349088-49351303 chr3:49349088-49362134 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 28;10 N jcn_only_AD CUFF.315 chr3 - chr3:107576050-107585498 chr3:107576050-107577977 37;26 N alternative_donor chr3 - chr3:107574077-107574854;chr3:107574077-107574159 chr3:107574077-107575926 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 9;215 N coord_cassette CUFF.342 chr3 + chr3:51741184-51749077 chr3:51741184-51742863;chr3:51743450-51746488;chr3:51747327-51747979;chr3:51748138-51749077 chr3:51742864-51743449;chr3:51746489-51747326;chr3:51747980-51748137 69;419 N jcn_only_AD CUFF.367 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 199;47 N jcn_only_AD CUFF.360 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 225;48 N jcn_only_AD chr3 - chr3:33614847-33614931;chr3:33614847-33615964 chr3:33614847-33617660 27;111 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 89;36 N jcn_only_AA CUFF.360 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 19;53 N cassette CUFF.380 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 35;399 N jcn_only_AD CUFF.364 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 649;103 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;439 N alternative_donor chr3 - chr3:46982556-47007473;chr3:46982556-47017842 chr3:46982556-47018126 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 45;372 K alternative_first_exon CUFF.382 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073185 14;29 N jcn_only_AD CUFF.360 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 263;10 N alternative_acceptor CUFF.346 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 84;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 19;15 N alternative_donor chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 12;3 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 41;39 K jcn_only_AD CUFF.310 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 79;68 N alternative_acceptor CUFF.360 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 39;8 K alternative_first_exon CUFF.380 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125797816,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802935 chr3:125787090-125802896 chr3:125802936-125803240 chr3:125802897-125802922 285;17 N jcn_only_AA CUFF.346 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 74;48 N cassette CUFF.374 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 37;37 N alternative_first_exon CUFF.319 chr3 + chr3:28336018-28357823;chr3:28304872-28357823;chr3:28339842-28357823;chr3:28333446-28357823 chr3:28283304-28357823 chr3:28304564-28304871;chr3:28339710-28339841;chr3:28333224-28333445 chr3:28283075-28283303 177;24 K alternative_last_exon CUFF.308 chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8819163-8819222 chr3:8787212-8788451 7;75 N jcn_only_AA CUFF.340 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 82;10 K alternative_donor CUFF.319 chr3 + chr3:28283304-28304781 chr3:28283393-28304781 chr3:28283304-28283392 chr3:28283303-28283304 3;26 N mutually_exclusive CUFF.346 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 17;46 N jcn_only_AA CUFF.398 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 688;12 N alternative_acceptor CUFF.319 chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 51;1 N alternative_donor CUFF.402 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 481;3 K intron_retention CUFF.395 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 35;56 N jcn_only_AA chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 37;10 N alternative_donor CUFF.367 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 21;45 K cassette CUFF.376 chr3 + chr3:122843191-122864368 chr3:122843191-122849326;chr3:122849464-122864368 chr3:122849327-122849463 14;51 N jcn_only_AD chr3 - chr3:33543261-33557514 chr3:33543261-33552049 44;64 N alternative_donor chr3 - chr3:49349088-49355741;chr3:49349088-49351303 chr3:49349088-49362134 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 5;10 N alternative_donor CUFF.355 chr3 - chr3:93646252-93647545;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 109;0 N jcn_only_AA CUFF.310,CUFF.384 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 78;50 K intron_retention CUFF.324 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 11;25 N jcn_only_AD chr3 - chr3:57582951-57583365 chr3:57582951-57583058 12;27 N jcn_only_AD CUFF.408 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 82;21 K cassette CUFF.401 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 49;52 N intron_retention chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 4;475 K intron_retention CUFF.336 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 94;39 K cassette CUFF.403 chr3 - chr3:165491295-165503932 chr3:165491295-165495504;chr3:165495584-165503932 chr3:165495505-165495583 chr3:165490692-165491294;chr3:165503933-165504099 106;17 N jcn_only_AD CUFF.353 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 chr3:73450073-73450160;chr3:73453299-73453546 128;16 N jcn_only_AA CUFF.393 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 150;21 K cassette CUFF.384 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 73;340 K intron_retention CUFF.376 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 89;20 K alternative_acceptor CUFF.398 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 647;35 K intron_retention CUFF.329 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 87;43 K cassette CUFF.395 chr3 - chr3:133894884-133901845 chr3:133894884-133896784;chr3:133896918-133901845 chr3:133896785-133896917 41;71 K alternative_first_exon CUFF.354 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492659-75492797 chr3:75496234-75496447 5;31 N alternative_first_exon CUFF.319 chr3 + chr3:28336018-28357823;chr3:28283304-28357823;chr3:28339842-28357823;chr3:28333446-28357823 chr3:28304872-28357823 chr3:28283075-28283303;chr3:28339710-28339841;chr3:28333224-28333445 chr3:28304564-28304871 119;82 K coord_cassette CUFF.387 chr3 + chr3:132948196-133109023 chr3:132948196-133097185;chr3:133097401-133098595;chr3:133100006-133109023 chr3:133097186-133097400;chr3:133098596-133100005 54;58 N cassette CUFF.341 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 19;43 N alternative_donor CUFF.351 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_first_exon CUFF.380 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332753-27332881 chr3:27332108-27332285 55;363 N cassette CUFF.346 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 232;101 K alternative_first_exon CUFF.355,CUFF.386 chr3 - chr3:127299007-127306912,chr3:127299007-127310732,chr3:127299007-127313642;chr3:127299007-127309725 chr3:127299007-127309252 chr3:127309726-127310034 chr3:127309253-127309653 290;154 N alternative_donor chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 9;33 K coord_cassette CUFF.401 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 49;53 N jcn_only_AD CUFF.341,CUFF.402 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 459;10 K alternative_first_exon CUFF.402 chr3 - chr3:156271571-156272745;chr3:156271571-156272525 chr3:156271571-156271781 chr3:156272746-156272973;chr3:156272526-156272725 chr3:156271782-156272006 174;180 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 7;20 N alternative_donor chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 12;0 K intron_retention CUFF.340 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 82;67 N alternative_donor CUFF.367 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 127;76 N jcn_only_AD CUFF.402 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 9;15 N alternative_donor chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 12;5 N alternative_acceptor CUFF.324 chr3 - chr3:33454320-33458249 chr3:33457593-33458249 chr3:33454320-33457592 chr3:33454319-33454320 36;1 K cassette CUFF.319 chr3 + chr3:28357915-28360999 chr3:28357915-28360222;chr3:28360371-28360999 chr3:28360223-28360370 199;59 N cassette CUFF.398 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 239;283 N jcn_only_AA CUFF.360 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 60;7 N alternative_acceptor 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 N alternative_acceptor CUFF.346 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 54;36 N jcn_only_AD CUFF.336 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 435;53 N jcn_only_AA CUFF.340 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 19;111 K coord_cassette CUFF.386 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 66;36 N jcn_only_AD CUFF.360 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 42;18 N jcn_only_AA CUFF.395 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 135;17 N intron_retention chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 10;63 N alternative_acceptor CUFF.310,CUFF.384 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 78;7 N alternative_donor CUFF.376 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 38;4 N jcn_only_AA CUFF.386 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 151;20 N jcn_only_AA CUFF.341 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 25;131 N jcn_only_AA CUFF.310 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 153;24 N jcn_only_AD CUFF.364 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 827;86 N jcn_only_AA CUFF.380 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 244;36 N jcn_only_AD CUFF.353 chr3 - chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73482789 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 103;10 N jcn_only_AD chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 98;27 N alternative_acceptor CUFF.360 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 11;36 K alternative_last_exon CUFF.354 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501812 16;47 N cassette CUFF.315 chr3 - chr3:27394411-27410715 chr3:27394411-27405177;chr3:27405336-27410715 chr3:27405178-27405335 32;18 K intron_retention CUFF.324 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 25;24 K jcn_only_AD CUFF.402 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 347;48 N cassette CUFF.378 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 2;86 K intron_retention CUFF.309 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 9;7 N alternative_donor CUFF.336 chr3 - chr3:46982556-47017842;chr3:46982556-47018126 chr3:46982556-47007473 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 413;4 N jcn_only_AA CUFF.386 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 198;16 N jcn_only_AD CUFF.360 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 53;7 N jcn_only_AD CUFF.336 chr3 - chr3:46982556-47017842;chr3:46982556-47018126 chr3:46982556-47007473 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 425;63 N jcn_only_AD chr3 - chr3:93646252-93647545;chr3:93646252-93677354 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 43;109 K jcn_only_AD CUFF.380,CUFF.402 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 26;244 N jcn_only_AA CUFF.346 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 57;66 N jcn_only_AD CUFF.398 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 141;4 N intron_retention chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 23;53 K cassette CUFF.378 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 49;21 N cassette CUFF.367 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 23;61 K jcn_only_AD CUFF.381 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 18;440 K alternative_first_exon CUFF.315,CUFF.386 chr3 - chr3:27233734-27235551;chr3:27233734-27243000 chr3:27233734-27236027 chr3:27243001-27243071 chr3:27236028-27236265 235;163 N jcn_only_AA CUFF.315 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 539;27 K cassette CUFF.368 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 12;42 N jcn_only_AA chr3 - chr3:107586425-107591814 chr3:107591328-107591814 68;14 N jcn_only_AD CUFF.361 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 30;43 N jcn_only_AA chr3 - chr3:49354912-49362134;chr3:49350047-49362134 chr3:49349088-49362134 20;10 K intron_retention CUFF.331 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 3;7 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 110;15 K jcn_only_AA CUFF.398 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 647;71 K intron_retention CUFF.342 chr3 + chr3:51747327-51749077 chr3:51747326-51747327;chr3:51749077-51749078 18;4 N cassette CUFF.360 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 122;196 N alternative_acceptor CUFF.310 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 N jcn_only_AD CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850 chr3:73453547-73618301 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 89;23 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 3;28 N cassette CUFF.360 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 55;219 N jcn_only_AD chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764865-132911671 chr3:132764864-132764865 34;76 N jcn_only_AD CUFF.367 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 154;93 N cassette CUFF.346 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 193;85 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 chr3:73453299-73453546 15;17 N coord_cassette CUFF.378 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125057665;chr3:125057756-125093945 chr3:125050002-125050082;chr3:125057666-125057755 2;23 N jcn_only_AD CUFF.355 chr3 - chr3:93646252-93647545;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406 chr3:93677354-93677355;chr3:93692406-93692407 127;24 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838352 3;76 N jcn_only_AD chr3 - chr3:33552257-33557514 chr3:33552257-33556071 47;15 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 99;26 N coord_cassette CUFF.351 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 30;144 N alternative_donor CUFF.351 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 26;8 N mutually_exclusive CUFF.398 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 127;8 K intron_retention CUFF.380 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 244;29 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 27;16 N jcn_only_AD CUFF.324 chr3 - chr3:33454320-33458249 chr3:33454320-33457497 chr3:33457498-33458249 chr3:33458249-33458250 36;7 N jcn_only_AD chr3 - chr3:49349088-49362134;chr3:49349088-49351303 chr3:49349088-49355741 chr3:49351304-49355741;chr3:49355742-49362134 chr3:49355741-49355742;chr3:49362134-49362135 20;18 K cassette CUFF.408 chr3 + chr3:186648624-186681572 chr3:186648624-186660135;chr3:186660216-186681572 chr3:186660136-186660215 163;324 K intron_retention CUFF.380 chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 14;140 N alternative_donor CUFF.415 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 20;1 N cassette CUFF.381 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 8;290 N jcn_only_AD CUFF.341 chr3 - chr3:33617768-33623312 chr3:33617768-33618693 18;28 N alternative_acceptor CUFF.340 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 19;75 N alternative_acceptor CUFF.310 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 cassette CUFF.380 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 35;162 N alternative_donor CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73610601;chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 15;0 N cassette CUFF.408 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 13;98 N alternative_acceptor CUFF.386 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 198;3 N jcn_only_AA chr3 - chr3:33617768-33623312 chr3:33618757-33623312 18;14 K intron_retention CUFF.340 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 6;35 K alternative_donor CUFF.380,CUFF.402 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 26;191 K alternative_first_exon CUFF.380,CUFF.402 chr3 - chr3:156271571-156272525;chr3:156271571-156271781 chr3:156271571-156272745 chr3:156272526-156272725;chr3:156271782-156272006 chr3:156272746-156272973 223;131 K cassette CUFF.374 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 56;85 K intron_retention CUFF.367 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 99;39 N alternative_donor CUFF.329 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 64;2 K jcn_only_AA CUFF.324 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 37;59 N jcn_only_AD CUFF.353 chr3 - chr3:73453547-73482789;chr3:73453547-73651504;chr3:73453547-73523605;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73610601 chr3:73482790-73523605;chr3:73523606-73605850;chr3:73605851-73610601;chr3:73610602-73618301;chr3:73618302-73651504 chr3:73523605-73523606;chr3:73605850-73605851;chr3:73610601-73610602;chr3:73618301-73618302;chr3:73651504-73651505 chr3:73453299-73453546 107;6 N alternative_donor CUFF.336 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 376;41 N jcn_only_AD chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 23;37 N alternative_donor CUFF.341,CUFF.402 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 453;6 K alternative_acceptor CUFF.414 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 27;2 N alternative_donor CUFF.370 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 91;7 N alternative_acceptor CUFF.360 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 6;37 N alternative_acceptor CUFF.360 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 42;1 N alternative_donor CUFF.315,CUFF.351 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.342 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 336;26 K cassette CUFF.368 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 29;7 N alternative_donor CUFF.307 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 54;40 N intron_retention chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 51;36 N alternative_donor CUFF.217 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 15;0 N alternative_donor CUFF.148 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 149;1 N alternative_acceptor CUFF.272 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 30;8 N alternative_donor CUFF.307 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 549;2 N jcn_only_AD CUFF.204 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 24;14 K alternative_first_exon CUFF.281 chr2 + chr2:191334376-191334483;chr2:191307732-191334483 chr2:191302288-191334483 chr2:191334181-191334375;chr2:191307223-191307731 chr2:191300703-191302287 235;181 N jcn_only_AD CUFF.289 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 111;12 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 28;209 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 13;137 K intron_retention CUFF.235 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 22;20 N jcn_only_AA CUFF.262 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 9;2 N jcn_only_AA CUFF.152,CUFF.300 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 476;41 N jcn_only_AD CUFF.210 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 5;4 K alternative_first_exon CUFF.215,CUFF.291 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090290 chr2:211089039-211089586 96;58 N alternative_donor CUFF.189 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505226-33516854 chr2:33505225-33505226 37;1 N alternative_acceptor chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 6;6 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 7;0 K alternative_last_exon CUFF.286 chr2 - chr2:204306804-204309590;chr2:204259813-204309590 chr2:204306137-204309590 chr2:204306192-204306803;chr2:204259068-204259812 chr2:204304156-204306136 72;35 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177042438 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 289;107 K intron_retention chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 382;42 N alternative_donor CUFF.210 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 5;0 N intron_retention chr2 - chr2:262787-264781 chr2:262786-262787;chr2:264781-264782 10;5 N alternative_donor CUFF.307 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 11;540 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 47;29 N intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 35;71 N alternative_acceptor chr2 - chr2:253116-264083 chr2:263373-264083 chr2:253116-263372 chr2:253115-253116 23;31 K cassette CUFF.259 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 77;150 N jcn_only_AA CUFF.272 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 82;4 N alternative_acceptor CUFF.295 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 25;6 N jcn_only_AA CUFF.213 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 13;13 N alternative_acceptor CUFF.247,CUFF.293 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 36;0 N alternative_donor CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630379-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 23;2 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 14;11 K jcn_only_AA CUFF.266 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 46;11 N cassette CUFF.220 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 32;157 K intron_retention CUFF.302 chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 5;3 N alternative_donor CUFF.307 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 50;44 N jcn_only_AD CUFF.297 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 263;2 N jcn_only_AD CUFF.143 chr2 - chr2:175689247-175711042 chr2:175689247-175711036 20;15 N jcn_only_AD CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630487-207631367 chr2:207630243-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 30;6 K intron_retention CUFF.247 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 2;13 N alternative_acceptor CUFF.272 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 8;30 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 7;0 N alternative_acceptor CUFF.148 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 129;10 N mutually_exclusive CUFF.286 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 28;10 N alternative_donor CUFF.297 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 259;2 N intron_retention chr2 - chr2:253116-264781 chr2:253115-253116;chr2:264781-264782 72;6 N alternative_donor CUFF.207 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 216;30 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 15;30 N jcn_only_AA CUFF.148,CUFF.307 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 540;10 K alternative_acceptor CUFF.247,CUFF.293 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 41;174 N coord_cassette CUFF.243 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;80 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440493-242440892 chr2:242440263-242440892 54;62 N alternative_donor CUFF.148 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 186;0 N coord_cassette CUFF.305 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440155-242440211;chr2:242440893-242441123 20;283 K intron_retention CUFF.276 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 394;42 K coord_cassette CUFF.259 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 31;4 N alternative_acceptor CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 361;2 N jcn_only_AD CUFF.297 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 245;20 K intron_retention CUFF.247 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 14;26 K alternative_first_exon CUFF.281 chr2 + chr2:191334376-191334483;chr2:191302288-191334483 chr2:191307732-191334483 chr2:191334181-191334375;chr2:191300703-191302287 chr2:191307223-191307731 320;96 N intron_retention chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 19;90 K intron_retention CUFF.304 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 107;13 K alternative_donor CUFF.247 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 15;33 K alternative_last_exon CUFF.266 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057669-174057784 chr2:174062449-174063552 54;30 N mutually_exclusive CUFF.305 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440892,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440893-242441123 13;38 N cassette CUFF.305 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 126;180 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;7 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 27;7 N alternative_donor CUFF.143 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 66;54 N alternative_acceptor chr2 - chr2:675631-676573 chr2:676239-676573 chr2:675631-676238 chr2:675630-675631 28;144 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 38;53 K intron_retention CUFF.164 chr2 - chr2:11593849-11597304 chr2:11593848-11593849;chr2:11597304-11597305 3;113 K intron_retention CUFF.295 chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 22;4 K intron_retention CUFF.305 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 244;26 N jcn_only_AD CUFF.152 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 468;11 K alternative_acceptor CUFF.170 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 4;35 K cassette CUFF.279 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 13;12 K alternative_last_exon CUFF.215 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68357186-68358577 chr2:68358878-68359137 61;56 N jcn_only_AA CUFF.260 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 71;20 N jcn_only_AA CUFF.276 chr2 - chr2:175666540-175673632 chr2:175666541-175673632 chr2:175666540-175666540 chr2:175666539-175666540 2;2204 N alternative_donor CUFF.305 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 265;10 K cassette CUFF.165 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 5;14 N cassette CUFF.305 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 20;267 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 4;12 N alternative_acceptor CUFF.272 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 38;0 N alternative_acceptor CUFF.264,CUFF.300 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 26;0 K alternative_first_exon CUFF.213 chr2 - chr2:61761039-61761557,chr2:61761039-61761692,chr2:61761039-61763336,chr2:61761039-61763844,chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61764696 chr2:61765627-61765838 chr2:61764697-61765418 93;4 K alternative_first_exon CUFF.266 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174136239-174136396 chr2:174074375-174074673 38;14 K alternative_last_exon CUFF.171 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732516 19;30 K cassette CUFF.260 chr2 - chr2:166714915-166727306 chr2:166714915-166721493;chr2:166721588-166727306 chr2:166721494-166721587 30;48 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 16;18 N alternative_donor CUFF.247 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 36;0 N jcn_only_AA CUFF.143 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 232;7 K intron_retention CUFF.305 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 328;97 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 7;12 K intron_retention CUFF.241 chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 52;85 N cassette CUFF.148 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 7;125 K coord_cassette CUFF.295 chr2 + chr2:219433702-219445283 chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283 chr2:219438444-219438514;chr2:219438714-219438956 62;93 K intron_retention CUFF.297 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 37;142 K intron_retention CUFF.228 chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 331;183 N alternative_acceptor CUFF.147 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 13;24 N intron_retention chr2 - chr2:263373-264781 chr2:263372-263373;chr2:264781-264782 209;20 N alternative_acceptor CUFF.189 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 31;6 N jcn_only_AA CUFF.281 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 376;11 N cassette CUFF.305 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 11;204 N jcn_only_AA chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 6;5 K alternative_last_exon CUFF.257 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328645 16;28 N jcn_only_AA CUFF.147 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 15;35 N jcn_only_AD CUFF.276 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 536;9 K jcn_only_AD CUFF.247 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 15;5 N jcn_only_AA CUFF.272 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 56;30 N alternative_donor CUFF.152 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 185;7 N alternative_acceptor CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656 chr2:73268061-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 12;351 N cassette CUFF.143 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 73;107 K intron_retention CUFF.297 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 63;81 N alternative_acceptor CUFF.220 chr2 - chr2:73280681-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73269715-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 362;1 K alternative_acceptor CUFF.300 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 26;14 K intron_retention CUFF.288 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 59;61 N alternative_donor CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177042438 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 46;7 N alternative_donor CUFF.281 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 376;4 N cassette CUFF.286 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 90;32 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 23;6 N jcn_only_AA chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 22;5 K intron_retention CUFF.252 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 125;40 K jcn_only_AA CUFF.286 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 16;172 K intron_retention CUFF.252 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 163;32 N jcn_only_AD CUFF.261 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 348;13 N jcn_only_AD CUFF.307 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 39;44 N jcn_only_AD chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422045-86422460 chr2:86422460-86422461 136;45 N alternative_acceptor CUFF.276 chr2 - chr2:175666540-175673632 chr2:175666541-175673632 chr2:175666540-175666540 chr2:175666539-175666540 2;1103 N alternative_donor CUFF.288 chr2 + chr2:207630379-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630472-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 14;11 N alternative_acceptor CUFF.252 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 334;4 N alternative_donor chr2 - chr2:242435950-242436714;chr2:242435950-242436596 chr2:242435950-242437030 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 31;244 K intron_retention CUFF.171 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 93;15 N coord_cassette CUFF.307 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 7;93 N alternative_donor chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 168;439 N coord_cassette CUFF.297 chr2 + chr2:220094623-220097211 chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211 chr2:220096650-220096762;chr2:220096982-220097084 79;263 K alternative_last_exon CUFF.286 chr2 - chr2:204306137-204309590;chr2:204306804-204309590 chr2:204259813-204309590 chr2:204304156-204306136;chr2:204306192-204306803 chr2:204259068-204259812 99;8 N jcn_only_AA chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 4;106 K alternative_first_exon CUFF.177 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440509 6;101 K intron_retention CUFF.208 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 47;26 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 16;72 N jcn_only_AD CUFF.143 chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 40;36 K intron_retention CUFF.152 chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 112;49 K jcn_only_AD CUFF.297 chr2 + chr2:220095073-220096649 chr2:220095128-220096649 chr2:220095073-220095127 chr2:220095072-220095073 61;111 N alternative_donor CUFF.258 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 4;0 N alternative_donor CUFF.297 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 18;243 K intron_retention CUFF.232 chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 40;43 K intron_retention CUFF.307 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 148;21 N alternative_acceptor CUFF.258 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 4;0 N alternative_acceptor CUFF.213 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 13;22 K intron_retention CUFF.213 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 51;41 N jcn_only_AA CUFF.247 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 9;12 K intron_retention CUFF.307 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 91;75 N intron_retention CUFF.305 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 6;16 K alternative_first_exon CUFF.169,CUFF.177 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194687-25194963 chr2:25194285-25194583 43;267 K cassette CUFF.285 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 46;48 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 37;209 K intron_retention CUFF.293 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 340;45 N cassette CUFF.297 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981 chr2:220096650-220096762 63;258 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 27;77 N alternative_donor CUFF.305 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 254;21 K coord_cassette CUFF.286 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 54;20 K jcn_only_AA CUFF.170 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 4;41 N jcn_only_AD CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630243-207631367 chr2:207630487-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 27;10 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 64;11 N jcn_only_AA CUFF.252 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 334;29 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 20;41 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 37;10 N mutually_exclusive CUFF.143 chr2 - chr2:234273-243502,chr2:243563-247537 chr2:234273-242797,chr2:242872-247537 chr2:243503-243562 chr2:242798-242871 38;10 N jcn_only_AD CUFF.213 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 149;15 N alternative_donor CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177042730 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 49;4 N alternative_donor CUFF.264 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 26;0 K intron_retention CUFF.301 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 111;119 N jcn_only_AD CUFF.215 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 362;39 N alternative_donor chr2 - chr2:676239-677288 chr2:676239-676573 chr2:676574-677288 chr2:677288-677289 8;34 N coord_cassette CUFF.276 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 18;441 K intron_retention CUFF.170 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 135;31 N jcn_only_AA chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 14;28 N jcn_only_AD CUFF.307 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 561;10 N jcn_only_AD CUFF.258 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 4;6 N alternative_donor CUFF.264 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 3;0 N jcn_only_AD CUFF.215 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 369;32 N cassette CUFF.276 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 55;549 N coord_cassette CUFF.305 chr2 - chr2:242439697-242448637 chr2:242439697-242440154;chr2:242440212-242440892;chr2:242441124-242448637 chr2:242440155-242440211;chr2:242440893-242441123 56;275 N alternative_donor CUFF.289 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 95;48 N alternative_donor CUFF.289 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 94;8 N jcn_only_AD CUFF.307 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 551;20 N jcn_only_AA CUFF.189 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 44;6 N cassette CUFF.286 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 66;49 N cassette CUFF.307 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 66;231 K alternative_first_exon CUFF.207 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42181156-42181493 chr2:42180867-42180943 79;3 K intron_retention CUFF.297 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 129;12 N jcn_only_AA CUFF.213 chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 19;3 N jcn_only_AD CUFF.286 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 99;48 N cassette CUFF.259 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 31;11 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177053146 chr2:177042223-177042742 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 379;16 K alternative_donor CUFF.297 chr2 + chr2:220095073-220096649 chr2:220095128-220096649 chr2:220095073-220095127 chr2:220095072-220095073 61;95 N jcn_only_AA CUFF.241 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 205;39 K cassette CUFF.167 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 8;85 K intron_retention CUFF.170 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 64;9 K intron_retention CUFF.297 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 235;121 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 443;8 N alternative_acceptor CUFF.281 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 376;4 N alternative_donor CUFF.297 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 245;16 K intron_retention CUFF.170 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 47;11 N cassette CUFF.170 chr2 - chr2:27676381-27676848 chr2:27676381-27676496;chr2:27676607-27676848 chr2:27676497-27676606 9;49 N alternative_acceptor CUFF.148,CUFF.307 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 540;0 K cassette CUFF.189 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 137;45 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 11;30 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 11;22 N jcn_only_AD CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630379-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 34;3 N jcn_only_AD CUFF.288 chr2 + chr2:207630379-207631367;chr2:207630243-207631367;chr2:207630487-207631367 chr2:207630472-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 20;17 N jcn_only_AD chr2 - chr2:676239-677288 chr2:676239-676573 chr2:676574-677288 chr2:677288-677289 8;35 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 74;61 K jcn_only_AA CUFF.232 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 86;52 K alternative_last_exon CUFF.152 chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3488491-3488866 chr2:3482990-3483342 138;425 K cassette CUFF.243 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 206;13 K jcn_only_AA CUFF.228 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 96;686 N alternative_donor CUFF.152 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 468;6 N jcn_only_AD CUFF.247 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 58;24 N jcn_only_AD CUFF.247 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 30;80 N jcn_only_AD CUFF.307 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 30;540 K intron_retention CUFF.228 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 206;82 N cassette CUFF.297 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 95;169 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 4;468 N coord_cassette CUFF.261 chr2 + chr2:169668163-169684667 chr2:169668163-169674681;chr2:169674807-169681143;chr2:169681228-169684667 chr2:169674682-169674806;chr2:169681144-169681227 12;178 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 27;76 K alternative_donor CUFF.189 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 30;9 N intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 17;32 N jcn_only_AD chr2 - chr2:242435950-242436714;chr2:242435950-242436596 chr2:242435950-242437030 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 11;244 N jcn_only_AD CUFF.289 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 104;40 K intron_retention CUFF.301 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 22;30 N alternative_first_exon CUFF.243 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609809-101609989 chr2:101610853-101611042 27;106 K alternative_last_exon CUFF.264 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171300477-171300556 chr2:171268211-171268938 26;113 N alternative_acceptor CUFF.262 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 9;14 K jcn_only_AD CUFF.259 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 144;57 N intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 153;9 N alternative_donor CUFF.143 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 110;10 N intron_retention chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 6;15 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 14;3 K cassette CUFF.220 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 138;80 K coord_cassette CUFF.164 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 46;63 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 13;68 K alternative_acceptor CUFF.304 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 74;37 N jcn_only_AD CUFF.252 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 125;9 K cassette CUFF.167 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 12;68 N coord_cassette CUFF.164 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 