#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample N jcn_only_AD CUFF.933 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 6;12 K alternative_acceptor CUFF.928 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 4;10 K alternative_last_exon CUFF.933 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131799-101132017 chr13:101132515-101132617 12;81 K jcn_only_AA CUFF.919,CUFF.927 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 234;39 K alternative_first_exon CUFF.932,CUFF.933 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133500 chr13:101133234-101133330 chr13:101132515-101132617 48;6 N cassette CUFF.919 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 30;166 N alternative_acceptor CUFF.919 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 24;11 K jcn_only_AD CUFF.930,CUFF.932 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 6;4 N alternative_first_exon CUFF.919 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 4;50 K jcn_only_AD CUFF.919 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 234;36 K alternative_first_exon CUFF.925 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590151-33590451 chr13:33590476-33591397 3;15 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 2;40 N jcn_only_AA CUFF.919 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 24;12 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 8;46 K alternative_donor CUFF.932 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 7;63 K alternative_first_exon CUFF.923 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542713 chr13:25541530-25541652 12;5 K alternative_first_exon CUFF.935 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525609-103525693 chr13:103527005-103527208 11;57 N alternative_acceptor CUFF.932 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 13;55 K jcn_only_AA CUFF.923 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 15;32 K jcn_only_AA CUFF.923 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 16;9 N alternative_donor CUFF.919 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 24;0 K alternative_acceptor CUFF.930 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 4;23 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 8;0 N jcn_only_AA chr13 + chr13:21141396-21148518 chr13:21141396-21141808 9;43 K jcn_only_AA CUFF.923 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 8;35 K intron_retention CUFF.919 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 196;9 K alternative_donor CUFF.930,CUFF.932 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 6;4 N jcn_only_AD CUFF.935 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103498705-103501544 chr13:103498704-103498705 31;23 N alternative_acceptor CUFF.922 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 3;16 K jcn_only_AA CUFF.930 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 4;9 N jcn_only_AD CUFF.919 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 24;10 K jcn_only_AA CUFF.928 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 4;3 N jcn_only_AA CUFF.932 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 13;81 N jcn_only_AA CUFF.922 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 3;40 K alternative_first_exon CUFF.930,CUFF.934 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102569070 3;6 K jcn_only_AD CUFF.932 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 7;98 K cassette CUFF.924 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 9;2 K jcn_only_AA CUFF.927 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 36;62 N alternative_donor CUFF.935 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103498705-103501544 chr13:103498704-103498705 31;1 N jcn_only_AD chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 2;79 N alternative_donor chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646552-97646822 chr13:97646822-97646823 2;60 N cassette CUFF.919 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 3;17 N alternative_donor CUFF.933 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 6;14 K intron_retention CUFF.930 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 6;4 N alternative_acceptor CUFF.873 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 9;1 N coord_cassette CUFF.863 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7108732;chr12:7108792-7125577 chr12:7091837-7091943;chr12:7092593-7092700;chr12:7108733-7108791 25;61 N cassette CUFF.863 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 3;238 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 8;36 K jcn_only_AA CUFF.871,CUFF.891 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 7;14 N jcn_only_AA CUFF.873 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 59;7 K intron_retention chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 20;2 K jcn_only_AA CUFF.871 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 52;170 K cassette CUFF.897 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 46;80 N jcn_only_AA CUFF.855 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 18;43 K intron_retention CUFF.902 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 18;36 N alternative_donor CUFF.904 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 63;13 N jcn_only_AA CUFF.898 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 18;55 N jcn_only_AD CUFF.908 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 31;13 K intron_retention CUFF.897 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 11;81 K alternative_first_exon CUFF.887 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404285-52404346 14;11 N alternative_donor chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 11;11 K alternative_first_exon CUFF.891 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53845797-53846160;chr12:53837175-53837557 chr12:53846537-53847067 67;37 K cassette CUFF.874 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 8;111 N alternative_first_exon CUFF.876 chr12 + chr12:26205536-26208168;chr12:26148064-26208168;chr12:26205930-26208168;chr12:26164755-26208168 chr12:26174452-26208168 chr12:26147970-26148063;chr12:26205414-26205929;chr12:26164589-26164754 chr12:26174356-26174451 45;16 N alternative_first_exon CUFF.868 chr12 + chr12:13349807-13366412 chr12:13364523-13366412 chr12:13349573-13349806 chr12:13364403-13364522 9;62 N cassette CUFF.873 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611490-22612425 chr12:22611418-22611489 10;50 N intron_retention chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 11;29 K cassette CUFF.889 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 15;37 N jcn_only_AA CUFF.891 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 138;28 K jcn_only_AA CUFF.914 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 21;9 N jcn_only_AD CUFF.871 chr12 + chr12:21242864-21279041;chr12:21229504-21279041 chr12:21272562-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 197;9 N alternative_acceptor CUFF.876 chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26173078-26208168 chr12:26208168-26208169 34;6 N coord_cassette CUFF.901 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 7;20 N jcn_only_AD CUFF.855 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 26;36 K intron_retention CUFF.891 chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 83;19 N jcn_only_AD CUFF.873,CUFF.915 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 39;7 N coord_cassette CUFF.904 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 32;82 K alternative_last_exon CUFF.914 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633228-113633694 chr12:113637850-113638618 9;26 K intron_retention CUFF.868 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 84;102 N alternative_acceptor CUFF.898 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 46;4 N alternative_donor CUFF.891 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 136;2 N alternative_acceptor CUFF.915 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 6;35 N coord_cassette CUFF.904 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 49;25 K alternative_first_exon CUFF.860 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444637-4444817 8;56 K intron_retention CUFF.907 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 7;2 K alternative_first_exon CUFF.915 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120222764-120222869 chr12:120221993-120222181 20;2 N coord_cassette CUFF.904 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 3;11 K intron_retention CUFF.908 chr12 - chr12:77256740-77256955 chr12:77256739-77256740;chr12:77256955-77256956 11;10 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 24;3 N jcn_only_AA CUFF.898 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 68;5 K alternative_first_exon CUFF.856 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1726310-1740463 chr12:1639057-1639175;chr12:1639910-1640116 chr12:1725798-1726309 72;28 N jcn_only_AD CUFF.881,CUFF.908 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 10;23 N coord_cassette CUFF.874 chr12 - chr12:25699489-25801427 chr12:25699489-25700158;chr12:25700286-25702259;chr12:25702481-25801427 chr12:25700159-25700285;chr12:25702260-25702480 10;23 N jcn_only_AA chr12 - chr12:49334972-49350767 chr12:49350134-49350767 chr12:49334972-49350133 chr12:49334971-49334972 11;8 K alternative_acceptor CUFF.871 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 52;89 N intron_retention chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 39;127 N cassette CUFF.904 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 105;152 N jcn_only_AD CUFF.871 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 179;27 K cassette CUFF.898 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 25;62 K jcn_only_AA CUFF.915 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 14;131 K jcn_only_AD CUFF.880 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 119;32 K cassette CUFF.855 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 84;107 N alternative_donor CUFF.871 chr12 + chr12:21242864-21279041;chr12:21229504-21279041 chr12:21272562-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 170;0 N jcn_only_AD CUFF.891 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 136;4 N jcn_only_AD CUFF.873 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 68;13 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 20;16 N jcn_only_AD CUFF.914 chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 28;26 N jcn_only_AA CUFF.876,CUFF.878 chr12 + chr12:26148064-26208168;chr12:26148064-26208211 chr12:26148064-26173077 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 29;5 N cassette CUFF.891 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 143;69 N alternative_donor CUFF.908 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 31;14 N alternative_donor CUFF.881,CUFF.908 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 10;8 K cassette CUFF.863 chr12 - chr12:7090345-7090971 chr12:7090345-7090755;chr12:7090794-7090971 chr12:7090756-7090793 346;54 N alternative_acceptor CUFF.876,CUFF.878 chr12 + chr12:26148064-26208168;chr12:26148064-26208211 chr12:26148064-26173077 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 31;5 N jcn_only_AD CUFF.855 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 41;15 N alternative_first_exon CUFF.876 chr12 + chr12:26205536-26208168;chr12:26148064-26208168;chr12:26205930-26208168;chr12:26174452-26208168 chr12:26164755-26208168 chr12:26147970-26148063;chr12:26205414-26205929;chr12:26174356-26174451 chr12:26164589-26164754 39;22 N intron_retention chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 3;3 N jcn_only_AD CUFF.856 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 77;21 K intron_retention CUFF.902 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 18;146 N intron_retention CUFF.855 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 36;14 N jcn_only_AA CUFF.915 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 6;71 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 7;23 N jcn_only_AD CUFF.856 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 56;41 N jcn_only_AA chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 9;257 K intron_retention CUFF.902 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 12;14 K alternative_donor CUFF.907 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 14;8 K intron_retention CUFF.897 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 2;5 K cassette CUFF.863 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 215;4 K alternative_first_exon CUFF.909 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102874097-102874504 chr12:102872265-102872521 13;251 N jcn_only_AD CUFF.873 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 18;6 N alternative_donor CUFF.871 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 0;170 K jcn_only_AA CUFF.891 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 71;94 N cassette CUFF.881 chr12 - chr12:48392215-48398019 chr12:48392215-48393701;chr12:48393909-48398019 chr12:48393702-48393908 3;21 N jcn_only_AA CUFF.873 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 48;18 K cassette CUFF.889 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 20;21 K cassette CUFF.864 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 chr12:9723365-9723488;chr12:9725599-9725689 6;8 N alternative_donor CUFF.873 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 68;5 K intron_retention CUFF.891 chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 97;22 K intron_retention chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 57;119 N alternative_acceptor CUFF.890 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 28;1 N cassette CUFF.873 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 10;73 K cassette CUFF.907 chr12 + chr12:72083485-72090215 chr12:72083485-72084118;chr12:72084211-72090215 chr12:72084119-72084210 28;38 N coord_cassette CUFF.901 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 32;15 N alternative_acceptor CUFF.898 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 45;5 N mutually_exclusive CUFF.863 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 4;306 N intron_retention CUFF.908 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 13;22 N cassette CUFF.861 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 145;35 N mutually_exclusive CUFF.880 chr12 - chr12:48272899-48293619,chr12:48293742-48298737 chr12:48272899-48276476,chr12:48276558-48298737 chr12:48293620-48293741 chr12:48276477-48276557 48;4 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 14;30 K intron_retention CUFF.915 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 4;33 N jcn_only_AA CUFF.891 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 164;2 K cassette CUFF.891 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 97;55 K alternative_donor CUFF.887 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 34;11 K intron_retention CUFF.907 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 14;4 N cassette CUFF.904 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 128;47 K intron_retention CUFF.891 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 136;7 K intron_retention CUFF.890 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 47;6 K jcn_only_AD CUFF.907 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 14;7 K cassette CUFF.909 chr12 - chr12:102796345-102813286 chr12:102796345-102811732;chr12:102811782-102813286 chr12:102811733-102811781 268;30 K jcn_only_AD CUFF.918 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 91;6 N jcn_only_AD CUFF.904 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 63;55 N cassette CUFF.891 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 7;138 N jcn_only_AD chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 26;47 K intron_retention CUFF.915 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 78;7 N jcn_only_AA chr12 + chr12:27628665-27648612 chr12:27628665-27641392 chr12:27628515-27628664 3;31 K jcn_only_AA CUFF.908 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 31;11 N cassette CUFF.889 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 2;11 K intron_retention CUFF.866 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 36;4 N jcn_only_AD CUFF.890 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 28;2 N jcn_only_AD CUFF.898 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 70;16 N cassette CUFF.904 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 9;130 K alternative_first_exon CUFF.891 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53845797-53846160;chr12:53846537-53847067 chr12:53837175-53837557 102;2 K cassette CUFF.883 chr12 - chr12:49334972-49351092 chr12:49334972-49335350;chr12:49335361-49351092 chr12:49335351-49335360 25;28 K cassette CUFF.868 chr12 + chr12:13349807-13364402 chr12:13349807-13352111;chr12:13352468-13364402 chr12:13352112-13352467 97;124 K alternative_last_exon CUFF.871 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21229386-21229503 chr12:21228194-21228719 179;95 N alternative_acceptor CUFF.876 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 130;13 N alternative_acceptor CUFF.855 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 18;24 N alternative_donor CUFF.912 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 87;13 N alternative_acceptor chr12 - chr12:49334972-49350767 chr12:49350134-49350767 chr12:49334972-49350133 chr12:49334971-49334972 11;0 N coord_cassette CUFF.904 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 27;43 N jcn_only_AA CUFF.876 chr12 + chr12:26148064-26208168;chr12:26148064-26173077 chr12:26148064-26208211 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 14;20 N intron_retention CUFF.915 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 7;18 N jcn_only_AD chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 11;20 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 20;77 K cassette CUFF.878 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 chr12:27627719-27627846;chr12:27641393-27641480 4;31 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 19;136 N jcn_only_AD chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 31;55 N intron_retention CUFF.855 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 38;53 N jcn_only_AD CUFF.898 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 72;15 N jcn_only_AD CUFF.856 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 62;36 N jcn_only_AA chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 20;209 K intron_retention CUFF.898 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 55;26 N alternative_donor CUFF.855 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 26;14 N coord_cassette CUFF.904 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 46;43 K alternative_last_exon CUFF.856,CUFF.868 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1755200 chr12:1748850-1749142 32;68 K alternative_donor CUFF.918 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 91;3 N jcn_only_AA CUFF.855 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 36;5 N alternative_donor CUFF.902 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 12;67 N cassette CUFF.904 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 14;89 K coord_cassette CUFF.855 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 21;68 K intron_retention CUFF.865 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 55;15 N alternative_first_exon CUFF.876 chr12 + chr12:26205536-26208168;chr12:26148064-26208168;chr12:26164755-26208168;chr12:26174452-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26164589-26164754;chr12:26174356-26174451 chr12:26205414-26205929 54;7 K alternative_donor CUFF.880 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 119;31 K intron_retention CUFF.863 chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 346;3 N intron_retention chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 9;75 N jcn_only_AD chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 21;36 K alternative_acceptor CUFF.915 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 14;78 N alternative_donor CUFF.871 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 6;0 K cassette CUFF.897 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 28;10 N alternative_acceptor chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 9;181 K alternative_acceptor CUFF.873 chr12 - chr12:22611490-22612425 chr12:22611520-22612425 chr12:22611490-22611519 chr12:22611489-22611490 10;40 K cassette CUFF.897 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 21;6 K intron_retention CUFF.898 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 93;12 N alternative_first_exon CUFF.876 chr12 + chr12:26205536-26208168;chr12:26205930-26208168;chr12:26164755-26208168;chr12:26174452-26208168 chr12:26148064-26208168 chr12:26205414-26205929;chr12:26164589-26164754;chr12:26174356-26174451 chr12:26147970-26148063 55;6 N alternative_acceptor CUFF.873 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 