41;104 N cassette CUFF.307 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 496;91 K intron_retention CUFF.241 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 4;120 K intron_retention CUFF.143 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 276;15 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177042730 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 274;122 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 12;70 N alternative_acceptor CUFF.204 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 39;4 N jcn_only_AD CUFF.235 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 5;4 N cassette CUFF.143 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 80;424 K alternative_donor CUFF.152 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 3;29 K alternative_first_exon CUFF.281 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191300703-191302287;chr2:191307223-191307731 chr2:191334181-191334375 277;139 K intron_retention CUFF.293 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 29;32 K cassette CUFF.152 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 305;110 N alternative_acceptor CUFF.189 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 30;7 K intron_retention CUFF.204 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 30;35 N alternative_acceptor CUFF.171,CUFF.295 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 25;6 N jcn_only_AA CUFF.276 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 3;394 N jcn_only_AD chr2 - chr2:177043827-177053146 chr2:177043827-177052792 34;63 N alternative_donor CUFF.307 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 542;9 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 9;55 N jcn_only_AD CUFF.307 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 52;31 N cassette CUFF.307 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 426;144 N jcn_only_AA CUFF.258 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 4;6 N cassette CUFF.247 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 9;15 K cassette CUFF.208 chr2 - chr2:46808731-46819613 chr2:46808731-46818941;chr2:46819065-46819613 chr2:46818942-46819064 41;19 N alternative_donor CUFF.291 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 3;434 N alternative_acceptor CUFF.276 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 2036;1 N cassette CUFF.305 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 15;517 N jcn_only_AA CUFF.247,CUFF.293 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 36;10 N jcn_only_AD CUFF.217 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 156;48 N alternative_donor CUFF.261 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 60;9 N alternative_donor CUFF.213 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 149;24 N intron_retention chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 48;12 K coord_cassette CUFF.210 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 15;25 K alternative_last_exon CUFF.286 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204304156-204306136;chr2:204259068-204259812 chr2:204306192-204306803 43;64 N jcn_only_AD CUFF.143 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 12;49 N alternative_donor CUFF.243 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 110;13 N jcn_only_AA chr2 - chr2:675631-676573 chr2:676239-676573 chr2:675631-676238 chr2:675630-675631 28;35 N jcn_only_AD chr2 - chr2:675631-676573 chr2:675631-675757 28;19 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742 chr2:177042223-177053146 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 380;15 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 11;20 K intron_retention CUFF.293 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 478;265 N jcn_only_AA CUFF.264,CUFF.300 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 26;7 N jcn_only_AD CUFF.189 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505226-33516854 chr2:33505225-33505226 37;30 K alternative_first_exon CUFF.235 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893686 12;66 K cassette CUFF.148 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 110;25 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 31;40 N jcn_only_AD chr2 - chr2:177042550-177042742 chr2:177042550-177042730 chr2:177042731-177042742 chr2:177042742-177042743 12;74 N cassette CUFF.143 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 82;212 K jcn_only_AD CUFF.208,CUFF.289 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 47;18 K mutually_exclusive CUFF.260 chr2 - chr2:166714915-166721493,chr2:166721588-166727306 chr2:166714915-166719453,chr2:166719576-166727306 chr2:166721494-166721587 chr2:166719454-166719575 47;9 N alternative_acceptor CUFF.305 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 244;7 N jcn_only_AD CUFF.305 chr2 - chr2:61727030-61749745 chr2:61727030-61729130 35;99 N cassette CUFF.220 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 20;357 K alternative_last_exon CUFF.247,CUFF.299 chr2 + chr2:228158034-228159205 chr2:228158034-228158458 chr2:228159206-228159286 chr2:228158459-228158920 1;34 N alternative_donor CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630243-207631367 chr2:207630487-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 19;6 K intron_retention CUFF.170 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 27;14 N jcn_only_AA CUFF.264 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 27;22 N jcn_only_AA CUFF.156 chr2 - chr2:4006532-4007153 chr2:4006986-4007153 chr2:4006532-4006985 chr2:4006531-4006532 230;39 K intron_retention CUFF.297 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 118;51 K intron_retention CUFF.260 chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 68;17 N alternative_donor chr2 - chr2:177042550-177042742 chr2:177042550-177042730 chr2:177042731-177042742 chr2:177042742-177042743 12;63 N jcn_only_AD CUFF.297 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 21;243 K intron_retention CUFF.208 chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 35;6 N jcn_only_AA chr2 - chr2:242440493-242440892;chr2:242440263-242440892 chr2:242440335-242440892 107;9 N jcn_only_AD chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 226;11 N alternative_acceptor CUFF.252 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 125;58 N alternative_acceptor chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 4;54 N cassette CUFF.297 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095073-220096649 chr2:220094950-220095072 95;136 K alternative_first_exon CUFF.165 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535452-16535568 chr2:16536373-16536535 5;18 N jcn_only_AA CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656 chr2:73268061-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 169;351 N alternative_donor chr2 - chr2:61764723-61765626 chr2:61764723-61765272 chr2:61765273-61765626 chr2:61765626-61765627 3;0 N jcn_only_AD CUFF.143 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 319;35 N alternative_acceptor CUFF.264 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 27;0 N alternative_donor CUFF.215 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 364;32 N jcn_only_AD CUFF.204 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 31;7 N alternative_acceptor CUFF.143 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 319;14 K jcn_only_AA CUFF.262 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 6;18 N cassette CUFF.241 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 15;182 K intron_retention CUFF.261 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 60;8 K intron_retention CUFF.304 chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 20;20 N jcn_only_AA chr2 - chr2:253116-264083 chr2:263373-264083 chr2:253116-263372 chr2:253115-253116 23;11 N jcn_only_AA CUFF.143 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 319;29 N jcn_only_AA chr2 - chr2:86398469-86400772 chr2:86398505-86400772 11;13 N alternative_acceptor CUFF.260 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732743-166736477 chr2:166732742-166732743 71;3 K jcn_only_AD CUFF.255 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 8;11 N alternative_donor CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177053146 chr2:177042223-177042742 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 53;0 K cassette CUFF.169 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 146;136 K alternative_first_exon CUFF.304 chr2 + chr2:241381924-241398446,chr2:241396887-241398446,chr2:241394438-241398446;chr2:241392512-241398446;chr2:241397535-241398446 chr2:241375502-241398446 chr2:241392157-241392511;chr2:241397369-241397534 chr2:241375088-241375501 86;16 N alternative_acceptor CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268061-73285656 chr2:73268791-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 363;0 K intron_retention CUFF.220 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 149;4 N alternative_donor CUFF.259 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 131;2 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 24;10 N jcn_only_AD CUFF.243 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 9;66 K mutually_exclusive CUFF.259 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 112;64 K intron_retention CUFF.305 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 185;90 K cassette CUFF.295 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 20;15 N jcn_only_AA CUFF.272 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 34;52 N alternative_donor CUFF.148 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 19;1 N jcn_only_AD CUFF.305 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 248;6 N cassette CUFF.307 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 7;341 N jcn_only_AD CUFF.152 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469467-3476373 chr2:3469466-3469467 185;39 N alternative_donor chr2 - chr2:69870407-69901154;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69870706 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 12;3 N alternative_donor chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 14;88 N alternative_donor CUFF.215 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 369;27 N intron_retention CUFF.252 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 9;39 N alternative_donor CUFF.252 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 125;44 N jcn_only_AA CUFF.170 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 147;52 K intron_retention CUFF.213 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 37;67 K alternative_first_exon CUFF.220 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73298732;chr2:73285726-73286136;chr2:73285726-73302708 chr2:73285726-73298168 chr2:73286137-73286301;chr2:73302709-73302841 chr2:73298169-73298537 503;138 K intron_retention CUFF.213 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 71;488 K cassette CUFF.208 chr2 - chr2:46839484-46842075 chr2:46839484-46840832;chr2:46840925-46842075 chr2:46840833-46840924 35;24 N alternative_donor CUFF.204 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 2;14 N jcn_only_AD CUFF.264 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 27;20 N mutually_exclusive CUFF.220 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 26;6 K intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 61;138 K alternative_acceptor CUFF.232 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 86;83 N intron_retention chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 13;27 N jcn_only_AD CUFF.307 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 75;8 K cassette CUFF.299 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 38;3 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 20;24 N jcn_only_AD CUFF.289 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 47;76 N jcn_only_AD CUFF.148 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 11;181 N jcn_only_AD CUFF.258 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 2;1 N jcn_only_AA CUFF.252 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 12;276 N jcn_only_AD CUFF.252 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 334;18 K intron_retention CUFF.208 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 18;9 N jcn_only_AD CUFF.204 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 193;11 N intron_retention chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 147;63 K intron_retention CUFF.231 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 51;35 N jcn_only_AD CUFF.156 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 16;7 N jcn_only_AD chr2 - chr2:286344-287162;chr2:286344-286869 chr2:286344-287582 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 297;56 N alternative_donor chr2 - chr2:286344-287162;chr2:286344-286869 chr2:286344-287582 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 64;56 K alternative_donor CUFF.208,CUFF.289 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 47;40 K alternative_donor CUFF.259 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 144;31 N alternative_donor CUFF.247 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 58;12 N alternative_donor CUFF.170 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 21;42 N alternative_donor CUFF.289 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 96;6 N alternative_donor CUFF.156 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 16;3 N cassette CUFF.264 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 13;32 N alternative_donor CUFF.272 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 30;2 N jcn_only_AD CUFF.152 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 337;16 N jcn_only_AD CUFF.280 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 10;30 N alternative_donor CUFF.307 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 84;10 N jcn_only_AA CUFF.152,CUFF.247 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 30;6 N cassette CUFF.143 chr2 - chr2:253116-262630 chr2:253116-260084;chr2:260898-262630 chr2:260085-260897 153;314 K intron_retention CUFF.152 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 330;55 N coord_cassette CUFF.307 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 7;56 N alternative_donor CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742 chr2:177042223-177053146 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 48;5 N alternative_donor CUFF.169,CUFF.276 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 2036;5 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 232;9 N intron_retention CUFF.213 chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 9;24 K intron_retention CUFF.239 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 intron_retention CUFF.213 chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 4;22 K cassette CUFF.156 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 10;25 N alternative_donor CUFF.252 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 334;1 K cassette CUFF.289 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 125;28 K cassette CUFF.261 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 79;11 K cassette CUFF.152 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 45;70 N jcn_only_AD CUFF.148 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 186;8 N mutually_exclusive CUFF.276 chr2 - chr2:175689247-175742567,chr2:175742857-175779785 chr2:175689247-175711607,chr2:175711686-175779785 chr2:175742568-175742856 chr2:175711608-175711685 666;222 N mutually_exclusive CUFF.231 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 4;80 N intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 74;63 K alternative_first_exon CUFF.220,CUFF.231 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73215387-73215477 chr2:73208138-73208444 86;76 N coord_cassette CUFF.264 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 3;28 K alternative_first_exon CUFF.304 chr2 + chr2:241381924-241398446,chr2:241396887-241398446,chr2:241394438-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241392512-241398446 chr2:241375088-241375501;chr2:241397369-241397534 chr2:241392157-241392511 60;42 N alternative_acceptor CUFF.143 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 232;4 K cassette CUFF.164 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 103;115 N alternative_donor CUFF.247 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 30;26 K alternative_donor CUFF.255 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 8;5 N alternative_first_exon CUFF.300 chr2 + chr2:232026224-232029913 chr2:232028442-232029913 chr2:232026054-232026223 chr2:232027776-232028441 16;40 K cassette CUFF.204 chr2 + chr2:38177739-38201182 chr2:38177739-38178375;chr2:38179345-38201182 chr2:38178376-38179344 57;91 N coord_cassette CUFF.281 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 7;32 K cassette CUFF.232 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 46;76 N jcn_only_AA chr2 + chr2:232026224-232029913 chr2:232026224-232028348 16;41 N alternative_acceptor CUFF.170 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 116;4 N jcn_only_AD CUFF.289 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 129;15 N jcn_only_AA CUFF.276 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 2036;73 K alternative_last_exon CUFF.152,CUFF.280 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3464034-3464107 chr2:3461566-3461952 242;213 N intron_retention chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 127;11 N intron_retention chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 20;30 N jcn_only_AD CUFF.169,CUFF.276 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 2036;74 N cassette CUFF.284 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 82;16 K alternative_acceptor CUFF.262 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 6;10 K cassette CUFF.164 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 46;110 K alternative_first_exon CUFF.303 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476343-237476484 chr2:237478233-237478567 28;10 K intron_retention CUFF.291 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 5;45 K jcn_only_AA CUFF.247,CUFF.293 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 41;340 K alternative_last_exon CUFF.171 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27726381-27726486 chr2:27724557-27724697 30;13 N jcn_only_AD chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 168;269 N alternative_acceptor CUFF.241 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 205;22 N jcn_only_AD CUFF.213,CUFF.235 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 4;5 N jcn_only_AD CUFF.170 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 21;59 N cassette CUFF.170 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 14;150 N alternative_donor CUFF.288 chr2 + chr2:207630472-207631367;chr2:207630379-207631367;chr2:207630487-207631367 chr2:207630243-207631367 chr2:207630243-207630378;chr2:207630379-207630471;chr2:207630472-207630486 chr2:207630242-207630243;chr2:207630378-207630379;chr2:207630471-207630472 19;6 N jcn_only_AA CUFF.152,CUFF.261 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 60;9 N alternative_donor CUFF.261 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 348;0 N cassette CUFF.276 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 18;287 N jcn_only_AA CUFF.295 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 36;6 N cassette CUFF.152 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 38;207 K intron_retention CUFF.228 chr2 - chr2:79364464-79365092 chr2:79364463-79364464;chr2:79365092-79365093 96;11 K cassette CUFF.208 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 41;17 K cassette CUFF.169 chr2 - chr2:25174424-25179911 chr2:25174424-25176418;chr2:25176505-25179911 chr2:25176419-25176504 22;7 N cassette CUFF.220 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 8;54 N jcn_only_AD chr2 - chr2:69870407-69901154;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69870706 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 87;116 N jcn_only_AD CUFF.217 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870874 chr2:69870407-69870923 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 176;28 N alternative_acceptor chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 7;0 N alternative_acceptor chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 22;9 K alternative_first_exon CUFF.148 chr2 + chr2:1159412-1161233;chr2:1133496-1161233 chr2:1158976-1161233 chr2:1133454-1133495 chr2:1158888-1158975 119;53 N jcn_only_AD CUFF.264 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 26;6 N jcn_only_AD CUFF.148 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 149;12 N alternative_acceptor chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 12;19 K coord_cassette CUFF.307 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 369;44 N cassette CUFF.278 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 49;334 N intron_retention chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 19;20 N jcn_only_AD CUFF.204 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 21;17 N cassette CUFF.143 chr2 - chr2:234273-247537;chr2:234273-243502 chr2:234273-242797;chr2:242872-243502,chr2:242872-247537 chr2:242798-242871 401;191 N cassette CUFF.261 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 12;121 N jcn_only_AD CUFF.281 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 376;11 K intron_retention CUFF.171 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 83;24 K cassette CUFF.156 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007227-4007505 chr2:4007154-4007226 14;120 N alternative_acceptor CUFF.252 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 394;14 K cassette CUFF.260 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 30;9 N jcn_only_AD CUFF.217 chr2 - chr2:69870407-69870706;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69901154 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 192;12 N alternative_acceptor CUFF.152,CUFF.261 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 60;10 N alternative_donor CUFF.177,CUFF.215 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 59;337 N alternative_donor CUFF.286 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 99;5 N alternative_acceptor CUFF.220 chr2 - chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73280681-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 354;9 K intron_retention CUFF.307 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 8;41 N jcn_only_AA CUFF.213 chr2 - chr2:61727030-61749745 chr2:61729446-61749745 35;38 N cassette CUFF.231 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 51;37 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 2;25 N alternative_donor CUFF.217 chr2 - chr2:69870407-69870706;chr2:69870407-69870923;chr2:69870407-69870874 chr2:69870407-69901154 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 3;12 N alternative_donor CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177043756 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 50;3 N alternative_donor CUFF.204 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 16;0 N jcn_only_AD chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 22;48 K alternative_last_exon CUFF.148,CUFF.152 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 95;29 K alternative_first_exon CUFF.152 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393385-3393550 137;85 N coord_cassette CUFF.143 chr2 - chr2:234273-247537 chr2:234273-242797;chr2:242872-243502;chr2:243563-247537 chr2:242798-242871;chr2:243503-243562 360;174 K intron_retention CUFF.293 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 41;56 N alternative_donor CUFF.289 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 67;76 K intron_retention chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 243;25 N jcn_only_AA CUFF.189 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 41;9 N jcn_only_AA CUFF.305 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 244;19 N alternative_acceptor CUFF.252 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 48;9 N mutually_exclusive CUFF.276 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 36;21 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 49;468 N alternative_donor CUFF.264 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 27;3 N alternative_donor CUFF.213,CUFF.235 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 4;0 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 37;16 K intron_retention CUFF.272 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 30;44 K jcn_only_AA CUFF.301 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 58;22 K intron_retention CUFF.297 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 200;83 N alternative_donor CUFF.278 chr2 - chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177053541 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 19;34 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 62;89 K alternative_last_exon CUFF.247 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091991-109092091 chr2:109091245-109091856 1;140 N alternative_donor CUFF.258 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 2;0 N jcn_only_AA CUFF.252 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 125;15 N alternative_acceptor CUFF.152 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 472;0 K jcn_only_AA CUFF.304 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 74;60 N alternative_donor CUFF.204 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 193;4 N alternative_donor CUFF.220 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 149;10 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 5;18 K alternative_first_exon CUFF.220 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73298732;chr2:73285726-73298168;chr2:73285726-73302708 chr2:73285726-73286136 chr2:73298169-73298537;chr2:73302709-73302841 chr2:73286137-73286301 621;20 N cassette CUFF.231 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 7;127 N alternative_donor CUFF.243 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 9;36 K intron_retention CUFF.297 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 224;13 N alternative_acceptor CUFF.247 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 9;11 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 9;56 N jcn_only_AD CUFF.289 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 88;35 N jcn_only_AA CUFF.220 chr2 - chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73280681-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 397;123 K jcn_only_AA CUFF.300 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 26;14 K alternative_first_exon CUFF.243 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549372-101549463 chr2:101550521-101550622 105;126 N jcn_only_AA CUFF.171,CUFF.295 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 34;8 K intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 122;65 N jcn_only_AA CUFF.148 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1246510-1251098 chr2:1251098-1251099 129;4 N alternative_donor CUFF.235 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 5;23 N intron_retention chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 11;83 N alternative_donor CUFF.152 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 337;80 K cassette CUFF.259 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 140;92 N intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 36;1230 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 chr2:61765273-61765626 chr2:61765626-61765627 3;2 K cassette CUFF.204 chr2 + chr2:38231360-38244328 chr2:38231360-38239745;chr2:38239793-38244328 chr2:38239746-38239792 74;52 N jcn_only_AD CUFF.243 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 21;38 N intron_retention CUFF.305 chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 94;84 N jcn_only_AA CUFF.170 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 116;7 K alternative_last_exon CUFF.300 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:232003450-232003564 chr2:231973278-231973836 40;105 N mutually_exclusive CUFF.307 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 19;10 K cassette CUFF.177 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 11;105 K intron_retention CUFF.213 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 31;45 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 454;72 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177053541;chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177043756 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 294;102 N cassette CUFF.143 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 371;229 N jcn_only_AA CUFF.252 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 48;4 K intron_retention CUFF.143 chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 201;12 N jcn_only_AD CUFF.220 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 149;38 N jcn_only_AA chr2 - chr2:242440335-242440892;chr2:242440263-242440892 chr2:242440493-242440892 71;45 N jcn_only_AA CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 488;32 N alternative_donor CUFF.204 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 14;2 N intron_retention chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 28;79 N cassette CUFF.220 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 11;168 K alternative_acceptor CUFF.228 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 96;346 N jcn_only_AD CUFF.177,CUFF.215 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 71;330 N intron_retention chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 44;47 K cassette CUFF.164 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 149;69 K cassette CUFF.295 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 39;37 K cassette CUFF.285 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 64;8 N alternative_donor chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 22;39 N jcn_only_AA CUFF.152 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 510;8 N jcn_only_AD CUFF.261 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 60;15 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 185;62 N jcn_only_AD CUFF.305 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 250;4 N intron_retention chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 22;18 N alternative_acceptor CUFF.152,CUFF.300 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 468;4 N intron_retention chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 35;145 N alternative_donor CUFF.217 chr2 - chr2:69870407-69901154;chr2:69870407-69870706;chr2:69870407-69870874 chr2:69870407-69870923 chr2:69870707-69870874;chr2:69870875-69870923;chr2:69870924-69901154 chr2:69870874-69870875;chr2:69870923-69870924;chr2:69901154-69901155 15;0 N alternative_acceptor CUFF.156 chr2 - chr2:4006532-4007153 chr2:4006986-4007153 chr2:4006532-4006985 chr2:4006531-4006532 230;13 N jcn_only_AD CUFF.264 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034800-171036691 chr2:171034799-171034800 3;6 K alternative_first_exon CUFF.304 chr2 + chr2:241381924-241398446,chr2:241396887-241398446,chr2:241394438-241398446;chr2:241392512-241398446;chr2:241375502-241398446 chr2:241397535-241398446 chr2:241392157-241392511;chr2:241375088-241375501 chr2:241397369-241397534 87;15 K intron_retention CUFF.162 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 17;31 N jcn_only_AA CUFF.220 chr2 - chr2:73280681-73285656;chr2:73269715-73285656;chr2:73277029-73285656;chr2:73268061-73285656 chr2:73268791-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 519;2 N alternative_acceptor CUFF.152,CUFF.247 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 30;3 K cassette CUFF.261 chr2 + chr2:169668163-169681143 chr2:169668163-169674681;chr2:169674807-169681143 chr2:169674682-169674806 30;191 K alternative_acceptor CUFF.301 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 58;42 N intron_retention chr2 - chr2:263763-264781 chr2:263762-263763;chr2:264781-264782 18;21 K jcn_only_AD CUFF.152 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 3;40 N coord_cassette CUFF.220 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 8;96 K cassette CUFF.171 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 56;39 N jcn_only_AD CUFF.247 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 36;12 N coord_cassette CUFF.276 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 39;443 K intron_retention CUFF.156 chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 58;146 K intron_retention CUFF.228 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 704;153 N jcn_only_AA chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 7;82 K alternative_acceptor CUFF.286 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 16;85 K intron_retention CUFF.208 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 20;13 N cassette CUFF.300 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 7;28 K coord_cassette CUFF.164 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 46;106 K intron_retention CUFF.307 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 177;7 N alternative_acceptor CUFF.213 chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 19;9 N cassette CUFF.189 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 53;170 N jcn_only_AD CUFF.291 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 3;682 N cassette CUFF.143 chr2 - chr2:219002-229965 chr2:219002-224863;chr2:224921-229965 chr2:224864-224920 335;61 K mutually_exclusive CUFF.208 chr2 - chr2:46808731-46818941,chr2:46819065-46819613 chr2:46808731-46815213,chr2:46815319-46819613 chr2:46818942-46819064 chr2:46815214-46815318 19;17 N alternative_donor chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 239;7 N alternative_acceptor CUFF.170 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 57;3 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 32;59 N jcn_only_AD CUFF.148 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 19;7 K jcn_only_AD CUFF.177,CUFF.213 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 71;79 N jcn_only_AD CUFF.243 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 110;27 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 21;35 N jcn_only_AD CUFF.143 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:286870-287162;chr2:287163-287582 chr2:287162-287163;chr2:287582-287583 91;263 N jcn_only_AA CUFF.252 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 394;32 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 34;227 N alternative_donor chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422045-86422460 chr2:86422460-86422461 136;14 N jcn_only_AD chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208030637-208031480;chr2:208031481-208031717 chr2:208031480-208031481;chr2:208031717-208031718 56;88 K coord_cassette CUFF.293 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 361;35 N jcn_only_AD CUFF.259 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 131;22 N alternative_donor CUFF.289 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 124;19 N alternative_acceptor CUFF.170 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 147;17 N alternative_donor CUFF.231 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 161;85 N intron_retention CUFF.261 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 9;5 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 6;9 K intron_retention CUFF.170 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 11;45 N jcn_only_AA CUFF.220 chr2 - chr2:73280681-73285656;chr2:73277029-73285656;chr2:73268791-73285656;chr2:73268061-73285656 chr2:73269715-73285656 chr2:73268061-73268790;chr2:73268791-73269714;chr2:73269715-73277028;chr2:73277029-73280680 chr2:73268060-73268061;chr2:73268790-73268791;chr2:73269714-73269715;chr2:73277028-73277029 507;13 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 43;60 N jcn_only_AD CUFF.231 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 161;146 N jcn_only_AD CUFF.207 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 220;17 K cassette CUFF.170 chr2 - chr2:27708371-27712481 chr2:27708371-27709025;chr2:27709110-27712481 chr2:27709026-27709109 47;21 K alternative_first_exon CUFF.220 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73298732;chr2:73285726-73298168;chr2:73285726-73286136 chr2:73285726-73302708 chr2:73298169-73298537;chr2:73286137-73286301 chr2:73302709-73302841 528;113 K jcn_only_AD CUFF.189 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 30;18 N jcn_only_AA CUFF.204 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 39;9 N jcn_only_AD CUFF.272 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 30;5 N intron_retention chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 95;93 K intron_retention CUFF.300 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 10;10 N coord_cassette CUFF.148 chr2 + chr2:1168870-1215567 chr2:1168870-1204788;chr2:1204917-1206142;chr2:1206366-1215567 chr2:1204789-1204916;chr2:1206143-1206365 91;71 K alternative_last_exon CUFF.148,CUFF.189 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1263142-1263213 chr2:1260177-1260384 108;428 K intron_retention CUFF.143 chr2 - chr2:263369-264781 chr2:263368-263369;chr2:264781-264782 113;20 N alternative_donor CUFF.276 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 536;0 N jcn_only_AD CUFF.278 chr2 - chr2:177042223-177042438;chr2:177042223-177042730;chr2:177042223-177043756;chr2:177042223-177042742;chr2:177042223-177053146 chr2:177042223-177053541 chr2:177042439-177042730;chr2:177042731-177042742;chr2:177042743-177043756;chr2:177043757-177053146;chr2:177053147-177053541 chr2:177042730-177042731;chr2:177042742-177042743;chr2:177043756-177043757;chr2:177053146-177053147;chr2:177053541-177053542 362;34 N mutually_exclusive CUFF.305 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440892,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440893-242441123 13;38 N jcn_only_AA CUFF.170 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 57;37 N intron_retention chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 9;21 K alternative_first_exon CUFF.3 chr1 + chr1:2005369-2066700,chr1:2005715-2066700,chr1:2043257-2066700,chr1:2006573-2066700,chr1:2013900-2066700,chr1:2065440-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2047750-2066700;chr1:2036335-2066700;chr1:2066526-2066700;chr1:1991031-2066700 chr1:2006819-2066700 chr1:2036087-2036334;chr1:2066261-2066525;chr1:1990980-1991030 chr1:2006623-2006818 1038;159 K cassette CUFF.106 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 70;214 N intron_retention chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 72;10 N alternative_donor CUFF.140 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 230;0 K jcn_only_AD CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 8;50 K jcn_only_AA CUFF.128 chr1 - chr1:213173726-213178374 chr1:213174255-213178374 5;65 N jcn_only_AA CUFF.49 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382790-54387440 chr1:54382789-54382790 71;16 N alternative_acceptor CUFF.20 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 72;9 N jcn_only_AD CUFF.96 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 11;15 N intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 60;16 N cassette CUFF.77 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 23;7 N jcn_only_AD CUFF.85 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 64;12 K alternative_first_exon CUFF.128,CUFF.43 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188955-213189187 chr1:213188491-213188899 11;49 N alternative_donor CUFF.35 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 65;7 K cassette CUFF.35 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 41;42 K alternative_first_exon CUFF.114 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129239 chr1:174128025-174128510 18;64 K jcn_only_AA CUFF.3,CUFF.67 chr1 + chr1:2075781-2076827 chr1:2075781-2076776 chr1:2076777-2076827 chr1:2076827-2076828 134;278 K intron_retention CUFF.39 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 95;34 K alternative_donor CUFF.104 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 26;14 K alternative_last_exon CUFF.140 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245254795;chr1:245246991-245285221 chr1:245246991-245250546 chr1:245254796-245255091;chr1:245285222-245290478 chr1:245250547-245251139 113;136 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 10;26 K alternative_first_exon CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072414-11072485 chr1:11072630-11072800 50;276 N alternative_acceptor CUFF.3 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 136;1 K cassette CUFF.3 chr1 + chr1:2075781-2077465 chr1:2075781-2076827;chr1:2076951-2077465 chr1:2076828-2076950 840;251 N alternative_donor CUFF.95 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 11;11 K alternative_first_exon CUFF.127 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556069-211556267 chr1:211563906-211564012 89;44 N alternative_donor CUFF.129 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 91;1 N mutually_exclusive CUFF.48 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 184;132 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 136;234 N cassette CUFF.70 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 87;55 K alternative_acceptor CUFF.103 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 14;28 N alternative_donor CUFF.87 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 