3;7 N cassette CUFF.861 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 87;123 K cassette CUFF.867 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 47;5 N alternative_first_exon CUFF.901 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853828-57853984 chr12:57854247-57854338 5;20 N cassette CUFF.874 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 10;117 N jcn_only_AA CUFF.912 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 36;5 K intron_retention CUFF.897 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 18;17 N jcn_only_AD CUFF.861 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 180;41 N alternative_first_exon CUFF.868 chr12 + chr12:13349807-13366614 chr12:13366510-13366614 chr12:13349573-13349806 chr12:13366310-13366509 15;181 N jcn_only_AA CUFF.871 chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21245447-21279041 chr12:21279041-21279042 27;28 N coord_cassette CUFF.902 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 8;13 K intron_retention CUFF.887 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 48;10 N mutually_exclusive CUFF.873 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 50;4 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 20;10 N coord_cassette CUFF.904 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 6;27 N jcn_only_AA CUFF.876 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 130;5 N cassette CUFF.874 chr12 - chr12:25702481-25706002 chr12:25702481-25705804;chr12:25705924-25706002 chr12:25705805-25705923 3;65 K alternative_last_exon CUFF.860,CUFF.876 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26225805 44;71 N coord_cassette CUFF.904 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 6;44 K cassette CUFF.861 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665669-4668022 chr12:4665519-4665668 33;104 N alternative_first_exon CUFF.876 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205414-26205929 33;178 N cassette CUFF.897 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 2;23 N alternative_donor CUFF.890 chr12 - chr12:53471046-53473094 chr12:53471046-53471844 chr12:53471845-53473094 chr12:53473094-53473095 28;0 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 30;136 N cassette CUFF.904 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 11;90 N jcn_only_AD CUFF.871 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 35;170 N coord_cassette CUFF.904 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 4;84 N alternative_acceptor CUFF.898 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 15;35 K jcn_only_AA CUFF.873 chr12 - chr12:22611490-22612425 chr12:22611520-22612425 chr12:22611490-22611519 chr12:22611489-22611490 10;76 K alternative_acceptor CUFF.897 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 36;19 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 10;36 N jcn_only_AD CUFF.902 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 12;125 K alternative_acceptor CUFF.914 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 21;8 K coord_cassette CUFF.871 chr12 + chr12:21229504-21294447 chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279052-21279191;chr12:21284057-21284170 8;153 K coord_cassette CUFF.871 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 8;177 N alternative_donor CUFF.873 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 18;1 K alternative_acceptor CUFF.918 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 4;18 N alternative_acceptor CUFF.912 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 36;3 K alternative_last_exon CUFF.874 chr12 - chr12:25655973-25656671,chr12:25652931-25656671,chr12:25650729-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25562231-25562364 chr12:25629030-25629394 31;163 N cassette CUFF.902 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 8;45 K jcn_only_AD CUFF.914,CUFF.915 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 6;15 N intron_retention chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 13;39 N jcn_only_AA CUFF.898 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 66;7 N cassette CUFF.883 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 19;39 N jcn_only_AA CUFF.876 chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26173078-26208168 chr12:26208168-26208169 34;107 K coord_cassette CUFF.883 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 25;32 N alternative_acceptor chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 39;40 N jcn_only_AA CUFF.874 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 6;149 N jcn_only_AD CUFF.871 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 6;4 N jcn_only_AD CUFF.881 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 5;2 N jcn_only_AA CUFF.891 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 210;5 K intron_retention CUFF.918 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 4;32 N intron_retention chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 47;11 N intron_retention chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 6;34 N jcn_only_AD CUFF.861 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 12;33 K alternative_first_exon CUFF.891 chr12 + chr12:53846760-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53846537-53847067;chr12:53837175-53837557 chr12:53845797-53846160 53;51 N jcn_only_AD CUFF.876 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 29;11 N intron_retention CUFF.861 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 2;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 25;11 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 5;39 K intron_retention CUFF.887 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 15;17 N alternative_first_exon chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164589-26164754 3;70 N alternative_acceptor CUFF.891 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 137;18 N cassette CUFF.912 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 72;28 K intron_retention CUFF.897 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 36;11 N mutually_exclusive CUFF.891 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 115;4 N alternative_donor chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 26;25 N alternative_donor CUFF.871 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 chr12:21229504-21242863;chr12:21242864-21272561 chr12:21229503-21229504;chr12:21242863-21242864 170;0 N cassette CUFF.902 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 57;16 K coord_cassette CUFF.891 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 19;65 N alternative_donor CUFF.861 chr12 + chr12:4653071-4654947 chr12:4654479-4654947 chr12:4653071-4654478 chr12:4653070-4653071 12;3 N cassette CUFF.904 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 165;55 N cassette CUFF.880 chr12 - chr12:48276558-48298737;chr12:48272899-48298737 chr12:48276558-48293619,chr12:48272899-48293619;chr12:48293742-48298737 chr12:48293620-48293741 45;74 N cassette CUFF.904 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 105;89 N intron_retention chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 23;2 N jcn_only_AA CUFF.898 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 68;6 N coord_cassette CUFF.863 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 25;218 K alternative_first_exon CUFF.910 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834584-111834677 7;17 N coord_cassette CUFF.861 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 15;20 K jcn_only_AA CUFF.918 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 4;2 N alternative_acceptor CUFF.856 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 47;26 K intron_retention CUFF.885 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 4;17 N alternative_acceptor CUFF.855 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 36;1 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 3;172 K alternative_first_exon CUFF.860 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430371-4430469 chr12:4433604-4433929 10;27 N alternative_acceptor CUFF.898 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 44;6 N alternative_donor CUFF.881 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 26;2 K intron_retention CUFF.889 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 4;27 K intron_retention chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 39;11 K alternative_last_exon CUFF.871 chr12 + chr12:21229504-21272537;chr12:21229504-21279051,chr12:21229504-21279041 chr12:21229504-21242841 chr12:21279052-21279191 chr12:21242842-21243040 196;43 K cassette CUFF.902 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 182;67 N alternative_acceptor CUFF.873 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 8;2 K intron_retention CUFF.908 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 31;22 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 7;146 N alternative_acceptor CUFF.876 chr12 + chr12:26148064-26208168;chr12:26148064-26173077 chr12:26148064-26208211 chr12:26173078-26208168;chr12:26208169-26208211 chr12:26208168-26208169;chr12:26208211-26208212 16;20 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 9;32 K alternative_donor CUFF.902 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 18;246 K jcn_only_AA CUFF.855 chr12 - chr12:347177-351779 chr12:347510-351779 68;92 N alternative_donor CUFF.898 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 46;16 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 4;17 N cassette CUFF.883 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 25;46 N jcn_only_AD CUFF.855 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 51;6 N alternative_acceptor CUFF.891 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 210;2 K alternative_first_exon CUFF.856 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1640117-1740463;chr12:1726310-1740463 chr12:1639176-1740463 chr12:1639910-1640116;chr12:1725798-1726309 chr12:1639057-1639175 90;10 N intron_retention chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 57;35 K jcn_only_AD CUFF.887 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 34;15 N alternative_donor CUFF.914 chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 28;6 K cassette CUFF.874 chr12 - chr12:25699489-25702259 chr12:25699489-25700158;chr12:25700286-25702259 chr12:25700159-25700285 111;68 N jcn_only_AD CUFF.881 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 26;2 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 16;26 K intron_retention CUFF.908 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 32;10 N cassette CUFF.883 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 25;28 N alternative_donor CUFF.876 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26112082-26126820 chr12:26112081-26112082 29;0 N alternative_donor CUFF.873,CUFF.915 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 39;1 N jcn_only_AD CUFF.880,CUFF.912 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 7;14 K alternative_first_exon CUFF.856 chr12 + chr12:1684008-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463;chr12:1726310-1740463 chr12:1640117-1740463 chr12:1639057-1639175;chr12:1725798-1726309 chr12:1639910-1640116 57;43 K intron_retention CUFF.902 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 327;40 K alternative_donor CUFF.884 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 6;111 N jcn_only_AA CUFF.890 chr12 - chr12:53471046-53473094 chr12:53471956-53473094 chr12:53471046-53471955 chr12:53471045-53471046 28;4 K cassette CUFF.873 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 81;60 N jcn_only_AA CUFF.873 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 24;41 K alternative_last_exon CUFF.866 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743310 chr12:11716635-11717345 10;4 N jcn_only_AA CUFF.856 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 47;39 K intron_retention CUFF.895 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 5;7 N coord_cassette CUFF.904 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 31;42 N cassette CUFF.873 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 2;43 N alternative_donor CUFF.861 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 180;4 N alternative_donor CUFF.898 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 55;7 N cassette CUFF.915 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 5;45 N jcn_only_AD CUFF.915 chr12 - chr12:120158391-120287977 chr12:120158391-120159113 4;16 N jcn_only_AD CUFF.912 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 87;3 N alternative_acceptor CUFF.891 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 154;1 N cassette CUFF.891 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 23;185 K alternative_acceptor CUFF.908 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 31;35 K intron_retention CUFF.890 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 3;32 K jcn_only_AA CUFF.897 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 36;18 K jcn_only_AD CUFF.884 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 6;89 N cassette CUFF.890 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 5;45 K intron_retention CUFF.887 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 34;17 K alternative_first_exon CUFF.892 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393835-54394510 4;14 N alternative_acceptor chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 20;91 K intron_retention CUFF.855 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 21;42 K jcn_only_AD CUFF.902 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 18;327 N alternative_donor chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 23;39 N coord_cassette CUFF.904 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 32;10 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 54;10 N jcn_only_AD CUFF.909 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 12;5 N alternative_donor CUFF.880,CUFF.912 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 7;2 N alternative_acceptor CUFF.871 chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21245447-21279041 chr12:21279041-21279042 27;0 K intron_retention CUFF.897 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 13;13 N jcn_only_AA chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 39;57 K alternative_acceptor CUFF.891 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 71;50 N cassette CUFF.904 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 153;206 N coord_cassette CUFF.904 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 3;42 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 25;9 N alternative_donor CUFF.881 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 5;0 K intron_retention CUFF.902 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 60;4 N jcn_only_AA CUFF.855 chr12 - chr12:332401-344255 chr12:336835-344255 6;40 N alternative_donor CUFF.820 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 11;75 N jcn_only_AD chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 41;71 K alternative_first_exon CUFF.823 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776048-67776162;chr11:67777704-67777862 chr11:67782457-67782545 187;8 K intron_retention CUFF.780 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 29;18 K cassette CUFF.834 chr11 - chr11:102937297-102953984 chr11:102937297-102953476;chr11:102953569-102953984 chr11:102953477-102953568 76;74 N intron_retention chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 4;29 N jcn_only_AA CUFF.784 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 132;38 K mutually_exclusive CUFF.789 chr11 + chr11:3239790-3241456,chr11:3241590-3242799 chr11:3239790-3240929,chr11:3241019-3242799 chr11:3241457-3241589 chr11:3240930-3241018 6;8 N alternative_donor CUFF.815 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 19;54 N alternative_first_exon CUFF.781 chr11 + chr11:827712-828229;chr11:826267-828229 chr11:827460-828229 chr11:827591-827711;chr11:826068-826266 chr11:827216-827459 51;47 K alternative_first_exon CUFF.817 chr11 + chr11:63657768-63662630,chr11:63647701-63662630;chr11:63607033-63662630;chr11:63617502-63662630 chr11:63636382-63662630 chr11:63606400-63607032;chr11:63617410-63617501 chr11:63636122-63636381 53;11 K alternative_first_exon CUFF.847 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119243417-119244231;chr11:119252183-119252421 chr11:119234559-119234995 77;30 N cassette CUFF.841 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 6;12 K intron_retention CUFF.818 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 88;31 N alternative_first_exon CUFF.781 chr11 + chr11:826267-828229;chr11:827460-828229 chr11:827712-828229 chr11:826068-826266;chr11:827216-827459 chr11:827591-827711 94;4 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 60;12 K intron_retention CUFF.835 chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 2;8 N alternative_donor CUFF.799,CUFF.831 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 90;5 K alternative_last_exon CUFF.799 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818591-10819428 chr11:10823596-10823756 58;36 N cassette CUFF.806 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 26;127 N mutually_exclusive CUFF.828 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 3;11 N alternative_acceptor CUFF.796 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 117;5 N alternative_donor CUFF.838 chr11 + chr11:117070546-117073717;chr11:117070149-117073717;chr11:117071059-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 157;9 N intron_retention chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 7;6 K jcn_only_AD CUFF.810 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 81;47 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 7;20 N jcn_only_AD CUFF.843 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 136;15 N mutually_exclusive CUFF.779 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 87;21 K cassette CUFF.779 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 54;149 N alternative_acceptor CUFF.850 chr11 - chr11:119291089-119291578;chr11:119291097-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 54;4 N alternative_donor CUFF.843 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 53;15 N intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 9;43 K intron_retention CUFF.846 chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 8;50 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 13;16 K alternative_last_exon CUFF.825 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 7;10 N jcn_only_AA CUFF.853 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 38;2 N jcn_only_AA CUFF.827 chr11 - chr11:75520420-75522468;chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 34;24 K intron_retention CUFF.815 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 52;37 K cassette CUFF.835 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 12;9 K coord_cassette CUFF.788 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 76;35 N alternative_acceptor CUFF.846 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 115;38 N jcn_only_AA CUFF.841 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 73;18 K intron_retention CUFF.838 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 12;71 N alternative_donor CUFF.838 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 154;12 K intron_retention CUFF.822 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 77;13 N cassette CUFF.846 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 22;166 N alternative_acceptor CUFF.853 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 11;34 K jcn_only_AD CUFF.842 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 35;17 K mutually_exclusive CUFF.836 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 39;18 N intron_retention CUFF.846 chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 4;4 N alternative_donor CUFF.806 chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 16;21 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 6;9 K intron_retention CUFF.843 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 24;8 N alternative_donor CUFF.781 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 12;69 N alternative_acceptor chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 7;22 N jcn_only_AD CUFF.783,CUFF.834 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 86;27 K cassette CUFF.796 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 12;47 K alternative_acceptor CUFF.820 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 28;290 N alternative_donor CUFF.779 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 67;6 K alternative_last_exon CUFF.811 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61516015-61517214 chr11:61521499-61521917 34;26 N intron_retention CUFF.799 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 11;18 K intron_retention CUFF.815 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 38;8 N alternative_donor