64;12 N jcn_only_AA CUFF.46 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 38;10 K alternative_last_exon CUFF.106,CUFF.140 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167367231-167367370 chr1:167365770-167366062 91;23 K cassette CUFF.111 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 32;17 N jcn_only_AA CUFF.70 chr1 - chr1:114423763-114429158 chr1:114424620-114429158 chr1:114423763-114424619 chr1:114423762-114423763 2;57 K alternative_first_exon CUFF.3 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1986880-1987001 chr1:1987015-1987315 43;71 N alternative_donor CUFF.106 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 540;0 K alternative_first_exon CUFF.91 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933655 65;146 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 25;17 K jcn_only_AA CUFF.46 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 24;209 K coord_cassette CUFF.65 chr1 - chr1:106132408-106146784 chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784 chr1:106143892-106144007;chr1:106145899-106146180 101;72 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 chr1:110211912-110211993 33;69 K intron_retention CUFF.118 chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 35;20 K intron_retention CUFF.43 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 11;43 K intron_retention CUFF.91 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 95;14 N jcn_only_AD CUFF.35 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 101;8 K cassette CUFF.106 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 88;65 K cassette CUFF.99 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 42;4 K jcn_only_AD CUFF.104 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 26;17 K jcn_only_AD CUFF.36 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 382;115 N jcn_only_AD CUFF.3 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 74;27 K coord_cassette CUFF.36 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 165;161 N coord_cassette CUFF.3 chr1 + chr1:2075781-2080310 chr1:2075781-2076827;chr1:2076951-2077465;chr1:2077548-2080310 chr1:2076828-2076950;chr1:2077466-2077547 94;250 K coord_cassette CUFF.106 chr1 + chr1:167190196-167301706 chr1:167190196-167210643;chr1:167210848-167272710;chr1:167272812-167301706 chr1:167210644-167210847;chr1:167272711-167272811 31;17 N alternative_donor CUFF.90 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 132;1 N cassette CUFF.90 chr1 - chr1:156449589-156452228 chr1:156449589-156450625;chr1:156450764-156452228 chr1:156450626-156450763 2;52 N jcn_only_AA CUFF.39 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 76;7 K intron_retention CUFF.85 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 432;63 N alternative_acceptor chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 60;72 N jcn_only_AD CUFF.129 chr1 + chr1:222835675-222837339 chr1:222836374-222837339 chr1:222835675-222836373 chr1:222835674-222835675 191;22 N jcn_only_AA CUFF.103 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 3;3 N intron_retention chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 5;40 N cassette CUFF.3 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 71;74 N jcn_only_AD CUFF.42 chr1 - chr1:16909254-16918341 chr1:16909254-16910088 11;1 N jcn_only_AA CUFF.1 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 23;4 N alternative_acceptor CUFF.67 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 11;0 K alternative_donor CUFF.96 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 19;16 N alternative_acceptor chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 15;5 N alternative_acceptor CUFF.67 chr1 + chr1:110214206-110215824;chr1:110214206-110251102;chr1:110214206-110224430 chr1:110214206-110217368 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 11;0 N jcn_only_AA CUFF.85 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 64;16 N alternative_donor CUFF.3 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 82;14 N cassette CUFF.56 chr1 + chr1:70820791-70832126;chr1:70820892-70832126 chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126 chr1:70831829-70832011 209;110 N alternative_first_exon CUFF.140 chr1 + chr1:245165535-245222687;chr1:245133746-245222687 chr1:245180629-245222687 chr1:245133599-245133745 chr1:245180519-245180628 57;120 N alternative_acceptor chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 5;48 K intron_retention CUFF.129 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 191;27 K alternative_acceptor CUFF.42 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 69;18 K cassette CUFF.133 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 40;73 N jcn_only_AA CUFF.58 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 20;21 K alternative_first_exon CUFF.42 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642208 64;17 N cassette CUFF.104 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 60;13 N alternative_acceptor CUFF.36 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 367;1 K alternative_first_exon CUFF.12 chr1 - chr1:11710892-11713447;chr1:11710892-11715696 chr1:11710892-11714375 chr1:11715697-11715941 chr1:11714376-11714801 267;284 N cassette CUFF.110 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 194;68 N jcn_only_AA CUFF.67 chr1 + chr1:110214206-110217368;chr1:110214206-110251102;chr1:110214206-110224430 chr1:110214206-110215824 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 101;19 N alternative_donor CUFF.3 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 74;2 K intron_retention CUFF.46 chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 51;18 K alternative_donor CUFF.11 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 8;34 N cassette CUFF.106 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 11;123 K intron_retention CUFF.67 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 chr1:110212093-110212193;chr1:110213936-110214004 193;61 N coord_cassette CUFF.7 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 28;33 N cassette CUFF.7 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 54;51 K cassette CUFF.65 chr1 - chr1:106132408-106146784 chr1:106132408-106143252;chr1:106143382-106146784 chr1:106143253-106143381 101;113 N jcn_only_AD CUFF.48 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 62;18 N alternative_acceptor chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 20;14 K intron_retention CUFF.39 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 226;10 N cassette CUFF.90 chr1 - chr1:156449139-156450625 chr1:156449139-156449377;chr1:156449589-156450625 chr1:156449378-156449588 99;55 K alternative_last_exon CUFF.17 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383803 chr1:16382917-16383003 157;54 K alternative_donor CUFF.43 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41486536-41487287 chr1:41487287-41487288 11;55 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 20;4 K cassette CUFF.121 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 59;25 N jcn_only_AD CUFF.67 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 chr1:110212093-110212193 124;88 N cassette CUFF.117 chr1 + chr1:196913069-196919981 chr1:196913069-196918746;chr1:196918780-196919981 chr1:196918747-196918779 7;11 N jcn_only_AA CUFF.85 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 12;15 N cassette CUFF.90 chr1 - chr1:156449589-156452228 chr1:156449589-156450434;chr1:156450570-156452228 chr1:156450435-156450569 2;2 N jcn_only_AA CUFF.3 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 74;23 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 94;33 N alternative_donor CUFF.142 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 68;3 K cassette CUFF.79 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 39;12 K jcn_only_AD CUFF.96 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 19;29 N jcn_only_AD CUFF.106 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 150;9 K coord_cassette CUFF.106 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 31;221 K intron_retention CUFF.136 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 62;24 N alternative_acceptor CUFF.85 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 12;168 K jcn_only_AA CUFF.118 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 35;37 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 31;427 K coord_cassette CUFF.129 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 65;12 K alternative_first_exon CUFF.72 chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612263 chr1:120572529-120572610 61;2 K coord_cassette CUFF.104 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 60;11 N cassette CUFF.65 chr1 - chr1:106132408-106146784 chr1:106132408-106145898;chr1:106146181-106146784 chr1:106145899-106146180 101;120 N cassette CUFF.35 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 11;54 N alternative_acceptor CUFF.80 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 120;14 N jcn_only_AD CUFF.80 chr1 - chr1:151158427-151162480;chr1:151158427-151162599 chr1:151158427-151167754 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 114;14 K alternative_first_exon CUFF.128 chr1 - chr1:213173726-213178374 chr1:213173726-213174127 chr1:213178375-213178796 chr1:213174128-213175598 9;50 K cassette CUFF.65 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 60;71 K jcn_only_AD CUFF.33 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 31;54 N jcn_only_AD CUFF.35 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 29;80 N cassette CUFF.48 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 282;244 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 29;28 K alternative_last_exon CUFF.7 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512210 chr1:10502322-10502796 31;43 N cassette CUFF.36 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 252;225 N jcn_only_AA CUFF.67 chr1 + chr1:110214206-110215824;chr1:110214206-110251102;chr1:110214206-110224430 chr1:110214206-110217368 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 48;72 N jcn_only_AA CUFF.85 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 7;13 N alternative_donor CUFF.118 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 32;6 K intron_retention CUFF.85 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 20;12 K cassette CUFF.91 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 41;84 N coord_cassette CUFF.106 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 24;133 N coord_cassette CUFF.117 chr1 + chr1:196913069-196927020 chr1:196913069-196918746;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918747-196918779;chr1:196919982-196920158 11;20 N alternative_donor CUFF.96 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 11;9 N jcn_only_AA chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 15;2 K intron_retention CUFF.95 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 154;33 N alternative_acceptor CUFF.49 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382790-54387440 chr1:54382789-54382790 71;2 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 31;557 N cassette CUFF.87 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 2;51 N intron_retention chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 6;29 K alternative_last_exon CUFF.140 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245254795 chr1:245246991-245285221 chr1:245250547-245251139;chr1:245254796-245255091 chr1:245285222-245290478 217;32 K alternative_first_exon CUFF.26 chr1 - chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26231634 chr1:26232343-26232740;chr1:26233279-26233568;chr1:26232880-26233040 chr1:26231635-26232033 192;75 K alternative_first_exon CUFF.3 chr1 + chr1:2005369-2066700,chr1:2005715-2066700,chr1:2043257-2066700,chr1:2006573-2066700,chr1:2013900-2066700,chr1:2065440-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2036335-2066700;chr1:2066526-2066700 chr1:1991031-2066700 chr1:2006623-2006818;chr1:2036087-2036334;chr1:2066261-2066525 chr1:1990980-1991030 1090;107 N cassette CUFF.110 chr1 - chr1:169696667-169698326;chr1:169697069-169698326 chr1:169696667-169697198,chr1:169697069-169697198;chr1:169697388-169698326 chr1:169697199-169697387 185;69 K alternative_first_exon CUFF.26 chr1 - chr1:26231230-26231539;chr1:26231230-26231634;chr1:26231230-26232342;chr1:26231230-26233278 chr1:26231230-26232879 chr1:26231635-26232033;chr1:26232343-26232740;chr1:26233279-26233568 chr1:26232880-26233040 245;22 N jcn_only_AD CUFF.1 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 23;24 N coord_cassette CUFF.3 chr1 + chr1:2075781-2080310 chr1:2075781-2076776;chr1:2076951-2077465;chr1:2077548-2080310 chr1:2076777-2076950;chr1:2077466-2077547 94;313 K cassette CUFF.114 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 59;20 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 41;251 K cassette CUFF.43 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 43;71 K coord_cassette CUFF.48 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 240;62 N cassette CUFF.58 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 44;43 N jcn_only_AD CUFF.3 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 82;20 K alternative_acceptor CUFF.17 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 381;13 N jcn_only_AA CUFF.142 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 59;21 K alternative_first_exon CUFF.33 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655462-28655635 chr1:28656754-28656886 74;22 N cassette CUFF.104 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 8;12 K alternative_first_exon CUFF.82 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389000-153389039 chr1:153389610-153389754 3;41 N alternative_acceptor CUFF.106,CUFF.113 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 196;5 K intron_retention CUFF.65 chr1 - chr1:106148712-106161480 chr1:106148711-106148712;chr1:106161480-106161481 60;30 N jcn_only_AA CUFF.140 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 230;10 K alternative_last_exon CUFF.129 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838651-222841354 chr1:222838225-222838581 44;304 N jcn_only_AD CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 12;11 N jcn_only_AA CUFF.43 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 10;81 N jcn_only_AA CUFF.118,CUFF.129 chr1 + chr1:222835675-222837339 chr1:222835675-222836229 chr1:222836230-222837339 chr1:222837339-222837340 191;53 K intron_retention CUFF.96 chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 19;93 K intron_retention CUFF.133 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 7;18 N alternative_donor CUFF.80 chr1 - chr1:151158427-151162480;chr1:151158427-151167754 chr1:151158427-151162599 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 24;0 N intron_retention chr1 + chr1:110212007-110212104 chr1:110212006-110212007;chr1:110212104-110212105 chr1:110212105-110212193 2;24 K intron_retention CUFF.85 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 12;309 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 4;44 N alternative_donor CUFF.3 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 74;0 N jcn_only_AD chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 4;30 K jcn_only_AD CUFF.43 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41486536-41487287 chr1:41487287-41487288 11;57 N alternative_acceptor CUFF.67,CUFF.96 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 198;6 N alternative_donor chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 4;34 K intron_retention CUFF.91 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 28;10 K cassette CUFF.3 chr1 + chr1:2075781-2077465 chr1:2075781-2076776;chr1:2076951-2077465 chr1:2076777-2076950 840;344 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 21;352 K intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 30;32 N coord_cassette CUFF.106 chr1 + chr1:167353189-167365522 chr1:167353189-167356417;chr1:167356485-167358824;chr1:167358999-167365522 chr1:167356418-167356484;chr1:167358825-167358998 11;65 K intron_retention CUFF.95 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 7;53 N jcn_only_AD chr1 + chr1:32541856-32542363 chr1:32542248-32542363 5;5 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 chr1:110211912-110211993 33;289 N coord_cassette CUFF.35 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 11;42 N alternative_donor chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 9;6 K intron_retention CUFF.75 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 37;12 K jcn_only_AA CUFF.103 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 14;31 K cassette CUFF.94 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 55;27 K alternative_first_exon CUFF.140 chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246924-245246990 chr1:245270442-245270599 25;30 N jcn_only_AA CUFF.3 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 136;34 K cassette CUFF.32 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 27;28 K intron_retention CUFF.3 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 49;34 N jcn_only_AD CUFF.46 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 38;22 K intron_retention CUFF.94 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 65;12 K alternative_acceptor CUFF.106,CUFF.67 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 chr1:110212093-110212193;chr1:110213936-110214004 193;67 N jcn_only_AA chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 20;540 K alternative_donor CUFF.36 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 382;87 K intron_retention CUFF.68 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 56;11 N alternative_donor CUFF.87 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 54;4 N jcn_only_AA chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 110;11 N alternative_acceptor CUFF.58 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85718386-85723154 chr1:85718385-85718386 20;1 K alternative_acceptor CUFF.121,CUFF.57 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 55;39 N alternative_acceptor CUFF.103 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 3;2 N alternative_acceptor CUFF.140,CUFF.7 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 182;0 K alternative_last_exon CUFF.118 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877290 29;16 N mutually_exclusive CUFF.106 chr1 + chr1:167190196-167272710,chr1:167272812-167301706 chr1:167190196-167210643,chr1:167210848-167301706 chr1:167272711-167272811 chr1:167210644-167210847 77;20 K intron_retention CUFF.43 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 57;32 N jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 12;29 N jcn_only_AA CUFF.135 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227613457-227617105 chr1:227617105-227617106 27;12 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 chr1:110211912-110211993 33;634 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 118;250 K intron_retention CUFF.30 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 85;23 N intron_retention CUFF.140 chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 10;40 N intron_retention chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 15;358 N alternative_acceptor CUFF.85 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 64;5 K alternative_acceptor CUFF.118 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 35;30 N cassette CUFF.20 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 9;47 N jcn_only_AD chr1 - chr1:151158427-151167754;chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 26;103 K alternative_first_exon CUFF.134 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401060 chr1:224397943-224398114 17;9 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 4;23 N coord_cassette CUFF.48 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 42;62 N jcn_only_AD CUFF.87 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 54;8 N jcn_only_AA CUFF.140,CUFF.7 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 182;10 N jcn_only_AA chr1 + chr1:245165535-245222687 chr1:245165535-245180543 27;28 N alternative_donor CUFF.56 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 119;83 K alternative_first_exon CUFF.120 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601176 chr1:205594760-205594866 14;12 N cassette CUFF.136 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 47;15 N alternative_donor CUFF.1 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 23;13 K alternative_last_exon CUFF.142 chr1 - chr1:247320706-247322307,chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247285277-247287173 chr1:247319716-247320519 158;52 N alternative_donor CUFF.36 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 367;3 K intron_retention CUFF.140 