CUFF.841 chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 144;3 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 138;7 N alternative_acceptor CUFF.823 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 104;1 N cassette CUFF.823 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 4;248 K jcn_only_AA CUFF.781,CUFF.817 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 39;29 N jcn_only_AA chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 21;68 K intron_retention CUFF.799 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 43;6 N jcn_only_AA CUFF.827 chr11 - chr11:75514771-75522468;chr11:75520420-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 32;26 K intron_retention CUFF.846 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 79;19 N jcn_only_AD CUFF.838 chr11 + chr11:117072658-117073717;chr11:117070149-117073717;chr11:117071059-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 32;160 N jcn_only_AA CUFF.853 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 27;13 K intron_retention CUFF.822 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 12;20 N alternative_donor CUFF.820 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 348;7 K intron_retention CUFF.846 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 111;43 N alternative_acceptor CUFF.846 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 148;5 K jcn_only_AA CUFF.798 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 32;231 N cassette CUFF.833 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 27;19 N cassette CUFF.796 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 7;47 K jcn_only_AA CUFF.781 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 17;30 K intron_retention CUFF.831 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 86;2 K alternative_first_exon CUFF.834,CUFF.853 chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124768294-124768405 chr11:124767622-124768201 18;19 K intron_retention chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 12;74 N jcn_only_AA CUFF.850 chr11 - chr11:119291046-119291578;chr11:119291097-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 86;5 N jcn_only_AD CUFF.838 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 180;12 N jcn_only_AA CUFF.798 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 17;3 N jcn_only_AA CUFF.823 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 231;7 N jcn_only_AD CUFF.834 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 97;15 K alternative_first_exon CUFF.790 chr11 - chr11:5701469-5705215;chr11:5701469-5958630 chr11:5701469-5706245,chr11:5701469-5706097 chr11:5958631-5958735 chr11:5706246-5706339 21;39 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 5;44 N jcn_only_AD CUFF.850 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 6;4 N alternative_donor CUFF.838 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 164;2 K intron_retention CUFF.817 chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 4;23 N jcn_only_AD CUFF.846 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 21;78 K intron_retention CUFF.838 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 384;11 K intron_retention CUFF.846 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 78;21 K jcn_only_AD CUFF.787 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 6;70 N alternative_acceptor CUFF.846 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 43;110 K intron_retention CUFF.793 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 5;20 N jcn_only_AD CUFF.799,CUFF.831 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 93;12 N alternative_donor CUFF.806 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 1;6 N jcn_only_AA chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 7;34 N cassette CUFF.799 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 7;9 K jcn_only_AA CUFF.820 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 28;306 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 82;7 N jcn_only_AA CUFF.781 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 2;4 N cassette CUFF.834 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 9;53 N cassette CUFF.784 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 7;129 N alternative_donor CUFF.841 chr11 + chr11:118402242-118402489;chr11:118402317-118402489 chr11:118401950-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 10;137 K cassette CUFF.818 chr11 + chr11:63998413-63999342 chr11:63998413-63998503;chr11:63998620-63999342 chr11:63998504-63998619 78;59 K intron_retention CUFF.820 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 330;11 K jcn_only_AD CUFF.784 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 72;24 K cassette CUFF.781 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 12;46 N jcn_only_AD CUFF.820 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 348;15 N intron_retention chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 4;41 N cassette CUFF.841 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 6;57 N jcn_only_AD chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 25;16 N alternative_donor CUFF.790 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 38;25 N jcn_only_AA CUFF.780 chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 24;14 K intron_retention chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 16;21 K intron_retention CUFF.820 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 287;41 N jcn_only_AA CUFF.853 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 14;25 N jcn_only_AD CUFF.838 chr11 + chr11:117070546-117073717;chr11:117070149-117073717;chr11:117071059-117073717 chr11:117072658-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 177;15 N jcn_only_AA CUFF.799 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 5;16 N jcn_only_AD CUFF.806 chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 97;11 N jcn_only_AA CUFF.850 chr11 - chr11:119291089-119291578;chr11:119291046-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 9;82 K intron_retention CUFF.799 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 5;8 N alternative_acceptor CUFF.820,CUFF.824 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 31;62 N alternative_acceptor CUFF.841 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 2;18 K cassette CUFF.788 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 19;92 K intron_retention chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 355;13 N jcn_only_AD chr11 - chr11:10828929-10829080;chr11:10828929-10829291 chr11:10828929-10829720 28;6 N intron_retention chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 11;5 K intron_retention CUFF.787 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 70;9 K alternative_donor CUFF.838 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 110;128 N alternative_donor CUFF.834 chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 95;14 N alternative_acceptor CUFF.841 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 20;0 N jcn_only_AD CUFF.820 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 287;14 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 5;28 N jcn_only_AA CUFF.783 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 47;10 K jcn_only_AD CUFF.838 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 110;223 N cassette CUFF.799 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 23;349 N cassette CUFF.841 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 16;117 K jcn_only_AA CUFF.824 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 5;5 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 60;49 N alternative_acceptor CUFF.798 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 17;1 K intron_retention CUFF.794 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 360;20 N alternative_donor CUFF.846 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 21;56 K intron_retention CUFF.809 chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 3;5 K intron_retention CUFF.837 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 25;7 K jcn_only_AA CUFF.854 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 20;22 K alternative_first_exon CUFF.817 chr11 + chr11:63657768-63662630,chr11:63647701-63662630;chr11:63617502-63662630;chr11:63636382-63662630 chr11:63607033-63662630 chr11:63617410-63617501;chr11:63636122-63636381 chr11:63606400-63607032 26;38 K jcn_only_AD CUFF.790 chr11 - chr11:5701469-5706245 chr11:5701469-5706097 chr11:5706098-5706245 chr11:5706245-5706246 15;44 K alternative_donor CUFF.808 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 7;13 N jcn_only_AD chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 4;74 K intron_retention CUFF.846 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 69;32 K intron_retention CUFF.790 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 44;6 N jcn_only_AD CUFF.806 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 13;180 N jcn_only_AD CUFF.834 chr11 - chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829080 29;5 K alternative_acceptor CUFF.835 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 2;14 N alternative_first_exon chr11 - chr11:10823983-10827453 chr11:10823983-10824576 chr11:10827454-10827849 chr11:10824577-10824675 16;15 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 13;70 N intron_retention chr11 - chr11:8498831-8502080 chr11:8498830-8498831;chr11:8502080-8502081 14;2 N intron_retention chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 7;4 K intron_retention CUFF.784 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 132;13 K jcn_only_AA CUFF.787 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 54;38 N alternative_acceptor CUFF.781 chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 2;8 N jcn_only_AD CUFF.831 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 97;8 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 13;132 K intron_retention CUFF.781 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 26;49 N jcn_only_AD CUFF.841 chr11 + chr11:118402242-118402489;chr11:118401950-118402489 chr11:118402317-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 160;11 N alternative_acceptor CUFF.823 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 231;9 N jcn_only_AD CUFF.785 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 20;5 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 5;152 N jcn_only_AD CUFF.826 chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 9;120 N alternative_donor CUFF.843 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 61;7 K intron_retention CUFF.838 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 63;118 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 8;10 N alternative_acceptor CUFF.806,CUFF.818 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 169;6 K alternative_first_exon CUFF.785 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466171-2466714 chr11:2483037-2483207 9;17 N alternative_donor CUFF.806 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 7;0 K cassette CUFF.820 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 334;119 N intron_retention chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 14;66 N jcn_only_AA CUFF.805 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 12;42 N jcn_only_AD CUFF.810 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 24;30 N jcn_only_AA CUFF.834 chr11 - chr11:102937297-102953476 chr11:102950727-102953476 chr11:102937297-102950726 chr11:102937296-102937297 87;26 K intron_retention CUFF.831 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 27;8 K intron_retention CUFF.850 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 75;2 K intron_retention CUFF.847 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 43;7 N coord_cassette CUFF.834 chr11 - chr11:102937297-102962515 chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102953477-102953568;chr11:102953985-102954055 9;48 K alternative_last_exon CUFF.781,CUFF.836 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107948903-107948967 chr11:107944527-107944793 2;20 N jcn_only_AA CUFF.784 chr11 - chr11:2190926-2192914 chr11:2191102-2192914 chr11:2190926-2191101 chr11:2190925-2190926 24;7 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 6;60 N alternative_acceptor CUFF.853 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 7;42 N alternative_acceptor chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 21;34 K alternative_first_exon CUFF.824 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818143-67818399 chr11:67819549-67819908 7;7 K jcn_only_AA CUFF.780 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 40;19 N jcn_only_AA CUFF.846 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 184;14 K alternative_first_exon CUFF.783 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785222 chr11:1783363-1783697 8;15 K intron_retention CUFF.781 chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 44;94 N jcn_only_AA CUFF.806,CUFF.818 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 169;12 N alternative_donor CUFF.841 chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 140;7 N jcn_only_AD CUFF.843 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 134;17 N jcn_only_AD CUFF.847 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 89;12 K jcn_only_AA CUFF.781,CUFF.810 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 43;42 K intron_retention CUFF.810 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 55;68 K intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 102;2 K cassette CUFF.817 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 53;16 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 37;4 K alternative_acceptor CUFF.781,CUFF.810 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 43;25 N jcn_only_AA CUFF.818,CUFF.820 chr11 + chr11:63999437-63999901;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999865 160;58 N jcn_only_AD CUFF.843 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 86;65 N alternative_donor CUFF.798 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 17;0 N jcn_only_AA chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 35;6 K intron_retention CUFF.815 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 42;13 N jcn_only_AD CUFF.841 chr11 + chr11:118402242-118402489;chr11:118402317-118402489 chr11:118401950-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 34;137 K intron_retention CUFF.784 chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 72;12 K intron_retention CUFF.808 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 6;17 N jcn_only_AD CUFF.806 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 3;46 N alternative_acceptor CUFF.853 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 43;2 K alternative_acceptor CUFF.822 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 77;15 N alternative_donor chr11 - chr11:102960048-102962412;chr11:102960048-102962244 chr11:102960048-102962515 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 38;71 N jcn_only_AA chr11 + chr11:36317989-36422546 chr11:36317989-36318920 10;29 K alternative_first_exon CUFF.846 chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056033-119056219 chr11:119056334-119056337 42;6 K intron_retention CUFF.852 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 13;7 N cassette CUFF.843 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 22;37 N alternative_first_exon CUFF.846 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056033-119056219 chr11:119056334-119056337 8;4 N alternative_acceptor CUFF.850 chr11 - chr11:119291046-119291578;chr11:119291097-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 54;4 K alternative_acceptor CUFF.825,CUFF.837 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 25;25 N alternative_acceptor CUFF.850 chr11 - chr11:119291089-119291578;chr11:119291046-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 8;50 N jcn_only_AA CUFF.818 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-64001365 chr11:63999437-63999981 210;8 N jcn_only_AD CUFF.843 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 139;12 K intron_retention CUFF.788 chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 103;16 K intron_retention CUFF.781 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 30;6 K cassette CUFF.843 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 13;54 K alternative_acceptor CUFF.824 chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 5;2 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 4;30 N jcn_only_AA CUFF.790 chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 44;10 N alternative_first_exon CUFF.818 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999292-63999436 chr11:64000176-64000337 5;110 N alternative_donor CUFF.843 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 65;3 N jcn_only_AD CUFF.838 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 187;5 K alternative_donor CUFF.784 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 72;16 K alternative_donor CUFF.846 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 111;21 K jcn_only_AA CUFF.790 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 38;44 N mutually_exclusive CUFF.799 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 9;16 N intron_retention chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 15;75 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 28;149 N alternative_donor CUFF.843 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 60;8 K cassette CUFF.789 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 8;6 K intron_retention CUFF.781 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 12;37 K alternative_acceptor CUFF.854 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 20;20 N alternative_acceptor CUFF.780 chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 24;5 K alternative_donor CUFF.787 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 6;94 N mutually_exclusive CUFF.790 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 4;58 N jcn_only_AD CUFF.779 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 274;27 N jcn_only_AA CUFF.841 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 87;4 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615928 chr11:8476291-8476379 10;44 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 22;69 K alternative_first_exon CUFF.815,CUFF.842 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369403 chr11:62368495-62368825 21;27 N alternative_first_exon CUFF.781 chr11 + chr11:827319-828259;chr11:827712-828259;chr11:826267-828259 chr11:827460-828259 chr11:827591-827711;chr11:826068-826266 chr11:827216-827459 56;10 N mutually_exclusive CUFF.841 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 5;5 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 12;47 N coord_cassette CUFF.793 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623446-6624633 chr11:6622156-6622832;chr11:6623082-6623445 5;35 K coord_cassette CUFF.817 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 13;9 N alternative_acceptor CUFF.783 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 47;7 N alternative_first_exon CUFF.832 chr11 + chr11:94707233-94730187 chr11:94708913-94730187 chr11:94706845-94707232 chr11:94708818-94708912 1;1 N mutually_exclusive CUFF.806 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 8;23 K intron_retention CUFF.818 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 129;12 K intron_retention CUFF.794 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 487;20 N cassette CUFF.828 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 12;60 K intron_retention CUFF.779 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 137;24 K intron_retention CUFF.853 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 37;3 K intron_retention CUFF.850 chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 5;10 K jcn_only_AA CUFF.841,CUFF.846 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 25;137 K cassette CUFF.789 chr11 + chr11:3239790-3242799 chr11:3239790-3240929;chr11:3241019-3242799 chr11:3240930-3241018 8;8 N intron_retention chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 6;39 K intron_retention CUFF.790 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 38;30 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 7;44 N jcn_only_AA CUFF.827 chr11 - chr11:75514771-75522468;chr11:75514563-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 49;9 K intron_retention chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 74;14 K intron_retention CUFF.790 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 15;30 K alternative_acceptor CUFF.798 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 32;154 K intron_retention chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 14;14 N cassette CUFF.850 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 14;90 N intron_retention CUFF.790 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 6;45 N coord_cassette CUFF.779 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 