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 14;49 N jcn_only_AA CUFF.106,CUFF.113 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 196;5 N jcn_only_AD CUFF.87 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 64;20 N alternative_donor chr1 - chr1:151158427-151167754;chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 14;10 N alternative_donor CUFF.90 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 10;14 K intron_retention chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 chr1:110211912-110211993;chr1:110212093-110212193 634;10 N alternative_acceptor chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 0;11 K intron_retention CUFF.103 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 14;25 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 3;7 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 12;31 N jcn_only_AA chr1 + chr1:245133746-245222687;chr1:245133746-245165422 chr1:245133746-245180543 98;94 K intron_retention CUFF.91 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 72;13 N jcn_only_AA CUFF.20 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 76;6 K jcn_only_AA CUFF.127 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 17;8 N alternative_first_exon CUFF.128 chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941715 3;156 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26228173 chr1:26219005-26219098 11;5 N alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 12;37 K intron_retention CUFF.49 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 86;16 K alternative_donor CUFF.33 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 31;42 K alternative_acceptor CUFF.3,CUFF.67 chr1 + chr1:2075781-2076827 chr1:2075781-2076776 chr1:2076777-2076827 chr1:2076827-2076828 134;209 N alternative_acceptor CUFF.43 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 10;87 N alternative_donor CUFF.67 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 chr1:110211547-110211611;chr1:110211047-110211105 57;162 N jcn_only_AD CUFF.35 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 88;21 N cassette CUFF.136 chr1 + chr1:230203154-230338882 chr1:230203154-230313963;chr1:230314058-230338882 chr1:230313964-230314057 23;16 N alternative_acceptor CUFF.90 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 132;0 K alternative_first_exon CUFF.36 chr1 + chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551,chr1:32538700-32540551 chr1:32537632-32538053 chr1:32538456-32538652 14;396 N jcn_only_AD CUFF.3 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 74;16 N alternative_last_exon CUFF.26 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226591-26227578 13;266 K cassette CUFF.119 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 25;31 K intron_retention CUFF.95 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 5;11 K cassette CUFF.44 chr1 + chr1:47139892-47152344 chr1:47139892-47147852;chr1:47147937-47152344 chr1:47147853-47147936 121;34 N alternative_donor CUFF.22 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22963196-22963353 chr1:22963195-22963196 12;6 K alternative_first_exon CUFF.118 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877568-200877677 22;31 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930776 93;36 K intron_retention CUFF.91 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 41;13 N alternative_acceptor CUFF.135 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227613457-227617105 chr1:227617105-227617106 27;3 N jcn_only_AD CUFF.142 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 68;10 K alternative_first_exon CUFF.119 chr1 - chr1:202894336-202897608 chr1:202894336-202896216 chr1:202897609-202897852 chr1:202896217-202896390 34;2 N jcn_only_AD CUFF.85 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 7;101 K jcn_only_AA CUFF.121,CUFF.57 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 55;38 N jcn_only_AA CUFF.36 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 367;15 K intron_retention CUFF.104 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 77;6 N jcn_only_AA CUFF.140 chr1 + chr1:245133746-245165422;chr1:245133746-245180543 chr1:245133746-245222687 153;38 K cassette CUFF.110 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 5;216 N alternative_donor CUFF.80 chr1 - chr1:151158427-151162480;chr1:151158427-151162599 chr1:151158427-151167754 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 10;14 K alternative_first_exon CUFF.26 chr1 - chr1:26231230-26231539;chr1:26231230-26231634;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26232342 chr1:26231635-26232033;chr1:26233279-26233568;chr1:26232880-26233040 chr1:26232343-26232740 148;119 K cassette CUFF.56 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 169;112 N jcn_only_AA CUFF.80 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 120;19 N alternative_acceptor CUFF.46 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 38;1 N alternative_acceptor CUFF.20 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 74;7 K cassette CUFF.68 chr1 - chr1:113471975-113497897 chr1:113471975-113472502;chr1:113472657-113497897 chr1:113472503-113472656 10;10 N alternative_acceptor CUFF.142 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 59;14 K intron_retention CUFF.91 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 44;5 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 24;25 K cassette CUFF.15 chr1 + chr1:15753781-15755088 chr1:15753781-15754393;chr1:15754506-15755088 chr1:15754394-15754505 29;10 N alternative_acceptor CUFF.1 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 23;17 K alternative_first_exon CUFF.3 chr1 + chr1:2005369-2066700,chr1:2005715-2066700,chr1:2043257-2066700,chr1:2006573-2066700,chr1:2013900-2066700,chr1:2065440-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2066526-2066700;chr1:1991031-2066700 chr1:2036335-2066700 chr1:2006623-2006818;chr1:2066261-2066525;chr1:1990980-1991030 chr1:2036087-2036334 675;522 N jcn_only_AA chr1 + chr1:32541424-32557272 chr1:32541424-32542164 28;9 K alternative_first_exon CUFF.26 chr1 - chr1:26231230-26231539;chr1:26231230-26231634;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26233278 chr1:26231635-26232033;chr1:26232343-26232740;chr1:26232880-26233040 chr1:26233279-26233568 242;25 N alternative_donor CUFF.129 chr1 + chr1:222835675-222837339 chr1:222836374-222837339 chr1:222835675-222836373 chr1:222835674-222835675 191;13 N alternative_acceptor CUFF.67 chr1 + chr1:110214206-110217368;chr1:110214206-110251102;chr1:110214206-110224430 chr1:110214206-110215824 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 11;0 N jcn_only_AA CUFF.20 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 76;7 K jcn_only_AA CUFF.42 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 69;29 N alternative_donor CUFF.3 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 49;6 N jcn_only_AA chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 60;62 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 26;6 N cassette CUFF.129 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 21;48 N alternative_acceptor CUFF.39 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 76;5 K alternative_first_exon CUFF.85 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 16;35 N jcn_only_AD CUFF.35 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 65;10 N jcn_only_AD CUFF.106 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 540;12 K intron_retention CUFF.80 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 142;11 N cassette CUFF.65 chr1 - chr1:106132408-106145898 chr1:106132408-106143891;chr1:106144008-106145898 chr1:106143892-106144007 27;41 K alternative_first_exon CUFF.75 chr1 + chr1:145577754-145578061;chr1:145575405-145578061 chr1:145576103-145578061 chr1:145575206-145575404 chr1:145575981-145576102 23;20 K alternative_first_exon CUFF.140 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245133007-245133100 chr1:245133599-245133745 38;72 N coord_cassette CUFF.110 chr1 - chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169697198;chr1:169697388-169698326 chr1:169696880-169697068;chr1:169697199-169697387 141;20 K intron_retention CUFF.96 chr1 + chr1:160137203-160141040 chr1:160137202-160137203;chr1:160141040-160141041 11;3 K alternative_first_exon CUFF.3 chr1 + chr1:2005369-2066700,chr1:2005715-2066700,chr1:2043257-2066700,chr1:2006573-2066700,chr1:2013900-2066700,chr1:2065440-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2036335-2066700;chr1:1991031-2066700 chr1:2066526-2066700 chr1:2006623-2006818;chr1:2036087-2036334;chr1:1990980-1991030 chr1:2066261-2066525 1050;147 K intron_retention CUFF.25 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 78;9 N mutually_exclusive CUFF.90 chr1 - chr1:156449589-156450625,chr1:156450764-156452228 chr1:156449589-156450434,chr1:156450570-156452228 chr1:156450626-156450763 chr1:156450435-156450569 2;2 K cassette CUFF.48 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 210;69 N mutually_exclusive CUFF.36 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 45;67 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 64;6 N intron_retention chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 7;30 N alternative_acceptor CUFF.3 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 74;1 N jcn_only_AD CUFF.140 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 230;18 N cassette CUFF.67 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 chr1:110213936-110214004 7;113 K cassette CUFF.7 chr1 + chr1:10494748-10511433 chr1:10494748-10500403;chr1:10500471-10511433 chr1:10500404-10500470 29;27 N jcn_only_AD CUFF.95 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 11;10 N alternative_acceptor CUFF.20 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 16;65 K alternative_first_exon CUFF.118 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860104-200860530 chr1:200863899-200864215 38;35 N jcn_only_AD CUFF.26,CUFF.91 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 5;9 N jcn_only_AA chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 5;27 K cassette CUFF.117 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 11;29 K cassette CUFF.106 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 17;168 N alternative_donor CUFF.46 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 38;2 K mutually_exclusive CUFF.110 chr1 - chr1:169696667-169697198,chr1:169697388-169698326 chr1:169696667-169696879,chr1:169697069-169698326 chr1:169697199-169697387 chr1:169696880-169697068 51;48 N alternative_acceptor CUFF.3 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 74;5 K alternative_last_exon CUFF.140 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328;chr1:245246991-245250546;chr1:245246991-245285221 chr1:245246991-245254795 chr1:245250547-245251139;chr1:245285222-245290478 chr1:245254796-245255091 211;38 N alternative_acceptor CUFF.140 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 230;0 N jcn_only_AD CUFF.90 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 132;6 N jcn_only_AD CUFF.129 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 91;22 N jcn_only_AA CUFF.90 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 132;8 N alternative_donor CUFF.35 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 95;6 N jcn_only_AD CUFF.118 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 32;31 K cassette CUFF.30 chr1 - chr1:27436269-27480473 chr1:27436269-27440316;chr1:27440778-27480473 chr1:27440317-27440777 68;216 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 3;1 N cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 41;281 N jcn_only_AA CUFF.67 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110215825-110217368;chr1:110217369-110224430;chr1:110224431-110251102 chr1:110217368-110217369;chr1:110224430-110224431;chr1:110251102-110251103 102;19 N jcn_only_AD CUFF.80 chr1 - chr1:151158427-151162480;chr1:151158427-151167754 chr1:151158427-151162599 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 116;12 N jcn_only_AA CUFF.20 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 13;69 N jcn_only_AD chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 9;16 K alternative_first_exon CUFF.133 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224363368-224363649 chr1:224371374-224371533 119;24 K alternative_last_exon CUFF.106 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167353094-167353188 chr1:167345790-167345815 100;8 K jcn_only_AA CUFF.17 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 381;27 N alternative_acceptor CUFF.118,CUFF.129 chr1 + chr1:222835675-222837339 chr1:222835675-222836229 chr1:222836230-222837339 chr1:222837339-222837340 191;14 N alternative_donor CUFF.106 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 150;2 N cassette CUFF.128 chr1 - chr1:213181809-213188954 chr1:213181809-213184549;chr1:213184801-213188954 chr1:213184550-213184800 6;53 K cassette CUFF.100 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 53;16 N alternative_donor CUFF.67 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 chr1:110212093-110212193 124;146 N jcn_only_AD CUFF.67 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 chr1:110211547-110211611;chr1:110211047-110211105 57;248 N alternative_donor CUFF.48 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 62;5 N cassette CUFF.106 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 55;216 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 10;7 N cassette CUFF.36 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 216;221 N alternative_donor CUFF.85 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 64;3 N jcn_only_AD CUFF.3 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 49;12 K intron_retention CUFF.140 chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 10;50 K intron_retention CUFF.103 chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 31;11 K cassette CUFF.25 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 12;34 N alternative_donor CUFF.35 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 21;80 K alternative_first_exon CUFF.46 chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905790 chr1:53905100-53905335 203;59 K intron_retention chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 27;19 N alternative_donor CUFF.85 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 7;10 K intron_retention CUFF.33 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 9;7 N alternative_first_exon CUFF.136 chr1 + chr1:230193826-230313963 chr1:230203154-230313963 chr1:230193536-230193825 chr1:230202912-230203153 31;6 N jcn_only_AD CUFF.36 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 367;16 K jcn_only_AA CUFF.106,CUFF.67 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 chr1:110212093-110212193;chr1:110213936-110214004 193;124 N alternative_donor CUFF.35 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 86;15 N jcn_only_AA CUFF.3 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 74;19 N alternative_acceptor CUFF.75 chr1 + chr1:145575405-145578061 chr1:145575405-145577651 chr1:145577652-145578061 chr1:145578061-145578062 23;2 N jcn_only_AA CUFF.75 chr1 + chr1:145575405-145578061 chr1:145575405-145577651 chr1:145577652-145578061 chr1:145578061-145578062 23;10 N cassette CUFF.85 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 8;78 N alternative_donor CUFF.26,CUFF.91 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 5;2 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 10;41 N jcn_only_AD CUFF.90 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 10;9 N intron_retention chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 12;30 N jcn_only_AD CUFF.56 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 119;10 N alternative_acceptor CUFF.70 chr1 - chr1:114423763-114429158 chr1:114424620-114429158 chr1:114423763-114424619 chr1:114423762-114423763 2;33 K cassette CUFF.90 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 124;19 N jcn_only_AA CUFF.140 chr1 + chr1:245133746-245222687;chr1:245133746-245180543 chr1:245133746-245165422 132;60 K intron_retention CUFF.67 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 chr1:110212093-110212193 124;67 N cassette CUFF.106 chr1 + chr1:167190196-167301706;chr1:167190196-167272710 chr1:167190196-167210643;chr1:167210848-167301706,chr1:167210848-167272710 chr1:167210644-167210847 478;41 N jcn_only_AA CUFF.67,CUFF.96 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 198;62 N cassette CUFF.3 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 94;791 N jcn_only_AA chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 13;293 K alternative_last_exon CUFF.837 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000291-100000367 31;11 K cassette CUFF.814 chr9 - chr9:15214248-15225914 chr9:15214248-15224357;chr9:15224504-15225914 chr9:15224358-15224503 47;113 N cassette CUFF.822 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 12;4 K alternative_first_exon CUFF.868 chr9 + chr9:139780732-139793164,chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139777119-139777162 chr9:139780877-139780993 56;535 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 24;336 K intron_retention CUFF.870 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 82;10 N alternative_donor CUFF.822 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 11;8 K jcn_only_AD CUFF.830 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 35;8 N jcn_only_AD CUFF.822 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 20;52 N alternative_donor CUFF.868 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 13;899 K cassette CUFF.849 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 26;84 K alternative_donor CUFF.847 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 5;9 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.859 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 32;341 N cassette CUFF.863 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 43;32 N jcn_only_AD CUFF.863 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 27;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 cassette CUFF.858 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 74;65 N coord_cassette CUFF.859 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 18;205 N alternative_donor chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 24;19 K intron_retention CUFF.859 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 419;43 N alternative_donor chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125027218-125028059 chr9:125027217-125027218 10;15 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 7;158 N jcn_only_AD CUFF.859,CUFF.864 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 227;35 K alternative_acceptor CUFF.818,CUFF.870 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 82;18 N alternative_donor CUFF.854 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 5;28 N intron_retention chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 15;34 N alternative_acceptor chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 23;107 K alternative_acceptor CUFF.849 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 22;59 N alternative_donor CUFF.859 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.834 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 12;81 K cassette CUFF.853 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 9;297 N jcn_only_AD CUFF.859 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 355;19 K intron_retention CUFF.814 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 53;22 N cassette CUFF.825 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 8;5 K cassette CUFF.830 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 7;34 N jcn_only_AD CUFF.859 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 227;35 N jcn_only_AA CUFF.858 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 96;38 N alternative_donor CUFF.858 chr9 + chr9:130994404-130996299;chr9:130988453-130996299 chr9:130986669-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 13;28 N alternative_donor CUFF.859 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 236;34 N jcn_only_AD CUFF.818 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 52;21 K alternative_last_exon CUFF.854 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125636063-125637647 21;62 N cassette CUFF.859 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 26;325 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 15;195 N intron_retention CUFF.859 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 19;15 N alternative_acceptor CUFF.868 chr9 + chr9:139815668-139818303 chr9:139815668-139816833 chr9:139816834-139818303 chr9:139818303-139818304 995;3 N jcn_only_AD CUFF.858 chr9 + chr9:130986669-130996299;chr9:130988453-130996299 chr9:130994404-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 