24;173 N alternative_donor CUFF.794 chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 2;67 K intron_retention chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 74;40 K jcn_only_AD CUFF.790,CUFF.799 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 86;48 K intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 58;5 N alternative_acceptor CUFF.790 chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 44;0 N cassette CUFF.779 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 51;166 N jcn_only_AD CUFF.820 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 11;146 K intron_retention CUFF.784 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 201;41 K intron_retention CUFF.809 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 9;8 N cassette CUFF.796 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 23;38 K intron_retention CUFF.853 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 43;38 K cassette CUFF.843 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 58;71 K intron_retention CUFF.781 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 40;34 N jcn_only_AD CUFF.806 chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 95;12 N intron_retention CUFF.820 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 18;223 N alternative_acceptor CUFF.827 chr11 - chr11:75514771-75522468;chr11:75520420-75522468 chr11:75514563-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 21;26 K intron_retention CUFF.799 chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 80;118 N cassette CUFF.799 chr11 - chr11:10828433-10829823;chr11:10828433-10830251 chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251 chr11:10828802-10828928 72;189 N alternative_acceptor CUFF.799 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 5;29 N cassette CUFF.806 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 10;22 N alternative_donor chr11 - chr11:10821304-10821790 chr11:10821304-10821636 chr11:10821637-10821790 chr11:10821790-10821791 25;25 N intron_retention chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 89;76 N alternative_acceptor CUFF.827 chr11 - chr11:75520420-75522468;chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 26;21 N cassette CUFF.788 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 28;51 K jcn_only_AA CUFF.822 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 77;19 K jcn_only_AA CUFF.811 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 5;26 K alternative_first_exon CUFF.780,CUFF.799 chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:560683-560864 chr11:559969-560225 26;14 N cassette CUFF.790 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 3;57 K jcn_only_AA CUFF.850 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 78;75 K jcn_only_AA CUFF.810 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 98;76 K alternative_acceptor CUFF.811 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 5;15 K alternative_first_exon CUFF.847 chr11 - chr11:119244232-119249716 chr11:119244232-119246933 chr11:119249717-119249914 chr11:119246934-119247123 38;30 N jcn_only_AD CUFF.826 chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 125;4 N alternative_donor CUFF.806 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 6;1 N alternative_donor CUFF.843 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 39;29 N mutually_exclusive CUFF.843 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 6;16 K alternative_first_exon CUFF.835,CUFF.847 chr11 - chr11:119230945-119243416;chr11:119230945-119234558 chr11:119230945-119252182 chr11:119243417-119244231;chr11:119234559-119234995 chr11:119252183-119252421 101;6 N jcn_only_AA CUFF.796 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 116;5 K intron_retention CUFF.799 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 63;12 K cassette CUFF.798 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949230-8950923 chr11:8949050-8949229 21;39 K intron_retention CUFF.837 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 43;7 N alternative_donor CUFF.831 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 90;5 K cassette CUFF.785 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 13;11 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 21;5 K intron_retention CUFF.794 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 36;103 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 5;92 N alternative_donor chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 4;29 N intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 8;93 N alternative_donor CUFF.788 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 16;59 N jcn_only_AA CUFF.796 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 107;14 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 13;208 K cassette CUFF.796 chr11 - chr11:8457687-8474368 chr11:8457687-8462224;chr11:8462301-8474368 chr11:8462225-8462300 4;54 K jcn_only_AD CUFF.846 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 111;8 N jcn_only_AD CUFF.798 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 17;2 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 15;32 K intron_retention CUFF.822 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 132;16 K intron_retention CUFF.827 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 36;28 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 11;9 K intron_retention CUFF.843 chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 89;10 N intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 10;54 K alternative_acceptor CUFF.790 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 38;80 N jcn_only_AD CUFF.779 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 295;6 N cassette CUFF.779 chr11 - chr11:408207-414822;chr11:408894-414822 chr11:408894-409867,chr11:408207-409867;chr11:410028-414822 chr11:409868-410027 30;285 N intron_retention CUFF.834 chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 15;14 K intron_retention CUFF.853 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 41;2 K alternative_acceptor CUFF.781 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 17;19 N alternative_donor CUFF.810 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 24;0 K alternative_acceptor CUFF.841,CUFF.846 chr11 + chr11:118401950-118402492 chr11:118401950-118402489 chr11:118402490-118402492 chr11:118402492-118402493 25;70 K intron_retention CUFF.787 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 6;37 K intron_retention CUFF.779 chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 109;9 N jcn_only_AD CUFF.843 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 137;14 K alternative_last_exon CUFF.806,CUFF.837 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36422547-36422835 chr11:36417664-36417763 90;66 K intron_retention CUFF.799 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 52;19 N jcn_only_AA CUFF.823 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 104;3 K cassette CUFF.834 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 9;92 K alternative_first_exon CUFF.834 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102963032 chr11:102959956-102960047 86;78 K intron_retention CUFF.815 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 42;4 K intron_retention CUFF.788 chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 34;89 N cassette CUFF.806 chr11 + chr11:36424929-36453402 chr11:36424929-36440804;chr11:36440854-36453402 chr11:36440805-36440853 6;36 N jcn_only_AD chr11 - chr11:10828929-10829080;chr11:10828929-10829720 chr11:10828929-10829291 11;23 K intron_retention CUFF.820 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 31;182 K jcn_only_AA CUFF.779 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 49;208 K cassette CUFF.806 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 27;12 K alternative_acceptor CUFF.850 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 78;51 N alternative_acceptor CUFF.827 chr11 - chr11:75514771-75522468;chr11:75514563-75522468 chr11:75520420-75522468 chr11:75514563-75514770;chr11:75514771-75520419 chr11:75514562-75514563;chr11:75514770-75514771 47;0 N intron_retention chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 4;45 N cassette CUFF.784 chr11 - chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192926 chr11:2191920-2192000 4;13 N jcn_only_AD CUFF.843 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 123;28 K intron_retention CUFF.799 chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 96;134 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 45;182 K intron_retention CUFF.798 chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 29;61 K alternative_acceptor CUFF.780 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 40;11 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 10;85 N jcn_only_AD CUFF.790 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 38;6 N alternative_donor CUFF.838 chr11 + chr11:117072658-117073717;chr11:117070149-117073717;chr11:117071059-117073717 chr11:117070546-117073717 chr11:117070149-117070545;chr11:117070546-117071058;chr11:117071059-117072657 chr11:117070148-117070149;chr11:117070545-117070546;chr11:117071058-117071059 23;143 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 13;4 N jcn_only_AD CUFF.826 chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 123;5 N alternative_acceptor CUFF.846 chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 6;3 K mutually_exclusive CUFF.817 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 27;17 N jcn_only_AA CUFF.796 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 19;102 K alternative_acceptor CUFF.827 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 36;26 K jcn_only_AA CUFF.810 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 80;5 K cassette CUFF.842 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 25;12 N cassette CUFF.779 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 136;213 N alternative_acceptor chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 3;9 K intron_retention CUFF.820 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 540;7 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 145;12 N alternative_donor CUFF.843 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 62;6 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 4;19 N alternative_acceptor CUFF.796 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 11;111 N cassette CUFF.823 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 15;188 K cassette CUFF.790 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 78;45 N alternative_donor CUFF.850 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 6;29 K intron_retention CUFF.827 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 6;17 N jcn_only_AA CUFF.846 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 124;74 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118402960 31;10 N intron_retention chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 110;13 K cassette CUFF.817 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 44;27 N alternative_acceptor CUFF.853 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 36;9 K intron_retention CUFF.815 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 39;6 N jcn_only_AA chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 3;15 N intron_retention CUFF.799 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 23;15 N intron_retention chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 38;17 N alternative_donor CUFF.785 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 20;2 K alternative_acceptor CUFF.810 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 98;72 N alternative_acceptor CUFF.796 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 116;6 N alternative_first_exon CUFF.794 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615928 chr11:8494710-8494823 3;42 N jcn_only_AA CUFF.853 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 7;10 N alternative_acceptor CUFF.784 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 132;24 N mutually_exclusive CUFF.779 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 87;21 N cassette CUFF.796 chr11 - chr11:8496614-8615290 chr11:8496614-8554894;chr11:8555044-8615290 chr11:8554895-8555043 2;17 N alternative_donor CUFF.783,CUFF.834 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 85;24 K alternative_acceptor CUFF.781,CUFF.817 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 39;15 N jcn_only_AA CUFF.846 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 88;110 N jcn_only_AD CUFF.806 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 186;6 N cassette CUFF.842 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 7;28 N cassette CUFF.794 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 8;375 N alternative_donor CUFF.820 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 287;10 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 5;20 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 235;6 K intron_retention CUFF.783 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 22;18 K intron_retention chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 237;72 K alternative_first_exon CUFF.850 chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119295608-119295733 chr11:119293823-119294867 28;36 K intron_retention CUFF.838 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 223;10 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 18;2 N intron_retention chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 23;3 K intron_retention CUFF.781 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 38;35 K jcn_only_AA CUFF.825,CUFF.837 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 25;43 K intron_retention CUFF.788 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 62;10 K alternative_first_exon CUFF.823 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67782457-67782545;chr11:67777704-67777862 chr11:67776048-67776162 179;16 N alternative_donor CUFF.806 chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 33;4 N alternative_acceptor CUFF.834 chr11 - chr11:102937297-102953476 chr11:102950727-102953476 chr11:102937297-102950726 chr11:102937296-102937297 87;0 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 5;235 K intron_retention CUFF.823 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 164;67 N jcn_only_AD CUFF.815 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 34;268 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 20;85 N cassette CUFF.828 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 2;57 N jcn_only_AA CUFF.820,CUFF.824 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 31;18 K jcn_only_AA CUFF.835 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 2;17 N jcn_only_AA CUFF.826 chr11 + chr11:118402587-118402960;chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 19;21 K intron_retention CUFF.788 chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 19;21 N jcn_only_AA CUFF.846 chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 6;4 N alternative_first_exon CUFF.796,CUFF.822 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8615630-8615928 chr11:8615291-8615562 79;9 N intron_retention chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 16;102 N jcn_only_AD CUFF.788 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 16;34 K alternative_first_exon CUFF.823 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67782457-67782545;chr11:67776048-67776162 chr11:67777704-67777862 24;171 N cassette CUFF.828 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 2;11 N alternative_first_exon CUFF.781 chr11 + chr11:827319-828259;chr11:827712-828259;chr11:827460-828259 chr11:826267-828259 chr11:827591-827711;chr11:827216-827459 chr11:826068-826266 18;48 K intron_retention CUFF.820 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 281;3 K intron_retention CUFF.838 chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 110;30 N jcn_only_AD CUFF.806 chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 23;85 K alternative_acceptor CUFF.779 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 49;123 K intron_retention CUFF.781 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 17;9 N alternative_acceptor chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 25;20 N intron_retention chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 3;13 N jcn_only_AD CUFF.841 chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401950-118402241;chr11:118402242-118402316 chr11:118401949-118401950;chr11:118402241-118402242 147;23 K intron_retention CUFF.810 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 27;7 N alternative_donor CUFF.806 chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 chr11:36475657-36476368;chr11:36476369-36476996 chr11:36475656-36475657;chr11:36476368-36476369 25;12 K jcn_only_AD CUFF.794,CUFF.847 chr11 - chr11:6637735-6638589 chr11:6637735-6637891 195;31 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 4;75 K jcn_only_AA CUFF.827 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 36;6 N alternative_first_exon CUFF.810 chr11 + chr11:61596070-61605249;chr11:61584169-61605249 chr11:61594904-61605249 chr11:61583832-61584168 chr11:61594808-61594903 26;17 N alternative_donor CUFF.779 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 60;13 N jcn_only_AD CUFF.781 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 12;38 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 21;35 N mutually_exclusive CUFF.799 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 9;16 K alternative_donor CUFF.790 chr11 - chr11:5701469-5706245 chr11:5701469-5706097 chr11:5706098-5706245 chr11:5706245-5706246 15;46 K cassette CUFF.817 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 32;36 N alternative_donor CUFF.847 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 89;61 N jcn_only_AA chr11 - chr11:10821304-10821790 chr11:10821716-10821790 chr11:10821304-10821715 chr11:10821303-10821304 25;4 N jcn_only_AD CUFF.794 chr11 - chr11:6633050-6633604 chr11:6633050-6633188 chr11:6633189-6633604 chr11:6633604-6633605 2;82 N intron_retention chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 25;27 N alternative_first_exon CUFF.781 chr11 + chr11:827319-828259;chr11:826267-828259;chr11:827460-828259 chr11:827712-828259 chr11:826068-826266;chr11:827216-827459 chr11:827591-827711 64;2 N alternative_first_exon chr11 - chr11:2187999-2188664 chr11:2187999-2188116 chr11:2188665-2188715 chr11:2188117-2188565 5;130 K alternative_last_exon CUFF.826 chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74630779 chr11:74624740-74624827 110;5 K cassette CUFF.836 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 18;26 K intron_retention CUFF.846 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 100;10 K alternative_first_exon CUFF.835 chr11 - chr11:104915386-104972134 chr11:104915386-104916017 chr11:104972135-104972193 chr11:104916018-104916179 2;1 K intron_retention CUFF.822 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 19;9 K intron_retention CUFF.850 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 78;27 N intron_retention chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 12;78 N intron_retention CUFF.799 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 5;17 K intron_retention CUFF.781 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 38;28 K alternative_first_exon CUFF.817 chr11 + chr11:63657768-63662630,chr11:63647701-63662630;chr11:63607033-63662630;chr11:63636382-63662630 chr11:63617502-63662630 chr11:63606400-63607032;chr11:63636122-63636381 chr11:63617410-63617501 56;8 K cassette CUFF.779 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 52;108 K alternative_acceptor CUFF.787 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 54;19 K intron_retention CUFF.834 chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 71;29 K jcn_only_AA CUFF.838 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 12;63 N cassette CUFF.799 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 15;171 N jcn_only_AA CUFF.850 chr11 - chr11:119291089-119291578;chr11:119291097-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096 chr11:119291045-119291046;chr11:119291088-119291089 87;4 N alternative_donor CUFF.806 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 3;8 K intron_retention CUFF.846 chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 6;3 N jcn_only_AA CUFF.818 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-63999981 chr11:63999437-64001365 211;7 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 8;6 N jcn_only_AD CUFF.806 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 186;6 K alternative_first_exon CUFF.847 chr11 - chr11:119230945-119234558;chr11:119230945-119252182 chr11:119230945-119243416 chr11:119234559-119234995;chr11:119252183-119252421 chr11:119243417-119244231 36;71 K intron_retention CUFF.781 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 43;5 N coord_cassette CUFF.779 chr11 - chr11:408894-414822 