124;19 N jcn_only_AD CUFF.863 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 25;12 N jcn_only_AD CUFF.854 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 5;76 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 41;255 N alternative_acceptor CUFF.853 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 200;10 N jcn_only_AD CUFF.859 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 360;13 K intron_retention CUFF.870 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 26;11 N alternative_acceptor CUFF.861 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 59;42 K cassette CUFF.819 chr9 - chr9:35077397-35078601 chr9:35077397-35078137;chr9:35078341-35078601 chr9:35078138-35078340 3;104 N jcn_only_AA CUFF.861 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 76;80 K cassette CUFF.870 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 86;81 K jcn_only_AD CUFF.847 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 5;12 K jcn_only_AD CUFF.863 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 87;112 N alternative_donor CUFF.859 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 195;24 N cassette CUFF.842 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 9;85 N jcn_only_AD CUFF.853 chr9 + chr9:125027218-125033142;chr9:125028060-125033142 chr9:125027825-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 264;15 N cassette CUFF.864 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 chr9:135742291-135742340;chr9:135753559-135754253 4;28 N jcn_only_AD CUFF.859 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 255;6 N alternative_acceptor CUFF.822 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 6;3 N jcn_only_AD CUFF.858 chr9 + chr9:130994404-130996299;chr9:130986669-130996299 chr9:130988453-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 47;96 N alternative_donor CUFF.859 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 11;6 N jcn_only_AD CUFF.830 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 17;11 K intron_retention CUFF.861 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 129;34 K jcn_only_AA CUFF.854 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 57;27 K alternative_last_exon CUFF.822 chr9 + chr9:43853617-43861005;chr9:43853617-43861002 chr9:43853617-43854068 chr9:43861003-43861206 chr9:43854069-43854271 31;85 N jcn_only_AA CUFF.858 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 148;10 K mutually_exclusive CUFF.818 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 141;81 N jcn_only_AD CUFF.858 chr9 + chr9:130994404-130996299;chr9:130988453-130996299 chr9:130986669-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 115;28 K cassette CUFF.853 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 123;98 N jcn_only_AD CUFF.868 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 26;899 K intron_retention CUFF.818 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 94;2 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 143;38 K jcn_only_AA CUFF.861 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 54;129 K intron_retention CUFF.849 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 22;48 N alternative_donor CUFF.853 chr9 + chr9:125047567-125054027 chr9:125048446-125054027 chr9:125047567-125048445 chr9:125047566-125047567 199;19 N alternative_donor CUFF.853 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 259;9 N jcn_only_AA CUFF.859 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 84;190 K intron_retention CUFF.861 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 54;131 N cassette CUFF.820 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 23;79 N cassette CUFF.814 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 7;64 N cassette CUFF.822 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 15;8 K intron_retention CUFF.859 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 341;48 N jcn_only_AA CUFF.853 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 286;10 N alternative_donor CUFF.859 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 16;1 N alternative_acceptor CUFF.822 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 6;2 N alternative_donor CUFF.858 chr9 + chr9:130986669-130996299;chr9:130988453-130996299 chr9:130994404-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 40;1 N jcn_only_AD CUFF.814,CUFF.859 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 35;30 N alternative_acceptor CUFF.834,CUFF.845 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 17;1 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 119;143 N intron_retention CUFF.861 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 19;123 N alternative_last_exon CUFF.814 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249032-15249685 4;195 N jcn_only_AA CUFF.814 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 82;49 N jcn_only_AA CUFF.853 chr9 + chr9:125047567-125048058;chr9:125047567-125054027 chr9:125047567-125048317 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 244;30 N coord_cassette CUFF.864 chr9 - chr9:135742341-135753558 chr9:135742341-135749726;chr9:135749827-135750501;chr9:135750587-135753558 chr9:135749727-135749826;chr9:135750502-135750586 chr9:135742291-135742340;chr9:135753559-135754253 4;38 K intron_retention CUFF.817 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 84;12 K alternative_first_exon CUFF.814 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15267912-15267946 chr9:15232230-15232536 41;139 N alternative_donor CUFF.859,CUFF.864 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.814,CUFF.859 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 78;141 N alternative_donor CUFF.863 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 alternative_acceptor CUFF.861 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 56;45 N jcn_only_AD CUFF.859 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 218;44 N alternative_acceptor CUFF.822 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 20;2 N alternative_acceptor CUFF.814 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 53;9 K alternative_acceptor CUFF.845 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 201;14 N alternative_acceptor CUFF.858 chr9 + chr9:130988453-130996299 chr9:130988453-130994264 chr9:130994265-130996299 chr9:130996299-130996300 96;8 N jcn_only_AA CUFF.814 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 54;77 K alternative_last_exon CUFF.845 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 160;21 N alternative_donor CUFF.858 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 121;12 K jcn_only_AA CUFF.845 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 197;81 N mutually_exclusive CUFF.859 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 51;7 N alternative_donor chr9 + chr9:125047567-125048317 chr9:125048226-125048317 chr9:125047567-125048225 chr9:125047566-125047567 30;23 N jcn_only_AA CUFF.854 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 14;20 K alternative_last_exon CUFF.852 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906337-124906657 26;28 N jcn_only_AD chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 24;28 N alternative_donor CUFF.818 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 52;7 N alternative_acceptor CUFF.861 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 87;14 K jcn_only_AA CUFF.845 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 201;28 K alternative_last_exon CUFF.849 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514256-123515589 chr9:123527109-123527125 chr9:123533626-123533795 9;24 N alternative_acceptor CUFF.858 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 148;4 N jcn_only_AA CUFF.830 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 36;10 N jcn_only_AA CUFF.822 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 20;37 N jcn_only_AA CUFF.858 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 98;37 K intron_retention CUFF.854 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 49;47 N alternative_donor chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 165;54 K cassette CUFF.870 chr9 + chr9:139744590-139745206 chr9:139744590-139744954;chr9:139745013-139745206 chr9:139744955-139745012 86;56 N jcn_only_AD chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 20;55 N cassette CUFF.818 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 21;80 N jcn_only_AA CUFF.822 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 6;6 N alternative_acceptor CUFF.853 chr9 + chr9:125047567-125048058;chr9:125047567-125054027 chr9:125047567-125048317 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 201;1 K jcn_only_AA CUFF.818,CUFF.870 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 82;26 N alternative_donor CUFF.861 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 54;24 K intron_retention CUFF.861 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 14;88 N jcn_only_AA CUFF.853,CUFF.858 chr9 + chr9:125047567-125054027;chr9:125047567-125048317 chr9:125047567-125048058 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 229;44 K cassette CUFF.865 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 10;35 K cassette CUFF.845 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 179;77 K intron_retention CUFF.819 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 77;13 N alternative_acceptor CUFF.853,CUFF.858 chr9 + chr9:125047567-125054027;chr9:125047567-125048317 chr9:125047567-125048058 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 200;2 K mutually_exclusive CUFF.840 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 17;32 N intron_retention chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 11;24 K intron_retention CUFF.859 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 13;84 N jcn_only_AA CUFF.822 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 6;4 K alternative_last_exon CUFF.834 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592055 70;51 N alternative_donor CUFF.868 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 910;2 N alternative_donor CUFF.853 chr9 + chr9:125027825-125033142;chr9:125028060-125033142 chr9:125027218-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 13;255 N alternative_donor CUFF.863 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 alternative_acceptor CUFF.863 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 jcn_only_AD chr9 + chr9:125047567-125048317 chr9:125048226-125048317 chr9:125047567-125048225 chr9:125047566-125047567 30;26 N alternative_acceptor CUFF.853 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 205;5 N alternative_acceptor CUFF.858 chr9 + chr9:130985140-130988313 chr9:130985140-130986529 chr9:130986530-130988313 chr9:130988313-130988314 98;4 N jcn_only_AD CUFF.861 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 54;19 K cassette CUFF.845 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 13;222 N intron_retention chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 245;217 N cassette CUFF.859 chr9 - chr9:130931799-130932298 chr9:130931799-130931901;chr9:130931980-130932298 chr9:130931902-130931979 210;64 N alternative_donor CUFF.858 chr9 + chr9:130994404-130996299;chr9:130986669-130996299 chr9:130988453-130996299 chr9:130986669-130988452;chr9:130988453-130994403 chr9:130986668-130986669;chr9:130988452-130988453 29;12 N cassette CUFF.820 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 9;111 N jcn_only_AD CUFF.863 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;5 N intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 30;330 N jcn_only_AD chr9 - chr9:15211396-15267911 chr9:15211396-15214136 5;86 N alternative_acceptor chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 13;240 K intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 11;264 N jcn_only_AA CUFF.861 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 114;42 N alternative_donor CUFF.863 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.859 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 47;223 N jcn_only_AD CUFF.822 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 11;10 N jcn_only_AD CUFF.863 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 CUFF.859 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 257;13 N jcn_only_AA chr9 + chr9:125047567-125048058;chr9:125047567-125048317 chr9:125047567-125054027 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 74;199 K alternative_first_exon CUFF.828 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161608 chr9:71160845-71161032 192;31 K intron_retention CUFF.824 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 6;3 K jcn_only_AD CUFF.828,CUFF.838 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 chr9:104188837-104188920 36;9 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667646 chr9:125655188-125655305 16;39 N alternative_acceptor chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016288-131016932 chr9:131016932-131016933 42;18 N jcn_only_AD CUFF.853 chr9 + chr9:125047567-125054027 chr9:125048446-125054027 chr9:125047567-125048445 chr9:125047566-125047567 199;22 K intron_retention CUFF.819 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 38;10 K cassette CUFF.839 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 6;6 N alternative_donor CUFF.822 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 20;3 K alternative_first_exon CUFF.820 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35161999-35162302 chr9:35227701-35227930 6;22 K alternative_last_exon CUFF.834,CUFF.870 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600618 17;30 K alternative_acceptor CUFF.861 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 54;168 N cassette CUFF.859 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 76;222 N jcn_only_AA CUFF.863 chr9 + chr9:133320383-133325658;chr9:133320383-133327610 chr9:133320383-133326988 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 15;9 K intron_retention CUFF.863 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 10;21 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 2;156 N jcn_only_AA chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 23;10 K intron_retention CUFF.819 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 47;39 N jcn_only_AA CUFF.814 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 126;5 N alternative_donor CUFF.868 chr9 + chr9:139815668-139818303 chr9:139816946-139818303 chr9:139815668-139816945 chr9:139815667-139815668 995;1 N jcn_only_AA CUFF.861 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 122;34 N cassette CUFF.859 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 129;236 N jcn_only_AA CUFF.814 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 53;8 N intron_retention chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 20;32 N alternative_donor chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 20;38 K cassette CUFF.864 chr9 - chr9:135742341-135750501 chr9:135742341-135749726;chr9:135749827-135750501 chr9:135749727-135749826 chr9:135742291-135742340;chr9:135750502-135750586 12;42 K intron_retention chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 55;35 N alternative_donor CUFF.853 chr9 + chr9:125027218-125033142;chr9:125028060-125033142 chr9:125027825-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 264;4 N jcn_only_AA CUFF.853 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 264;31 N alternative_acceptor CUFF.830 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 36;0 N jcn_only_AD CUFF.853 chr9 + chr9:125027825-125033142;chr9:125028060-125033142 chr9:125027218-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 25;255 K alternative_acceptor CUFF.845 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 197;77 N jcn_only_AD chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 54;11 K cassette CUFF.866 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 14;41 N alternative_donor CUFF.868 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 901;11 K cassette CUFF.845 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 252;11 N jcn_only_AA CUFF.868 chr9 + chr9:139815668-139818303 chr9:139815668-139816833 chr9:139816834-139818303 chr9:139818303-139818304 995;26 N jcn_only_AD CUFF.845 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 17;10 N intron_retention CUFF.853 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 44;18 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 21;3 K intron_retention CUFF.854 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 12;4 N alternative_acceptor chr9 + chr9:125047567-125048058;chr9:125047567-125048317 chr9:125047567-125054027 chr9:125048059-125048317;chr9:125048318-125054027 chr9:125048317-125048318;chr9:125054027-125054028 3;199 K cassette CUFF.840 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 29;15 N jcn_only_AA CUFF.863 chr9 + chr9:133320383-133326988;chr9:133320383-133327610 chr9:133320383-133325658 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 19;5 N jcn_only_AD CUFF.859 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 40;24 N jcn_only_AD CUFF.822 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 6;4 K alternative_last_exon CUFF.864 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730244-135730312 chr9:135736779-135736984 chr9:135739052-135739165 62;139 K intron_retention CUFF.822 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 4;11 N jcn_only_AD CUFF.868 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 904;21 K alternative_last_exon CUFF.830 chr9 - chr9:86485548-86498727 chr9:86495410-86498727 chr9:86485434-86485547 chr9:86495128-86495409 25;74 N jcn_only_AD CUFF.849,CUFF.859 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 57;9 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 35;18 K jcn_only_AD CUFF.854,CUFF.864 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702241-135702441 27;55 K alternative_acceptor CUFF.854 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 57;15 N jcn_only_AD CUFF.868 chr9 + chr9:139815668-139818303 chr9:139816946-139818303 chr9:139815668-139816945 chr9:139815667-139815668 995;5 N jcn_only_AD chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125027218-125028059 chr9:125027217-125027218 10;23 N alternative_donor CUFF.849,CUFF.859 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 57;13 N alternative_donor CUFF.863 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 N alternative_acceptor CUFF.863 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 jcn_only_AA chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016288-131016932 chr9:131016932-131016933 42;60 N alternative_donor CUFF.845 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 17;1 K alternative_first_exon CUFF.863 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351665-133351776 47;15 N cassette CUFF.818 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 21;141 N alternative_acceptor CUFF.859 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 84;95 K alternative_donor CUFF.863 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 87;49 N jcn_only_AD CUFF.853 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125027218-125027824;chr9:125027825-125028059 chr9:125027217-125027218;chr9:125027824-125027825 270;10 N jcn_only_AD CUFF.858 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 121;27 K jcn_only_AA CUFF.849 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 22;57 N coord_cassette CUFF.822 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 15;10 N jcn_only_AD CUFF.868 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 920;5 K intron_retention CUFF.818 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 52;2 N jcn_only_AA CUFF.834,CUFF.845 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 17;8 K intron_retention CUFF.870 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 20;42 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 14;10 N alternative_donor CUFF.822 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 6;2 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 19;69 N jcn_only_AA CUFF.771 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 chr8:71543340-71564047 chr8:71564047-71564048 chr8:71520747-71521068;chr8:71564048-71564129 32;13 K alternative_last_exon CUFF.772 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74890991-74891267 chr8:74888540-74888726 52;66 K jcn_only_AD CUFF.759,CUFF.785 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96084945-96085156 chr8:96085156-96085157 207;5 N intron_retention chr8 - chr8:99055903-99056166 chr8:99055902-99055903;chr8:99056166-99056167 102;5 K alternative_last_exon CUFF.788 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037079-99037966 chr8:99054873-99055003 157;273 K intron_retention CUFF.777 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 