chr11:408894-409216;chr11:409309-409867;chr11:410028-414822 chr11:409217-409308;chr11:409868-410027 4;211 K intron_retention CUFF.787 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 16;40 K jcn_only_AD CUFF.808 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 7;23 N jcn_only_AA CUFF.818 chr11 + chr11:63999437-63999865;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999901 73;145 N alternative_first_exon CUFF.784 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768405 chr11:124767622-124768201 5;1 N alternative_acceptor CUFF.784 chr11 - chr11:2190926-2192914 chr11:2191102-2192914 chr11:2190926-2191101 chr11:2190925-2190926 24;22 N alternative_first_exon CUFF.781 chr11 + chr11:827712-828229;chr11:827460-828229 chr11:826267-828229 chr11:827591-827711;chr11:827216-827459 chr11:826068-826266 51;47 K intron_retention CUFF.794 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 76;11 N alternative_donor CUFF.774 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 157;1 N coord_cassette CUFF.735 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158027;chr10:46158130-46158989 chr10:46148432-46148507;chr10:46158028-46158129 9;23 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822 chr10:35485468-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 31;0 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 341;34 K coord_cassette CUFF.774 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 55;525 N alternative_donor CUFF.723 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76289051-76290264 chr10:76290264-76290265 6;4 K alternative_acceptor CUFF.744 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 12;3 N alternative_donor CUFF.751 chr10 - chr10:78729826-78734244;chr10:78729826-78771724 chr10:78729826-78761164 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 19;0 K intron_retention chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 14;23 K cassette CUFF.744 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 5;11 K alternative_first_exon CUFF.759 chr10 + chr10:103113986-103190101 chr10:103114367-103190101 chr10:103113734-103113985 chr10:103114231-103114366 34;45 N alternative_acceptor CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78761339-78771724;chr10:78755467-78771724 chr10:78737397-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 19;0 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 35;0 K alternative_first_exon CUFF.746,CUFF.747 chr10 - chr10:73515224-73520624 chr10:73515224-73517334 chr10:73520625-73520681 chr10:73517335-73517482 1;56 N jcn_only_AA CUFF.776 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 3;13 N coord_cassette CUFF.725 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 2;16 N jcn_only_AD CUFF.751 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 39;4 K alternative_first_exon CUFF.730 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35379357 chr10:35360268-35378823 chr10:35363120-35363296;chr10:35379358-35379647 chr10:35378824-35379031 61;23 N alternative_acceptor CUFF.751 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 56;0 K coord_cassette CUFF.716 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5123873;chr10:5124078-5138601 chr10:5122938-5123093;chr10:5123874-5124077 28;25 N jcn_only_AA CUFF.757 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 95;53 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 32;13 K cassette CUFF.722 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 2;40 N jcn_only_AA CUFF.751 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 65;2 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35484143-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 647;12 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 266;110 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 167;209 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485028-35490378 129;53 N alternative_acceptor CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 126;0 K coord_cassette CUFF.747 chr10 - chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607;chr10:73862726-73887839 chr10:73862092-73862170;chr10:73862608-73862725 35;23 N alternative_acceptor CUFF.751 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 22;0 N jcn_only_AD CUFF.774 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 148;420 K intron_retention CUFF.728 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 9;3 N alternative_donor CUFF.751 chr10 - chr10:78729826-78761164;chr10:78729826-78771724 chr10:78729826-78734244 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 19;0 N alternative_donor chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 10;0 N alternative_donor CUFF.729 chr10 + chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35485028-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 30;1 K cassette CUFF.756 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 4;25 N jcn_only_AD CUFF.751 chr10 - chr10:78729826-78734244;chr10:78729826-78771724 chr10:78729826-78761164 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 23;16 N jcn_only_AA chr10 + chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35467816 101;18 N jcn_only_AD CUFF.747 chr10 - chr10:73956748-73963184;chr10:73956748-73958206 chr10:73956748-73972944 224;26 K alternative_donor CUFF.756 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 3;13 N jcn_only_AA CUFF.742 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 36;6 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 20;6 K cassette CUFF.735 chr10 - chr10:46148508-46158989 chr10:46148508-46158027;chr10:46158130-46158989 chr10:46158028-46158129 28;25 N alternative_acceptor CUFF.742 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 36;0 N jcn_only_AA CUFF.730 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 9;56 N cassette CUFF.725 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 10;18 N jcn_only_AA CUFF.751 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 28;32 K jcn_only_AD CUFF.762 chr10 + chr10:106937932-106970894 chr10:106961012-106970894 21;20 N alternative_donor CUFF.735 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 34;0 K alternative_first_exon CUFF.730 chr10 - chr10:35360268-35379106;chr10:35360268-35363119;chr10:35360268-35378823 chr10:35360268-35379357 chr10:35363120-35363296;chr10:35378824-35379031 chr10:35379358-35379647 61;23 N cassette CUFF.725 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 3;24 N alternative_acceptor CUFF.751 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 39;0 N jcn_only_AD CUFF.718 chr10 + chr10:6266177-6268154;chr10:6266587-6268154 chr10:6267212-6268154 89;31 N coord_cassette CUFF.725 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 2;16 N alternative_acceptor CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78761339-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 19;0 K coord_cassette CUFF.718 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 3;73 K coord_cassette CUFF.744 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 20;10 N alternative_donor CUFF.751 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 39;0 N jcn_only_AD CUFF.735 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 48;17 K cassette CUFF.756 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 21;9 K coord_cassette CUFF.716 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5122937;chr10:5123094-5138601 chr10:5120062-5120169;chr10:5122938-5123093 3;11 K cassette CUFF.716 chr10 + chr10:5077809-5138601 chr10:5077809-5120061;chr10:5120170-5138601 chr10:5120062-5120169 3;26 K cassette CUFF.752 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 8;5 K cassette CUFF.740 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 5;17 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 237;138 K intron_retention CUFF.721 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 35;7 N jcn_only_AA CUFF.751 chr10 - chr10:78729826-78771724;chr10:78761339-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78734332-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 56;10 N cassette CUFF.718 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 7;18 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 167;26 N jcn_only_AD chr10 + chr10:35464634-35477127 chr10:35468205-35477127 12;209 N alternative_donor CUFF.725 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 31;0 N jcn_only_AA CUFF.725 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 31;3 N jcn_only_AA CUFF.715 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 3;4 N alternative_donor CUFF.747 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 176;2 N alternative_donor CUFF.751 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 4;22 N jcn_only_AD CUFF.735 chr10 - chr10:46113709-46116227;chr10:46113709-46120030 chr10:46113709-46143741 56;4 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 228;147 N alternative_acceptor CUFF.730 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 9;25 N alternative_acceptor CUFF.730 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 92;12 N jcn_only_AA CUFF.729 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 364;323 N mutually_exclusive CUFF.773 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 27;2 N jcn_only_AA CUFF.735 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 47;10 N jcn_only_AA CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 115;56 N jcn_only_AA CUFF.721 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 22;10 K cassette CUFF.744 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 20;7 N cassette CUFF.747 chr10 - chr10:73857209-73862607;chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607,chr10:73862171-73887839 chr10:73862092-73862170 84;25 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 368;7 N alternative_acceptor CUFF.751 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 22;0 N jcn_only_AA CUFF.751 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 39;3 N jcn_only_AA CUFF.751 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 56;6 N cassette CUFF.773 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 3;103 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 24;2 N jcn_only_AD chr10 - chr10:46113709-46116227;chr10:46113709-46143741 chr10:46113709-46120030 23;37 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 5;21 N jcn_only_AD CUFF.723 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76289051-76290264 chr10:76290264-76290265 6;36 N cassette CUFF.735 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 9;36 N cassette CUFF.773 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 8;26 N alternative_acceptor CUFF.757 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 95;2 N cassette CUFF.718 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 3;79 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 180;52 N alternative_acceptor CUFF.729 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 30;2 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 4;31 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 23;22 N jcn_only_AD CUFF.747 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 202;45 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 99;132 N alternative_acceptor CUFF.751 chr10 - chr10:78734332-78771724;chr10:78761339-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78729826-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 0;19 N cassette CUFF.758 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 2;26 N alternative_acceptor CUFF.751 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 16;2 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35468061 chr10:35464634-35467799 107;11 N coord_cassette CUFF.716 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 11;39 N jcn_only_AD CUFF.718 chr10 + chr10:6266587-6268154;chr10:6267212-6268154 chr10:6266177-6268154 38;82 N cassette CUFF.721 chr10 - chr10:17636383-17645558 chr10:17636383-17641288;chr10:17641411-17645558 chr10:17641289-17641410 10;30 K cassette CUFF.752 chr10 - chr10:80825577-80827144 chr10:80825577-80826204;chr10:80826344-80827144 chr10:80826205-80826343 26;4 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 26;0 N alternative_acceptor chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 85;0 N jcn_only_AA CUFF.751 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 55;4 N jcn_only_AD CUFF.751,CUFF.773 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 56;11 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 33;2 N jcn_only_AD CUFF.759 chr10 + chr10:103190210-103221737 chr10:103213314-103221737 chr10:103190210-103213313 chr10:103190209-103190210 38;9 N alternative_first_exon chr10 - chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73975965-73976138 chr10:73975540-73975862 57;43 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 236;17 N alternative_acceptor CUFF.729 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 364;352 N jcn_only_AA CUFF.747 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 41;176 K cassette CUFF.716 chr10 + chr10:5123094-5138601 chr10:5123094-5123873;chr10:5124078-5138601 chr10:5123874-5124077 12;29 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35467915-35468061 chr10:35460243-35468061 456;19 K alternative_last_exon CUFF.773 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499939-123503373 chr10:123541991-123542214 31;81 K intron_retention CUFF.747 chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 56;9 N jcn_only_AA CUFF.759 chr10 + chr10:35456732-35467816 chr10:35456732-35460120 34;33 N jcn_only_AA CUFF.751 chr10 - chr10:78734332-78771724;chr10:78761339-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78729826-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 46;19 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 201;52 N cassette CUFF.773 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 3;111 K alternative_first_exon CUFF.718 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186867-6186976 chr10:6244739-6245299 4;89 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35485071-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 30;1 N jcn_only_AA chr10 + chr10:103113986-103213257 chr10:103113986-103190101 chr10:103190102-103213257 chr10:103213257-103213258 12;34 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 357;18 K alternative_acceptor CUFF.744 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 17;11 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 55;16 N jcn_only_AA CUFF.735 chr10 - chr10:46135412-46143741;chr10:46135870-46143741 chr10:46113709-46143741 41;4 N jcn_only_AD CUFF.729 chr10 + chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35485028-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 565;95 N mutually_exclusive CUFF.725 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 7;2 N jcn_only_AA CUFF.730 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 92;30 K alternative_first_exon CUFF.730 chr10 - chr10:35360268-35379106;chr10:35360268-35379357;chr10:35360268-35378823 chr10:35360268-35363119 chr10:35379358-35379647;chr10:35378824-35379031 chr10:35363120-35363296 51;33 K jcn_only_AA CUFF.743,CUFF.744 chr10 + chr10:69918385-69925239 chr10:69918385-69921485 2;5 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 246;7 N jcn_only_AD chr10 - chr10:73956748-73972944;chr10:73956748-73958206 chr10:73956748-73963184 42;209 N jcn_only_AA CUFF.747 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 209;12 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378 chr10:35468205-35490378 124;57 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35485071-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 574;85 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 23;13 N jcn_only_AD chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 24;40 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 6;26 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35484143-35490378;chr10:35485028-35490378;chr10:35468205-35490378 chr10:35477317-35490378 155;27 N alternative_acceptor CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 119;7 N jcn_only_AA CUFF.751 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 43;7 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 52;20 N cassette CUFF.725 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 3;24 K cassette CUFF.777 chr10 - chr10:135060555-135061294 chr10:135060555-135061057;chr10:135061206-135061294 chr10:135061058-135061205 40;6 N cassette CUFF.773 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 23;14 K cassette CUFF.725 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 10;15 K alternative_last_exon CUFF.752 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722581-80722643 chr10:80803901-80804269 7;34 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35464780;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35477127 106;12 K alternative_first_exon CUFF.755 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833595-94833880 3;27 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 115;138 N alternative_acceptor CUFF.751 chr10 - chr10:78729826-78771724;chr10:78761339-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78734332-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 19;0 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 112;8 N jcn_only_AA chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35464780;chr10:35464634-35467799 chr10:35464634-35468061 112;6 N jcn_only_AD CUFF.751,CUFF.776 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 74;2 K jcn_only_AD CUFF.756 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 3;27 K intron_retention CUFF.771 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 chr10:119764421-119765349;chr10:119768593-119768736 5;5 N jcn_only_AA CUFF.747 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 191;26 N cassette CUFF.773 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 23;45 N alternative_acceptor CUFF.725 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 31;0 K jcn_only_AA CUFF.742 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 9;12 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35416122-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 5;26 N alternative_donor CUFF.747 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 202;1 N alternative_donor CUFF.759 chr10 + chr10:103190210-103221737 chr10:103213314-103221737 chr10:103190210-103213313 chr10:103190209-103190210 38;0 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 225;28 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 16;13 K mutually_exclusive CUFF.773 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 43;14 N jcn_only_AD CUFF.751 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 4;16 N jcn_only_AA chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 85;9 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 118;2 N alternative_acceptor CUFF.751 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0;22 N intron_retention chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 4;19 N jcn_only_AD chr10 + chr10:35460243-35468061;chr10:35467915-35468061 chr10:35464634-35468061 469;6 N cassette CUFF.747 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 9;108 N jcn_only_AD CUFF.747 chr10 - chr10:73956748-73963184;chr10:73956748-73972944 chr10:73956748-73958206 235;16 N jcn_only_AA chr10 + chr10:35426808-35467816 chr10:35426808-35437295 7;132 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 7;11 K jcn_only_AA CUFF.757,CUFF.759 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 3;10 N alternative_acceptor CUFF.729 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 30;2 K cassette CUFF.742 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 34;15 K alternative_first_exon CUFF.774 chr10 + chr10:124134323-124152696 chr10:124151889-124152696 chr10:124134212-124134322 chr10:124151819-124151888 29;419 N alternative_acceptor CUFF.729 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 30;2 N alternative_acceptor CUFF.751 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 65;0 N jcn_only_AA chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 94;27 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35437420-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 31;0 K cassette CUFF.744 chr10 + chr10:70661228-70666466 chr10:70661228-70665981;chr10:70666094-70666466 chr10:70665982-70666093 8;15 N alternative_donor CUFF.747 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 132;4 N jcn_only_AD chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 10;4 N cassette CUFF.718 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 15;58 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35477317-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 30;1 N alternative_donor CUFF.735 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 38;5 N cassette CUFF.774 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 12;609 N cassette CUFF.747 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 40;73 N jcn_only_AA CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78761339-78771724;chr10:78737397-78771724 chr10:78755467-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 45;21 N jcn_only_AD CUFF.774 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 426;141 N jcn_only_AA CUFF.747 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 202;15 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35437420-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 643;17 K alternative_last_exon CUFF.751 chr10 - chr10:78823902-78832854;chr10:78799396-78832854 chr10:78831404-78832854 chr10:78799286-78799395 chr10:78830991-78831403 63;114 N jcn_only_AD CUFF.742,CUFF.746 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 36;4 K cassette CUFF.730 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 17;39 K alternative_first_exon CUFF.727 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 8;5 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 5;0 N jcn_only_AA CUFF.747 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 202;35 N alternative_donor chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 84;24 N jcn_only_AA CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 151;20 N jcn_only_AA CUFF.751 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 27;22 N jcn_only_AD CUFF.751 chr10 - chr10:78729826-78761164;chr10:78729826-78771724 chr10:78729826-78734244 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 35;4 N jcn_only_AA chr10 + chr10:35416496-35437295 chr10:35416496-35426709 47;32 K alternative_first_exon CUFF.723 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833383 3;14 N alternative_donor CUFF.750 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 2;22 N alternative_donor CUFF.740 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 102;0 N jcn_only_AD CUFF.735 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 57;7 N alternative_acceptor chr10 + chr10:103113986-103213257 chr10:103113986-103190101 chr10:103190102-103213257 chr10:103213257-103213258 12;0 N alternative_donor CUFF.774 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 142;16 N alternative_acceptor chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 12;1 K alternative_last_exon CUFF.749 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476873-75476950 chr10:75477773-75477923 4;9 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 10;110 N jcn_only_AA CUFF.735 chr10 - chr10:46113709-46143741;chr10:46135870-46143741 chr10:46135412-46143741 12;34 K alternative_acceptor CUFF.743,CUFF.759 chr10 + chr10:103190210-103221737 chr10:103190210-103221720 chr10:103221721-103221737 chr10:103221737-103221738 38;28 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35477317-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 565;94 N alternative_acceptor CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78761339-78771724;chr10:78737397-78771724 chr10:78755467-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 19;0 N alternative_acceptor CUFF.747 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 88;38 N alternative_acceptor CUFF.715 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 3;2 K alternative_first_exon CUFF.758 chr10 + chr10:101482868-101496002 chr10:101492167-101496002,chr10:101492318-101496002 chr10:101482675-101482867 chr10:101491948-101492166 7;29 N alternative_donor CUFF.715 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 3;0 N alternative_donor CUFF.715 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 3;0 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 19;52 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35416122-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 634;26 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35468205-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 550;110 K cassette CUFF.750 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 21;14 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822 chr10:35485468-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 629;31 K jcn_only_AA CUFF.744 chr10 + chr10:70661228-70666039 chr10:70661228-70665981 chr10:70665982-70666039 chr10:70666039-70666040 12;6 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35485468-35495822 chr10:35490415-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 29;2 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 16;6 N jcn_only_AD chr10 - chr10:78729826-78761164;chr10:78729826-78734244 chr10:78729826-78771724 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 20;19 N alternative_acceptor CUFF.751 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 6;12 N jcn_only_AD chr10 + chr10:35485071-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35484143-35490378 146;36 N jcn_only_AD CUFF.750 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 2;14 N jcn_only_AD CUFF.725 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 31;2 N alternative_donor chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 22;21 N mutually_exclusive CUFF.725 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 8;2 K intron_retention CUFF.740 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 12;36 N cassette CUFF.718 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 20;78 N mutually_exclusive CUFF.773 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 34;3 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 25;1 N jcn_only_AA CUFF.740 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 102;6 K alternative_first_exon CUFF.735,CUFF.748 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46147414-46147481 chr10:46145180-46145279 34;10 K alternative_donor CUFF.758 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 18;7 N intron_retention chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 2;29 N jcn_only_AD CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35485468-35495822 chr10:35490415-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 470;190 N jcn_only_AA CUFF.751 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 29;20 N alternative_donor chr10 - chr10:78729826-78761164;chr10:78729826-78734244 chr10:78729826-78771724 chr10:78734245-78761164;chr10:78761165-78771724 chr10:78761164-78761165;chr10:78771724-78771725 0;19 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35485071-35495822;chr10:35484143-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35468205-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 31;0 N alternative_donor CUFF.742,CUFF.746 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 36;0 N jcn_only_AD CUFF.715 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 3;4 N jcn_only_AA chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 12;36 N alternative_donor CUFF.751,CUFF.776 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 74;1 K alternative_last_exon CUFF.718 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277494 chr10:6270159-6270247 7;42 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 26;0 N alternative_acceptor CUFF.747 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 81;45 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 52;71 N alternative_acceptor CUFF.747 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 202;5 K cassette CUFF.716 chr10 + chr10:5120170-5138601 chr10:5120170-5122937;chr10:5123094-5138601 chr10:5122938-5123093 28;22 N alternative_acceptor CUFF.721 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 22;0 N jcn_only_AA CUFF.729 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 162;31 K jcn_only_AA CUFF.744 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 17;15 N jcn_only_AA CUFF.747 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 125;46 N alternative_acceptor CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 90;36 K alternative_acceptor CUFF.757,CUFF.759 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 3;5 N jcn_only_AD CUFF.747 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 176;16 N alternative_acceptor chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 94;1 K alternative_last_exon CUFF.715 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370587-370959 1;9 K alternative_acceptor CUFF.742 chr10 - chr10:69575888-69583071 chr10:69575892-69583071 chr10:69575888-69575891 chr10:69575887-69575888 9;6 N jcn_only_AA CUFF.751 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 36;23 N alternative_donor CUFF.729 chr10 + chr10:35485028-35495822;chr10:35477317-35495822;chr10:35437420-35495822;chr10:35468205-35495822;chr10:35485071-35495822;chr10:35416122-35495822;chr10:35490415-35495822;chr10:35485468-35495822 chr10:35484143-35495822 chr10:35416122-35437419;chr10:35437420-35468204;chr10:35468205-35477316;chr10:35477317-35484142;chr10:35484143-35485027;chr10:35485028-35485070;chr10:35485071-35485467;chr10:35485468-35490414 chr10:35416121-35416122;chr10:35437419-35437420;chr10:35468204-35468205;chr10:35477316-35477317;chr10:35484142-35484143;chr10:35485027-35485028;chr10:35485070-35485071;chr10:35485467-35485468 31;0 N alternative_acceptor CUFF.751 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 66;9 N jcn_only_AA CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78755467-78771724;chr10:78737397-78771724 chr10:78761339-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 52;14 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 9;17 N alternative_acceptor CUFF.740 chr10 + chr10:60037083-60047320 chr10:60037083-60042658 chr10:60042659-60047320 chr10:60047320-60047321 102;0 N jcn_only_AD CUFF.735 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 34;6 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 185;47 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 243;10 N jcn_only_AD chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 84;32 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 35;0 N alternative_donor CUFF.735 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 26;17 N alternative_acceptor CUFF.751 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 14;4 N jcn_only_AD CUFF.747 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 132;8 N mutually_exclusive CUFF.747 chr10 - chr10:73857209-73862607,chr10:73862726-73887839 chr10:73857209-73862091,chr10:73862171-73887839 chr10:73862608-73862725 chr10:73862092-73862170 47;4 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 68;3 N alternative_acceptor CUFF.735 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 47;15 N intron_retention chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 20;6 K jcn_only_AA CUFF.743,CUFF.759 chr10 + chr10:103190210-103221737 chr10:103190210-103221720 chr10:103221721-103221737 chr10:103221737-103221738 38;58 N jcn_only_AA CUFF.729 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 141;52 K alternative_first_exon CUFF.733 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572433-43572779 chr10:43606655-43606913 9;3 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 33;2 K cassette CUFF.722 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 21;3 K cassette CUFF.742 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575888-69583071 chr10:69575798-69575887 34;14 N jcn_only_AD chr10 + chr10:35484143-35490378;chr10:35485028-35490378;chr10:35477317-35490378;chr10:35468205-35490378 chr10:35485071-35490378 173;9 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 344;31 N alternative_donor CUFF.774 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 17;141 N jcn_only_AD CUFF.730,CUFF.735 chr10 - chr10:46113709-46143741;chr10:46113709-46120030 chr10:46113709-46116227 41;19 N jcn_only_AD chr10 + chr10:35464634-35468061;chr10:35460243-35468061 chr10:35467915-35468061 26;450 N jcn_only_AA CUFF.751 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 66;11 N jcn_only_AA CUFF.718 chr10 + chr10:35464634-35467816;chr10:35464634-35477127;chr10:35464634-35468061;chr10:35464634-35467799 chr10:35464634-35464780 47;71 N jcn_only_AA CUFF.729 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 109;84 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 35;0 K coord_cassette CUFF.773 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 8;64 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 318;57 N jcn_only_AA CUFF.735 chr10 - chr10:46135412-46143741;chr10:46113709-46143741 chr10:46135870-46143741 38;7 K mutually_exclusive CUFF.752 chr10 - chr10:80808690-80814352,chr10:80814486-80825503 chr10:80808690-80810038,chr10:80810175-80825503 chr10:80814353-80814485 chr10:80810039-80810174 7;23 K intron_retention CUFF.747 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 45;62 K jcn_only_AD CUFF.743 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 2;5 N jcn_only_AA CUFF.751 chr10 - chr10:78734332-78771724;chr10:78729826-78771724;chr10:78761339-78771724;chr10:78755467-78771724 chr10:78737397-78771724 chr10:78729826-78734331;chr10:78734332-78737396;chr10:78737397-78755466;chr10:78755467-78761338 chr10:78729825-78729826;chr10:78734331-78734332;chr10:78737396-78737397;chr10:78755466-78755467 63;2 N jcn_only_AD CUFF.774 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 561;6 K cassette CUFF.773 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 37;108 K cassette CUFF.749 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 10;4 N intron_retention chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 46;15 N jcn_only_AA CUFF.747 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 166;4 N jcn_only_AA CUFF.747 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 chr10:73973036-73973089;chr10:73973090-73973109;chr10:73973110-73975612;chr10:73975613-73975867 chr10:73973035-73973036;chr10:73973089-73973090;chr10:73973109-73973110;chr10:73975612-73975613 126;45 K jcn_only_AD CUFF.758 chr10 + chr10:101492167-101496002 chr10:101492318-101496002 chr10:101492167-101492317 chr10:101492166-101492167 18;5 N jcn_only_AD CUFF.715 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 3;2 N alternative_acceptor CUFF.747 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 209;4 N jcn_only_AD CUFF.718 chr10 + chr10:6266177-6268154;chr10:6267212-6268154 chr10:6266587-6268154 114;7 K alternative_first_exon CUFF.773 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123688391 chr10:123687359-123687586 53;39 K cassette CUFF.744 chr10 + chr10:70661228-70666466 chr10:70661228-70666039;chr10:70666094-70666466 chr10:70666040-70666093 8;20 N alternative_first_exon chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543488 5;46 N jcn_only_AD CUFF.740 chr10 + chr10:60037083-60047320 chr10:60042843-60047320 chr10:60037083-60042842 chr10:60037082-60037083 102;2 N alternative_donor CUFF.751,CUFF.773 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 56;2 N alternative_first_exon CUFF.1182 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61907986-61908295 10;856 N intron_retention chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 12;18 N jcn_only_AD CUFF.1192 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 4;349 N jcn_only_AA CUFF.1197 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 22;60 K coord_cassette CUFF.1198 chr17 - chr17:79354385-79358928 chr17:79354385-79355676;chr17:79355741-79358745;chr17:79358833-79358928 chr17:79355677-79355740;chr17:79358746-79358832 31;117 N jcn_only_AD CUFF.1140 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 136;2 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 6;17 K intron_retention CUFF.1192 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 22;19 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 3;250 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 10;20 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 41;135 N jcn_only_AA CUFF.1139 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 71;14 N cassette CUFF.1204 chr17 + chr17:80426773-80436675;chr17:80430575-80436675 chr17:80430575-80436446,chr17:80426773-80436446;chr17:80436544-80436675 chr17:80436447-80436543 139;135 N jcn_only_AA CUFF.1140 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 159;3 N jcn_only_AD CUFF.1200 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 80;5 N jcn_only_AD chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 15;480 N intron_retention chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 4;25 N jcn_only_AA CUFF.1182 chr17 + chr17:61904884-61907492 chr17:61904884-61904979 chr17:61904980-61907492 chr17:61907492-61907493 41;12 N jcn_only_AD CUFF.1140 chr17 + chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724 chr17:6348662-6348663 26;159 N jcn_only_AA CUFF.1171 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 17;23 N jcn_only_AD CUFF.1179 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 11;9 N cassette CUFF.1152 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 30;20 K alternative_acceptor CUFF.1180 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 85;94 N cassette CUFF.1133 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 10;98 K intron_retention CUFF.1182 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 100;5 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 52;9 N jcn_only_AA CUFF.1192 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 196;22 N alternative_acceptor CUFF.1200 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 6;48 N intron_retention CUFF.1201 chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 6;37 K alternative_acceptor CUFF.1144 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 18;7 N jcn_only_AD CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40761103 chr17:40744181-40748550 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 79;13 N jcn_only_AA CUFF.1173 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 321;40 K alternative_first_exon CUFF.1201 chr17 - chr17:79894738-79894845,chr17:79894738-79895068,chr17:79894738-79895103;chr17:79894738-79895403;chr17:79894738-79895055 chr17:79894738-79895137,chr17:79894738-79895133 chr17:79895404-79895628;chr17:79895056-79895127 chr17:79895138-79895291 73;52 N cassette CUFF.1195 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 106;277 N alternative_acceptor CUFF.1171 chr17 + chr17:61561903-61562596 chr17:61561903-61562330 chr17:61562331-61562596 chr17:61562596-61562597 17;25 K cassette CUFF.1139 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 31;43 N mutually_exclusive CUFF.1204 chr17 + chr17:80426773-80436446,chr17:80436544-80436675 chr17:80426773-80430439,chr17:80430575-80436675 chr17:80436447-80436543 chr17:80430440-80430574 57;94 N jcn_only_AD CUFF.1192 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 196;22 K alternative_first_exon CUFF.1170 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46710987 chr17:46685591-46685737 chr17:46684592-46685457 24;7 N intron_retention CUFF.1182 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 12;3 K alternative_acceptor CUFF.1136 chr17 - chr17:1616190-1616996 chr17:1616350-1616996 chr17:1616190-1616349 chr17:1616189-1616190 41;80 N alternative_donor CUFF.1192 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 4;186 N jcn_only_AA CUFF.1137 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 40;5 N alternative_acceptor CUFF.1164 chr17 - chr17:40738910-40744073 chr17:40739883-40744073 chr17:40738910-40739882 chr17:40738909-40738910 28;19 K cassette CUFF.1152 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 22;55 N cassette CUFF.1201 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 18;90 N alternative_acceptor CUFF.1180 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 6;0 K intron_retention CUFF.1163 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 8;4 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 36;6 N alternative_acceptor CUFF.1200 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 66;3 N jcn_only_AA chr17 + chr17:61560051-61560820 chr17:61560051-61560389 8;15 N alternative_acceptor CUFF.1192 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 253;5 K alternative_acceptor CUFF.1178 chr17 - chr17:57775340-57784731 chr17:57777551-57784731 chr17:57775340-57777550 chr17:57775339-57775340 7;27 N alternative_acceptor chr17 + chr17:61555460-61556367 chr17:61555460-61556171 chr17:61556172-61556367 chr17:61556367-61556368 88;4 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 6;0 N coord_cassette CUFF.1195 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 66;71 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 9;17 N cassette CUFF.1155 chr17 + chr17:29576138-29585361 chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 4;19 K intron_retention CUFF.1153 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 3;19 K intron_retention CUFF.1140 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 18;5 N jcn_only_AA CUFF.1182 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 10;51 N alternative_acceptor CUFF.1155 chr17 + chr17:29664899-29665042;chr17:29664899-29667522 chr17:29664899-29665019 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 16;1 N mutually_exclusive CUFF.1198 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 3;5 K intron_retention CUFF.1203 chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 93;144 N alternative_acceptor CUFF.1201 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 38;104 N cassette CUFF.1191 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 9;6 N intron_retention chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 18;30 K intron_retention CUFF.1203 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 510;79 K intron_retention CUFF.1140 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 59;6 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 17;305 N intron_retention chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 5;34 N alternative_donor CUFF.1164 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 28;2 K intron_retention CUFF.1202 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 154;4 K alternative_first_exon CUFF.1201 chr17 - chr17:79894738-79894845,chr17:79894738-79895068,chr17:79894738-79895103;chr17:79894738-79895137,chr17:79894738-79895133;chr17:79894738-79895403 chr17:79894738-79895055 chr17:79895138-79895291;chr17:79895404-79895628 chr17:79895056-79895127 103;22 N jcn_only_AA chr17 + chr17:61555460-61556367 chr17:61555460-61556171 chr17:61556172-61556367 chr17:61556367-61556368 88;11 N jcn_only_AD CUFF.1180 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 10;215 N alternative_acceptor CUFF.1143 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 235;44 K alternative_first_exon CUFF.1181,CUFF.1201 chr17 - chr17:79894738-79894845,chr17:79894738-79895068,chr17:79894738-79895103;chr17:79894738-79895137,chr17:79894738-79895133;chr17:79894738-79895055 chr17:79894738-79895403 chr17:79895138-79895291;chr17:79895056-79895127 chr17:79895404-79895628 88;37 N jcn_only_AA chr17 + chr17:61907310-61907630 chr17:61907310-61907492 28;112 N jcn_only_AA chr17 + chr17:29706042-29708890 chr17:29706042-29706123 9;35 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 9;6 N cassette CUFF.1143 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 10;98 N jcn_only_AA CUFF.1155 chr17 + chr17:29664899-29665019;chr17:29664899-29667522 chr17:29664899-29665042 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 18;14 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 24;10 K alternative_donor CUFF.1171 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 20;12 N intron_retention CUFF.1192 chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 6;55 N alternative_donor CUFF.1180 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 37;60 N cassette CUFF.1143 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 57;153 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 5;72 N jcn_only_AA CUFF.1200 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 66;9 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 41;160 N alternative_donor CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40761103 chr17:40744181-40748550 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 32;1 N jcn_only_AD CUFF.1136 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 63;34 N jcn_only_AD chr17 - chr17:37595447-37596875 chr17:37595447-37596638 1;3 K intron_retention CUFF.1136 chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 41;31 K jcn_only_AD CUFF.1136,CUFF.1161 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 90;41 N jcn_only_AA CUFF.1203 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 313;21 N intron_retention chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 38;4 N jcn_only_AD chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 20;6 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 21;35 N cassette CUFF.1192 chr17 + chr17:66509120-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 152;15 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 39;42 K cassette CUFF.1161 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 4;16 K alternative_last_exon CUFF.1204 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80438958-80439087 chr17:80438283-80438363 201;5 K cassette CUFF.1145 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 14;17 K intron_retention CUFF.1137 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 58;14 N jcn_only_AD CUFF.1203 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 216;9 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 47;61 N alternative_first_exon CUFF.1133 chr17 - chr17:653150-654890;chr17:653150-655857 chr17:653150-655372 chr17:655858-656110 chr17:655373-655501 158;16 K intron_retention CUFF.1182 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 41;226 K alternative_first_exon CUFF.1197 chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79269222-79269433 chr17:79268623-79269125 15;21 K cassette CUFF.1141 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 4;5 N jcn_only_AA CUFF.1164 chr17 - chr17:40738156-40761103;chr17:40744181-40761103 chr17:40757310-40761103 76;23 K cassette CUFF.1147 chr17 + chr17:17380580-17394592 chr17:17380580-17388613;chr17:17388748-17394592 chr17:17388614-17388747 5;11 N jcn_only_AD chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 39;186 K alternative_last_exon CUFF.1144 chr17 - chr17:15492542-15499827 chr17:15498141-15499827,chr17:15498205-15499827 chr17:15491700-15492541 chr17:15498062-15498140 16;22 N intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 3;307 K intron_retention CUFF.1137 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 27;21 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 13;2 K alternative_last_exon CUFF.1136 chr17 - chr17:1616199-1616996,chr17:1616220-1616996;chr17:1615694-1616996 chr17:1616190-1616996,chr17:1616350-1616996 chr17:1614805-1615693 chr17:1615705-1616189 63;70 N cassette CUFF.1143 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 14;44 N coord_cassette CUFF.1152 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 2;50 K jcn_only_AD CUFF.1203 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 49;313 N cassette CUFF.1191 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 4;9 N jcn_only_AD CUFF.1200 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 80;5 K intron_retention CUFF.1195 chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 29;109 K alternative_first_exon CUFF.1155 chr17 + chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592247-29592357 chr17:29645339-29645582 3;29 N alternative_donor CUFF.1180 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 77;20 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 7;20 N alternative_donor CUFF.1136,CUFF.1173 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47303018-47304008 chr17:47304008-47304009 264;7 N alternative_acceptor chr17 - chr17:40761746-40762554;chr17:40748646-40762554 chr17:40744181-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 1;5 N jcn_only_AA CUFF.1139 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 79;6 K intron_retention CUFF.1182 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 178;4 K intron_retention CUFF.1139 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 11;43 N jcn_only_AA CUFF.1164 chr17 - chr17:40738156-40761103;chr17:40757310-40761103 chr17:40744181-40761103 49;49 K intron_retention CUFF.1149 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 51;5 K intron_retention CUFF.1201 chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 31;36 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 21;49 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 3;22 N cassette CUFF.1152 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 8;64 N coord_cassette CUFF.1152 chr17 + chr17:25969375-25974055 chr17:25969375-25970550;chr17:25970647-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25970551-25970646;chr17:25972887-25972937;chr17:25973573-25973614 2;40 N intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 34;33 N jcn_only_AD CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40760677;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40761515 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 86;6 N jcn_only_AA CUFF.1192 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 253;8 N jcn_only_AD CUFF.1136,CUFF.1173 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47303018-47304008 chr17:47304008-47304009 264;44 K intron_retention CUFF.1197 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 47;36 K coord_cassette CUFF.1195 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 27;109 N intron_retention chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 26;70 K alternative_first_exon CUFF.1170 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46710987;chr17:46685591-46685737 chr17:46687881-46688379 chr17:46684592-46685457 13;18 K intron_retention CUFF.1137 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 130;105 N alternative_donor CUFF.1155 chr17 + chr17:29576138-29584704 chr17:29580019-29584704 chr17:29576138-29580018 chr17:29576137-29576138 10;7 N jcn_only_AA CUFF.1192 chr17 + chr17:66508690-66511534 chr17:66508690-66509050 chr17:66509051-66511534 chr17:66511534-66511535 55;6 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 103;5 N jcn_only_AD CUFF.1155 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 25;22 N jcn_only_AD CUFF.1200 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 79;6 N jcn_only_AD CUFF.1180 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 218;7 K intron_retention CUFF.1182 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 1211;3 K cassette CUFF.1154 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 15;20 K jcn_only_AD CUFF.1171 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 20;13 N alternative_acceptor CUFF.1136 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 159;11 K intron_retention CUFF.1203 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 468;50 K intron_retention CUFF.1137 chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 10;12 N alternative_donor chr17 - chr17:79993940-79994057;chr17:79993940-79994022 chr17:79993940-79994066 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 21;186 N jcn_only_AA CUFF.1203 chr17 - chr17:79994890-79995506;chr17:79995418-79995506 chr17:79995424-79995506 154;102 N jcn_only_AA CUFF.1192 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 7;14 N cassette CUFF.1180 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 41;158 N jcn_only_AA CUFF.1164 chr17 - chr17:40738910-40744073 chr17:40739883-40744073 chr17:40738910-40739882 chr17:40738909-40738910 28;49 N jcn_only_AD CUFF.1191 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 2;5 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 3;6 N coord_cassette CUFF.1143 chr17 - chr17:15546131-15584178 chr17:15546131-15554404;chr17:15555261-15562115;chr17:15562191-15584178 chr17:15554405-15555260;chr17:15562116-15562190 22;38 N alternative_acceptor chr17 + chr17:61562734-61563652;chr17:61562734-61563719 chr17:61562734-61563917 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 8;199 N alternative_donor CUFF.1203 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 109;11 N intron_retention chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 61;23 N jcn_only_AA chr17 - chr17:40761746-40762554;chr17:40748646-40762554 chr17:40744181-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 18;5 N alternative_donor CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40760677 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 25;8 N jcn_only_AA CUFF.1197 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 2;37 N alternative_acceptor CUFF.1143 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 192;13 N cassette CUFF.1155 chr17 + chr17:29677337-29683477 chr17:29677337-29679274;chr17:29679433-29683477 chr17:29679275-29679432 19;13 N coord_cassette CUFF.1152 chr17 + chr17:25969375-25972886 chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886 chr17:25970551-25970646;chr17:25972340-25972375 9;12 K jcn_only_AA CUFF.1136 chr17 - chr17:1616190-1616996 chr17:1616350-1616996 chr17:1616190-1616349 chr17:1616189-1616190 41;99 K cassette CUFF.1204 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 59;264 N alternative_donor CUFF.1197,CUFF.1200 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 66;2 N alternative_acceptor CUFF.1145,CUFF.1155 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 15;0 N alternative_donor CUFF.1201 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 14;1 N alternative_donor CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40748550 chr17:40744181-40761103 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 15;18 N jcn_only_AA CUFF.1204 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 20;158 K intron_retention chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 137;106 N alternative_donor CUFF.1192 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 196;3 K jcn_only_AA CUFF.1178 chr17 - chr17:57775340-57784731 chr17:57777551-57784731 chr17:57775340-57777550 chr17:57775339-57775340 7;15 N alternative_acceptor CUFF.1139 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 71;0 N alternative_donor CUFF.1182 chr17 + chr17:61907310-61907630 chr17:61907550-61907630 chr17:61907310-61907549 chr17:61907309-61907310 28;349 K intron_retention CUFF.1192 chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 149;20 K intron_retention CUFF.1178 chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 20;5 N cassette CUFF.1204 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 7;138 N alternative_donor CUFF.1203 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 109;11 K alternative_last_exon CUFF.1197 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258650-79258695 chr17:79262533-79262745 19;39 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 19;32 N alternative_donor CUFF.1200 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 11;0 K intron_retention CUFF.1183 chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 3;10 N jcn_only_AA CUFF.1155 chr17 + chr17:29664899-29665042;chr17:29664899-29667522 chr17:29664899-29665019 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 27;5 K intron_retention CUFF.1137 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 37;13 N alternative_donor CUFF.1155 chr17 + chr17:29664899-29667522 chr17:29665824-29667522 chr17:29664899-29665823 chr17:29664898-29664899 12;5 N alternative_last_exon CUFF.1136 chr17 - chr17:1615941-1617149,chr17:1616199-1617149;chr17:1615694-1617149 chr17:1616190-1617149,chr17:1616350-1617149 chr17:1614805-1615693 chr17:1615705-1616189 105;65 N alternative_first_exon CUFF.1192 chr17 + chr17:66509112-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66507921-66508283 chr17:66508950-66509119 12;5 K jcn_only_AD CUFF.1137 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 158;10 N jcn_only_AD CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40760677 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 73;19 N alternative_acceptor CUFF.1204 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 20;133 N cassette CUFF.1198 chr17 - chr17:79354385-79358928;chr17:79355741-79358928 chr17:79355741-79358745,chr17:79354385-79358745;chr17:79358833-79358928 chr17:79358746-79358832 35;120 N cassette CUFF.1195 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 3;151 N alternative_acceptor CUFF.1173 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 72;241 K alternative_last_exon CUFF.1144 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491700-15492541 6;16 N alternative_donor CUFF.1164 chr17 - chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40762554 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 28;5 N cassette CUFF.1201 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 19;96 N alternative_acceptor CUFF.1177 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 613;14 K jcn_only_AA CUFF.1158 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 7;9 N alternative_donor CUFF.1179 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 9;0 N jcn_only_AD CUFF.1164 chr17 - chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40762554 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 87;5 N jcn_only_AA chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 104;4 N alternative_donor CUFF.1155 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 25;15 K alternative_first_exon CUFF.1164,CUFF.1203 chr17 - chr17:40738156-40739851;chr17:40738156-40761103 chr17:40738156-40738782 chr17:40761104-40761486 chr17:40738783-40739063 41;86 N jcn_only_AD CUFF.1179 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 15;5 N jcn_only_AD CUFF.1179 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 14;6 N jcn_only_AD CUFF.1204 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 220;10 N jcn_only_AD CUFF.1180 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 199;24 K cassette CUFF.1171 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 12;19 K intron_retention CUFF.1136 chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 90;156 N alternative_donor CUFF.1195 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 76;2 N alternative_acceptor CUFF.1192 chr17 + chr17:66508690-66511534 chr17:66508690-66509050 chr17:66509051-66511534 chr17:66511534-66511535 55;8 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 8;151 N alternative_acceptor CUFF.1182 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 1211;7 K intron_retention CUFF.1182 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 68;30 N alternative_donor CUFF.1140 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 136;2 K alternative_first_exon CUFF.1204 chr17 + chr17:80417325-80417867,chr17:80416385-80417867,chr17:80417000-80417867;chr17:80416394-80417867 chr17:80416707-80417867 chr17:80415966-80416393 chr17:80416516-80416706 113;228 N cassette CUFF.1198 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 34;117 N jcn_only_AD chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 14;46 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 158;23 N alternative_donor CUFF.1200 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 1;10 K cassette CUFF.1136 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 237;170 N intron_retention CUFF.1201 chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 3;33 K cassette CUFF.1171 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 12;19 K intron_retention CUFF.1169 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 10;8 N cassette CUFF.1140 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 5;69 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 30;32 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908587 chr17:61908169-61908295 9;626 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 4;149 K intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 99;7 N jcn_only_AA chr17 - chr17:40738156-40739851 chr17:40738910-40739851 13;37 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 40;132 K intron_retention CUFF.1171 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 20;9 N alternative_donor CUFF.1182 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 41;38 N cassette CUFF.1180 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 30;163 N alternative_acceptor CUFF.1182 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 10;6 N alternative_donor CUFF.1179 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 9;0 N jcn_only_AD chr17 + chr17:61904875-61905497 chr17:61905284-61905497 61;36 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 2;29 N jcn_only_AD CUFF.1137 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 5;39 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 6;22 N jcn_only_AD CUFF.1164,CUFF.1177 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 18;9 N alternative_acceptor CUFF.1155 chr17 + chr17:29664899-29665019;chr17:29664899-29667522 chr17:29664899-29665042 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 13;4 K intron_retention CUFF.1155 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 41;2 K intron_retention CUFF.1152 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 23;3 N alternative_donor CUFF.1137 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 5;23 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 264;98 K alternative_first_exon CUFF.1154 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421905-29422387 chr17:29455412-29455525 15;26 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 5;10 N alternative_acceptor CUFF.1140 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 159;2 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 41;24 N jcn_only_AD chr17 - chr17:40748646-40762554 chr17:40748646-40757265 12;22 N alternative_acceptor CUFF.1180 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 13;69 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 20;6 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 6;20 N jcn_only_AA CUFF.1145,CUFF.1155 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 15;3 N jcn_only_AD CUFF.1203 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 149;11 N coord_cassette CUFF.1143 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 3;37 