143;15 N jcn_only_AD CUFF.796 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107749829-107751685 chr8:107670414-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 74;13 K alternative_first_exon CUFF.808 chr8 + chr8:144374455-144375141;chr8:144373029-144375141 chr8:144373781-144375141,chr8:144373938-144375141 chr8:144372915-144373028 chr8:144373658-144373780 19;40 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 30;12 K alternative_first_exon CUFF.765 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008914 chr8:38006594-38006665 15;12 K alternative_first_exon CUFF.777 chr8 - chr8:80976829-81032049,chr8:80976829-81070671,chr8:80976829-81083441,chr8:80976829-81083659,chr8:80976829-81130703;chr8:80976829-81083255 chr8:80976829-80992549 chr8:81083256-81083496 chr8:80992550-80993018 668;82 N cassette CUFF.777 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 30;509 N alternative_donor CUFF.796 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107749829-107751685 chr8:107670414-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 3;13 N alternative_first_exon CUFF.773 chr8 + chr8:75233824-75272371;chr8:75233481-75272371 chr8:75263557-75272371,chr8:75263702-75272371 chr8:75233689-75233823;chr8:75233365-75233480 chr8:75263509-75263556 105;33 K intron_retention CUFF.765 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 22;8 K intron_retention CUFF.768 chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 124;39 N jcn_only_AA CUFF.809 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 110;7 N mutually_exclusive CUFF.777 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.791 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 72;38 K intron_retention CUFF.761 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 142;14 K alternative_acceptor CUFF.787,CUFF.792 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 405;34 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 564;138 K alternative_donor CUFF.759,CUFF.785 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96084945-96085156 chr8:96085156-96085157 207;12 N jcn_only_AA CUFF.761 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 12;60 N jcn_only_AA CUFF.791 chr8 + chr8:106801153-106810951 chr8:106801153-106807983 chr8:106807984-106810951 chr8:106810951-106810952 6;197 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 33;564 K intron_retention CUFF.788 chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 283;11 N alternative_donor CUFF.796 chr8 + chr8:107593480-107691437;chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107531368-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 0;28 K cassette CUFF.802 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 24;171 K intron_retention CUFF.790 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 9;59 N jcn_only_AD CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107670314-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 72;19 N alternative_donor chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 25;0 N jcn_only_AD CUFF.800 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 82;27 K jcn_only_AD CUFF.802 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 81;110 N alternative_acceptor CUFF.761 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 30;24 K alternative_first_exon CUFF.770 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224527 12;40 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 28;103 K cassette CUFF.765 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 14;8 N alternative_donor CUFF.806 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133854637-133856470 chr8:133856470-133856471 68;4 N jcn_only_AD chr8 - chr8:120807872-120809901 chr8:120807872-120809229 9;4 N alternative_acceptor CUFF.753 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;12 N jcn_only_AD CUFF.764,CUFF.777 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 187;68 K cassette CUFF.800 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 7;21 K intron_retention chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 1121;12 N jcn_only_AD CUFF.768 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 150;245 K alternative_first_exon CUFF.764 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30669836-30670488 chr8:30667506-30667846 130;63 N intron_retention CUFF.788 chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 24;41 N jcn_only_AA CUFF.777 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 790;136 N jcn_only_AD CUFF.772 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 103;3 N cassette CUFF.768 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 28;231 N alternative_donor CUFF.791 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 72;0 K cassette CUFF.768 chr8 - chr8:56675588-56676494 chr8:56675588-56675980;chr8:56676261-56676494 chr8:56675981-56676260 226;54 K intron_retention CUFF.798 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 11;77 N alternative_donor CUFF.796 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107670414-107751685 chr8:107749829-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 14;2 N alternative_acceptor CUFF.791 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 72;0 K jcn_only_AA CUFF.787,CUFF.792 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 405;72 K intron_retention CUFF.759 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 114;2 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 24;61 N alternative_first_exon CUFF.773 chr8 + chr8:75233481-75272371;chr8:75263557-75272371,chr8:75263702-75272371 chr8:75233824-75272371 chr8:75233365-75233480;chr8:75263509-75263556 chr8:75233689-75233823 38;100 K jcn_only_AA CUFF.773,CUFF.801 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 13;20 N alternative_donor CUFF.791 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 6;9 N alternative_donor CUFF.796 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 86;1 N alternative_donor CUFF.800 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 82;6 K alternative_first_exon CUFF.755 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 7;14 K jcn_only_AA CUFF.759 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 11;93 N jcn_only_AD CUFF.791 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 48;186 N alternative_donor CUFF.796 chr8 + chr8:107726214-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107738538-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 15;1 K alternative_donor CUFF.802 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 81;102 K intron_retention CUFF.788 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 411;15 K jcn_only_AD CUFF.756 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 37;539 N intron_retention chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 39;102 K cassette CUFF.781 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 4;31 N alternative_acceptor CUFF.761 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 36;18 N cassette CUFF.800 chr8 - chr8:120818642-120843916 chr8:120818642-120831585;chr8:120831747-120843916 chr8:120831586-120831746 91;1 K alternative_first_exon CUFF.763 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605721 chr8:29592687-29592739 85;13 N jcn_only_AD CUFF.768 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 293;102 K alternative_last_exon CUFF.762 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27530537 5;41 K alternative_last_exon CUFF.771 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71572380-71575514 chr8:71565930-71566216 chr8:71564770-71564987 20;45 N jcn_only_AA CUFF.761 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 39;9 N alternative_acceptor CUFF.771 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 chr8:71543340-71564047 chr8:71564047-71564048 chr8:71520747-71521068;chr8:71564048-71564129 32;2 N alternative_acceptor CUFF.807,CUFF.812 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 21;3 N jcn_only_AD CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107670314-107691437;chr8:107670414-107691437 chr8:107630412-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 68;24 N cassette CUFF.773 chr8 + chr8:75262814-75272371 chr8:75262814-75263508;chr8:75263557-75272371 chr8:75263509-75263556 22;30 K jcn_only_AA CUFF.771 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 chr8:71564048-71564129;chr8:71564770-71564987 42;5 N cassette CUFF.768 chr8 - chr8:56652778-56663522;chr8:56656180-56663522 chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522 chr8:56657620-56657680 60;98 K jcn_only_AA CUFF.763 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 12;103 N cassette CUFF.761 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 30;27 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 14;60 N alternative_donor CUFF.796 chr8 + chr8:107738538-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107726214-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 16;0 N alternative_acceptor chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 19;0 N alternative_donor chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 1;24 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 118;138 K cassette CUFF.788 chr8 - chr8:99055004-99057574 chr8:99055004-99057170;chr8:99057317-99057574 chr8:99057171-99057316 283;366 K alternative_acceptor CUFF.771 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 chr8:71564048-71564129;chr8:71564770-71564987 42;2 N alternative_acceptor CUFF.787,CUFF.808 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 32;1 K alternative_acceptor CUFF.765 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 22;11 N alternative_donor CUFF.768 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 103;245 K alternative_acceptor CUFF.759 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 11;49 N cassette CUFF.768 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 24;136 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 12;15 K intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 129;9 K alternative_last_exon CUFF.807 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143995379-143995461 chr8:143927811-143927856 5;45 N alternative_donor CUFF.777 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 790;52 K jcn_only_AA CUFF.765 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 22;11 N intron_retention CUFF.777 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 10;30 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 43;14 N alternative_donor CUFF.812 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 10;1 N jcn_only_AA CUFF.800 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 82;19 N jcn_only_AD CUFF.796 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 10;5 N jcn_only_AD CUFF.791 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 72;5 N jcn_only_AD CUFF.796 chr8 + chr8:107726214-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107738538-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 69;19 N alternative_last_exon CUFF.762 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106431372-106431530 chr8:106427103-106427230 7;7 N jcn_only_AD CUFF.800 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;5 K intron_retention CUFF.788 chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 367;47 K intron_retention CUFF.765 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 10;9 K intron_retention CUFF.764 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 112;35 N cassette CUFF.773 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 59;112 N jcn_only_AD CUFF.806 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133854637-133856470 chr8:133856470-133856471 68;6 N cassette CUFF.768 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619 chr8:56656040-56656179 53;74 N jcn_only_AA CUFF.761 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 24;24 N jcn_only_AA CUFF.809 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 102;15 N jcn_only_AA CUFF.807,CUFF.812 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144823922-144826029 chr8:144826029-144826030 21;15 N jcn_only_AA chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 19;17 K intron_retention CUFF.765 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 11;4 K jcn_only_AD CUFF.808 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 23;32 N alternative_first_exon CUFF.773 chr8 + chr8:75233824-75272371;chr8:75263557-75272371,chr8:75263702-75272371 chr8:75233481-75272371 chr8:75233689-75233823;chr8:75263509-75263556 chr8:75233365-75233480 133;5 N jcn_only_AA CUFF.761 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 33;15 N intron_retention CUFF.768 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 29;19 N jcn_only_AD CUFF.796 chr8 + chr8:107726214-107751685;chr8:107738538-107751685;chr8:107670414-107751685 chr8:107749829-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 38;50 K alternative_first_exon CUFF.772 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888393-74888726 81;150 N cassette CUFF.777 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 153;458 N alternative_first_exon CUFF.791 chr8 + chr8:106427235-106431371,chr8:106400154-106431371;chr8:106331210-106431371 chr8:106370866-106431371 chr8:106330920-106331209 chr8:106370640-106370865 61;8 N cassette CUFF.759 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 8;100 K intron_retention CUFF.765 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 10;8 K alternative_donor CUFF.756 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 37;267 N jcn_only_AD CUFF.796 chr8 + chr8:107593480-107691437;chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107531368-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 64;28 N cassette CUFF.777 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 168;576 K cassette CUFF.798 chr8 + chr8:118541049-118552121 chr8:118541049-118542961;chr8:118543067-118552121 chr8:118542962-118543066 323;20 N jcn_only_AD chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 28;30 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 19;548 K alternative_last_exon CUFF.809 chr8 + chr8:144356973-144357147,chr8:144356973-144358172;chr8:144356973-144358066 chr8:144356973-144357364 chr8:144358067-144359102 chr8:144357365-144357864 174;71 N alternative_last_exon chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74893616 chr8:74891314-74891406 3;45 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 19;631 N alternative_acceptor CUFF.791 chr8 + chr8:106801153-106810951 chr8:106801153-106807983 chr8:106807984-106810951 chr8:106810951-106810952 6;21 N jcn_only_AD CUFF.768 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 347;48 N alternative_donor CUFF.764,CUFF.777 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 187;5 K intron_retention CUFF.765 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 14;9 N alternative_donor CUFF.796 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 10;0 N alternative_donor CUFF.768 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 280;68 K jcn_only_AD CUFF.772 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 61;21 N alternative_donor CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107670314-107691437;chr8:107670414-107691437 chr8:107630412-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 28;0 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 14;64 N jcn_only_AD CUFF.796 chr8 + chr8:107738538-107751685;chr8:107749829-107751685;chr8:107670414-107751685 chr8:107726214-107751685 chr8:107670414-107726213;chr8:107726214-107738537;chr8:107738538-107749828 chr8:107670413-107670414;chr8:107726213-107726214;chr8:107738537-107738538 82;5 N jcn_only_AD CUFF.772 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 30;76 N jcn_only_AD CUFF.796 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 86;24 N alternative_donor CUFF.800 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;0 N alternative_acceptor CUFF.800 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 82;4 N alternative_donor CUFF.768 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 313;35 N alternative_donor CUFF.773 chr8 + chr8:75263557-75272371 chr8:75263702-75272371 chr8:75263557-75263701 chr8:75263556-75263557 13;35 N jcn_only_AD CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107670314-107691437;chr8:107630412-107691437 chr8:107670414-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 89;2 N jcn_only_AA CUFF.787,CUFF.808 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 32;7 N alternative_donor CUFF.791 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 48;1 K cassette CUFF.809 chr8 + chr8:144349655-144356873 chr8:144349655-144351529;chr8:144351691-144356873 chr8:144351530-144351690 31;81 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 33;200 N alternative_donor chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 24;1 N jcn_only_AD CUFF.796 chr8 + chr8:107531368-107691437;chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107593480-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 73;19 N jcn_only_AD chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 55;4 K alternative_donor CUFF.808 chr8 + chr8:144373781-144375141 chr8:144373938-144375141 chr8:144373781-144373937 chr8:144373780-144373781 23;33 N alternative_donor CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107670314-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 28;0 K alternative_first_exon CUFF.779 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192598-82192909 chr8:82193021-82193548 20;60 K alternative_last_exon CUFF.773 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401109 chr8:75276220-75279111 36;87 N jcn_only_AA CUFF.809 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 23;94 N jcn_only_AD CUFF.772 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 78;27 N coord_cassette CUFF.768 chr8 - chr8:56652778-56663522 chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522 chr8:56656040-56656179;chr8:56657620-56657680 45;71 K alternative_donor CUFF.772 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 61;33 N alternative_donor CUFF.796 chr8 + chr8:107593480-107691437;chr8:107531368-107691437;chr8:107670314-107691437;chr8:107630412-107691437 chr8:107670414-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 28;0 N intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 6;135 K intron_retention CUFF.777 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 790;50 N alternative_acceptor CUFF.777 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 790;27 K jcn_only_AA CUFF.777 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 13;592 N jcn_only_AD CUFF.812 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818109-144821673 chr8:144818108-144818109 10;23 N jcn_only_AD CUFF.773 chr8 + chr8:75263557-75272371 chr8:75263702-75272371 chr8:75263557-75263701 chr8:75263556-75263557 13;29 K alternative_first_exon CUFF.807 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915658-143915705 chr8:143916135-143916284 7;32 N alternative_donor CUFF.796 chr8 + chr8:107531368-107691437;chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107593480-107691437 chr8:107531368-107593479;chr8:107593480-107630411;chr8:107630412-107670313;chr8:107670314-107670413 chr8:107531367-107531368;chr8:107593479-107593480;chr8:107630411-107630412;chr8:107670313-107670314 28;0 K cassette CUFF.808 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 53;9 K cassette CUFF.761 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 57;14 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 141;118 N cassette CUFF.796 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 5;53 N jcn_only_AA chr8 + chr8:71543526-71558279 chr8:71543526-71544669 13;6 N mutually_exclusive CUFF.768 chr8 - chr8:56663717-56675193,chr8:56675588-56676494 chr8:56663717-56668802,chr8:56668971-56676494 chr8:56675194-56675587 chr8:56668803-56668970 70;71 K alternative_first_exon CUFF.759 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22014509-22014678 chr8:22013850-22014345 33;12 K intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 58;34 N jcn_only_AA CUFF.753 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;25 N jcn_only_AD CUFF.791 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 6;173 N alternative_acceptor CUFF.761 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 42;12 N cassette CUFF.773 chr8 + chr8:75262814-75272371 chr8:75262814-75263508;chr8:75263702-75272371 chr8:75263509-75263701 22;52 N jcn_only_AD CUFF.777 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 790;91 N jcn_only_AD chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 34;24 N mutually_exclusive CUFF.773 chr8 + chr8:75262814-75272371,chr8:75272546-75274118 chr8:75262814-75263508,chr8:75263702-75274118 chr8:75272372-75272545 chr8:75263509-75263701 18;47