N jcn_only_AD CUFF.1139 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 5;19 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 11;161 N alternative_donor CUFF.1191 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 2;0 K intron_retention CUFF.1143 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 235;32 N jcn_only_AA CUFF.1180 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 209;19 N jcn_only_AD chr17 + chr17:61905570-61907211 chr17:61906924-61907211 9;119 N jcn_only_AD CUFF.1204 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 279;9 K cassette CUFF.1197 chr17 - chr17:79220862-79225292 chr17:79220862-79223869;chr17:79223894-79225292 chr17:79223870-79223893 17;8 K alternative_first_exon CUFF.1170 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685737 chr17:46710876-46710987 chr17:46684592-46685457 25;6 N jcn_only_AD CUFF.1137 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 34;10 N alternative_donor CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40760677;chr17:40744181-40748550;chr17:40744181-40761103 chr17:40744181-40761515 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 32;1 N intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 112;216 K intron_retention CUFF.1203 chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 49;45 K alternative_donor CUFF.1137 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 158;53 K intron_retention CUFF.1197 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 17;20 N jcn_only_AA CUFF.1143 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 235;12 N jcn_only_AA chr17 + chr17:29687722-29701030 chr17:29687722-29694242 18;3 N coord_cassette CUFF.1152 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 2;41 K jcn_only_AA CUFF.1203 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 137;116 K jcn_only_AD CUFF.1201 chr17 - chr17:79894738-79895137 chr17:79894738-79895133 chr17:79895134-79895137 chr17:79895137-79895138 38;43 N jcn_only_AD CUFF.1182 chr17 + chr17:61907310-61907630 chr17:61907550-61907630 chr17:61907310-61907549 chr17:61907309-61907310 28;545 K intron_retention CUFF.1192 chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 55;11 N alternative_acceptor CUFF.1182 chr17 + chr17:61904884-61907492 chr17:61904884-61904979 chr17:61904980-61907492 chr17:61907492-61907493 41;66 K intron_retention CUFF.1177 chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 613;11 K intron_retention CUFF.1164 chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 27;14 N alternative_acceptor chr17 + chr17:29664899-29665042;chr17:29664899-29665019 chr17:29664899-29667522 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 5;12 N alternative_donor CUFF.1203 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 192;15 N jcn_only_AD CUFF.1180 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 222;3 N jcn_only_AA chr17 + chr17:29664899-29665042;chr17:29664899-29665019 chr17:29664899-29667522 chr17:29665020-29665042;chr17:29665043-29667522 chr17:29665042-29665043;chr17:29667522-29667523 20;12 N cassette CUFF.1204 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 108;181 N coord_cassette CUFF.1195 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 27;51 N jcn_only_AD chr17 + chr17:29687722-29701030 chr17:29694297-29701030 18;4 N cassette CUFF.1152 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 14;25 N alternative_acceptor CUFF.1180 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 201;6 N jcn_only_AD CUFF.1164 chr17 - chr17:40744181-40762554;chr17:40744181-40761515;chr17:40744181-40760677;chr17:40744181-40748550 chr17:40744181-40761103 chr17:40748551-40760677;chr17:40760678-40761103;chr17:40761104-40761515;chr17:40761516-40762554 chr17:40760677-40760678;chr17:40761103-40761104;chr17:40761515-40761516;chr17:40762554-40762555 43;49 N intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 12;158 N alternative_donor chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 22;98 N intron_retention CUFF.1192 chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 5;15 K intron_retention CUFF.1200 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 47;6 K alternative_last_exon CUFF.1140 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353682-6354789 chr17:6353559-6353612 17;45 K cassette CUFF.1139 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 20;33 N jcn_only_AD chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 55;5 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 23;3 N alternative_donor CUFF.1204 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 237;11 N jcn_only_AA chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 14;9 K alternative_acceptor CUFF.1203 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 137;136 K alternative_donor CUFF.1203 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 49;164 N alternative_acceptor CUFF.1136 chr17 - chr17:1616190-1617149 chr17:1616350-1617149 chr17:1616190-1616349 chr17:1616189-1616190 90;59 N jcn_only_AD CUFF.1195 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77004145-77005745 chr17:77005745-77005746 76;16 N jcn_only_AA chr17 + chr17:61905570-61907211 chr17:61905570-61906853 9;104 N jcn_only_AD CUFF.1155 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 36;7 N coord_cassette CUFF.1143 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178 chr17:15562116-15562190;chr17:15580490-15580594 22;11 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 10;1 N jcn_only_AA CUFF.1139 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 84;2 N alternative_acceptor CUFF.1137 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 40;8 N mutually_exclusive CUFF.1201 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 2;3 N jcn_only_AA CUFF.1143 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 192;25 N jcn_only_AA chr17 + chr17:61562734-61563652;chr17:61562734-61563719 chr17:61562734-61563917 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 29;199 N alternative_donor CUFF.1201 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 11;4 K intron_retention CUFF.1203 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 344;69 N alternative_acceptor chr17 - chr17:40761746-40762554;chr17:40744181-40762554 chr17:40748646-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 6;0 K intron_retention CUFF.1152 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 66;12 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 102;91 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 0;6 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 6;299 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 36;26 N jcn_only_AD CUFF.1180 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 161;17 K intron_retention CUFF.1180 chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 4;119 K jcn_only_AA CUFF.1180 chr17 + chr17:61564435-61566008 chr17:61564435-61565930 chr17:61565931-61566008 chr17:61566008-61566009 85;126 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 5;6 N cassette CUFF.1143 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 3;28 N jcn_only_AA CUFF.1152 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 42;27 N jcn_only_AD CUFF.1155 chr17 + chr17:29576138-29584704 chr17:29580019-29584704 chr17:29576138-29580018 chr17:29576137-29576138 10;21 N alternative_acceptor CUFF.1173 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 256;57 K intron_retention CUFF.1180 chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 7;17 N jcn_only_AD CUFF.1180 chr17 + chr17:61562428-61562596;chr17:61561903-61562596 chr17:61562331-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 138;40 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 90;18 K intron_retention CUFF.1180 chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 40;54 N jcn_only_AD CUFF.1164 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 28;37 N jcn_only_AA CUFF.1201 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 38;221 N jcn_only_AA CUFF.1173 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 304;57 N jcn_only_AD CUFF.1155 chr17 + chr17:29664899-29667522 chr17:29665824-29667522 chr17:29664899-29665823 chr17:29664898-29664899 12;27 K cassette CUFF.1167 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 18;50 N alternative_acceptor CUFF.1203 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 313;33 N cassette CUFF.1143 chr17 - chr17:15546131-15562115;chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15580489,chr17:15555261-15562115 chr17:15554405-15555260 28;34 N jcn_only_AD CUFF.1201 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 191;6 N alternative_donor CUFF.1204 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 220;13 N alternative_acceptor CUFF.1173 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 298;15 K alternative_first_exon CUFF.1178 chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57784732-57785060 chr17:57776232-57777550 5;39 K alternative_first_exon CUFF.1169 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339523 21;55 K intron_retention CUFF.1198 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 188;2 N cassette CUFF.1137 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 3;31 N cassette CUFF.1160 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 30;6 K intron_retention CUFF.1203 chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 116;38 N coord_cassette CUFF.1201 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 15;86 K alternative_donor CUFF.1201 chr17 - chr17:79894738-79895137 chr17:79894738-79895133 chr17:79895134-79895137 chr17:79895137-79895138 38;27 N alternative_donor CUFF.1200 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 11;0 N jcn_only_AA CUFF.1155 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 36;4 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 88;20 N jcn_only_AA CUFF.1164 chr17 - chr17:40744181-40761103;chr17:40757310-40761103 chr17:40738156-40761103 72;27 K alternative_donor CUFF.1136,CUFF.1161 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 90;166 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 28;3 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 8;42 K intron_retention CUFF.1204 chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 59;13 N jcn_only_AD CUFF.1180 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 159;39 N jcn_only_AA CUFF.1203 chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 113;143 N jcn_only_AD CUFF.1197,CUFF.1200 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 66;6 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 40;186 N alternative_donor CUFF.1164,CUFF.1177 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 18;5 N jcn_only_AA CUFF.1200 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 6;87 N alternative_donor CUFF.1139 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5403351-5405056 chr17:5405056-5405057 5;17 N alternative_acceptor CUFF.1197 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250934-79253960 chr17:79250933-79250934 22;20 N alternative_donor CUFF.1204 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 279;1 N alternative_donor CUFF.1180 chr17 + chr17:61562331-61562596;chr17:61562428-61562596 chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 80;17 N alternative_acceptor chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 7;108 N jcn_only_AA CUFF.1180 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 13;71 N jcn_only_AA chr17 - chr17:40761746-40762554;chr17:40744181-40762554 chr17:40748646-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 10;12 N jcn_only_AD CUFF.1204 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 237;6 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 20;33 K intron_retention CUFF.1182 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 545;3 N intron_retention CUFF.1201 chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 4;39 N intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 104;13 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 6;13 K cassette CUFF.1197 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 12;11 K alternative_acceptor CUFF.1158 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 7;4 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 11;187 N jcn_only_AA CUFF.1177 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 613;23 N alternative_donor chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307830-47307938 chr17:47307938-47307939 15;282 N alternative_acceptor CUFF.1197 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 2;39 N intron_retention CUFF.1137 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 5;7 N coord_cassette CUFF.1195 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 13;51 N alternative_acceptor CUFF.1152 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 42;3 K intron_retention CUFF.1203 chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 313;48 K jcn_only_AA CUFF.1144 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 18;13 N cassette CUFF.1195 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 209;80 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 5;4 N jcn_only_AD CUFF.1182 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61904884-61907309 chr17:61904883-61904884 41;112 N jcn_only_AA CUFF.1180 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 7;7 N alternative_donor CUFF.1180 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 159;53 K intron_retention CUFF.1137 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 40;12 K intron_retention CUFF.1201 chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 43;37 N jcn_only_AD CUFF.1200 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 79;6 N coord_cassette CUFF.1204 chr17 + chr17:80426773-80436675 chr17:80426773-80430439;chr17:80430575-80436446;chr17:80436544-80436675 chr17:80430440-80430574;chr17:80436447-80436543 37;79 N alternative_acceptor CUFF.1155 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 36;1 N jcn_only_AA CUFF.1136 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 159;3 N jcn_only_AA CUFF.1203 chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 244;11 N jcn_only_AA CUFF.1173 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 98;264 N alternative_donor CUFF.1180 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 199;5 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 40;99 K cassette CUFF.1145 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 22;12 N alternative_donor CUFF.1179 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 0;9 N jcn_only_AD CUFF.1180 chr17 + chr17:61562331-61562596;chr17:61561903-61562596 chr17:61562428-61562596 chr17:61561903-61562330;chr17:61562331-61562427 chr17:61561902-61561903;chr17:61562330-61562331 57;121 N intron_retention chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 23;11 N alternative_donor CUFF.1155 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 36;7 N jcn_only_AA CUFF.1139 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 8;77 K alternative_last_exon CUFF.1203 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79992994-79993121 chr17:79993755-79993939 48;126 N alternative_donor CUFF.1137 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 34;4 K intron_retention CUFF.1204 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 237;33 N jcn_only_AD CUFF.1203 chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 148;12 N alternative_acceptor CUFF.1180 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 205;2 N alternative_donor CUFF.1140 chr17 + chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724 chr17:6348662-6348663 26;122 K intron_retention CUFF.1141 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 5;5 N alternative_donor CUFF.1136 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 63;163 N jcn_only_AA CUFF.1182 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 1211;12 K alternative_first_exon CUFF.1144,CUFF.1173 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499978 chr17:15496651-15496809 13;18 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 158;56 N cassette CUFF.1143 chr17 - chr17:15546131-15584178;chr17:15562191-15584178 chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178 chr17:15580490-15580594 140;57 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 51;19 N coord_cassette CUFF.1143 chr17 - chr17:15546131-15580489 chr17:15546131-15554404;chr17:15555261-15562115;chr17:15562191-15580489 chr17:15554405-15555260;chr17:15562116-15562190 12;38 N jcn_only_AD CUFF.1200 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 76;10 N jcn_only_AA chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 7;220 N intron_retention chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 9;20 N jcn_only_AA CUFF.1180 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 218;10 N jcn_only_AD CUFF.1201 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 193;4 K intron_retention CUFF.1203 chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 143;91 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 6;24 N intron_retention CUFF.1182 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 12;16 N alternative_acceptor CUFF.1192 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 196;7 N jcn_only_AD CUFF.1203 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 194;30 K alternative_last_exon CUFF.1178 chr17 - chr17:57777238-57784731;chr17:57756906-57784731 chr17:57775340-57784731,chr17:57777551-57784731 chr17:57756728-57756905 chr17:57774661-57775339 14;28 N alternative_donor CUFF.1200 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 11;0 N jcn_only_AA CUFF.1136 chr17 - chr17:1616190-1617149 chr17:1616350-1617149 chr17:1616190-1616349 chr17:1616189-1616190 90;40 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 63;159 N jcn_only_AA chr17 - chr17:40744181-40762554;chr17:40748646-40762554 chr17:40761746-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 17;5 N jcn_only_AD chr17 + chr17:61560051-61560820 chr17:61560535-61560820 8;16 N cassette CUFF.1195 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 207;116 K intron_retention CUFF.1180 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 121;21 N alternative_acceptor chr17 - chr17:40744181-40762554;chr17:40748646-40762554 chr17:40761746-40762554 chr17:40744181-40748645;chr17:40748646-40761745 chr17:40744180-40744181;chr17:40748645-40748646 5;1 N alternative_donor CUFF.1200 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 11;0 K intron_retention CUFF.1201 chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 38;37 N cassette CUFF.1143 chr17 - chr17:15546131-15584178;chr17:15555261-15580489;chr17:15546131-15580489 chr17:15546131-15562115,chr17:15555261-15562115;chr17:15562191-15580489,chr17:15562191-15584178 chr17:15562116-15562190 46;139 N alternative_first_exon CUFF.1171 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985731-46986182 chr17:46990196-46990327 5;26 N alternative_acceptor chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 14;4 N intron_retention chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 20;26 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 6;28 K intron_retention CUFF.1167 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 70;10 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 32;53 K cassette CUFF.1168 chr17 - chr17:42113669-42114779 chr17:42113669-42114229;chr17:42114471-42114779 chr17:42114230-42114470 4;7 K alternative_first_exon CUFF.1181 chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61851972-61852136 chr17:61850772-61851199 17;43 N jcn_only_AD chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 23;137 N alternative_donor CUFF.1203 chr17 - chr17:79993940-79994066;chr17:79993940-79994022 chr17:79993940-79994057 chr17:79994023-79994057;chr17:79994058-79994066 chr17:79994057-79994058;chr17:79994066-79994067 201;6 K coord_cassette CUFF.1096 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 95;30 K cassette CUFF.1111 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 16;6 K cassette CUFF.1075 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 5;10 N alternative_donor CUFF.1099 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 41;68 N alternative_donor CUFF.1081 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 38;58 N jcn_only_AD CUFF.1090 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 11;6 N alternative_acceptor CUFF.1115,CUFF.1119 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 114;13 N jcn_only_AA chr16 + chr16:31374696-31382404 chr16:31374696-31381301 9;5 K cassette CUFF.1114 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 2;23 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 23;3 N alternative_acceptor chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 6;36 K intron_retention CUFF.1103 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 15;13 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 214;18 N intron_retention CUFF.1081 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 13;37 N jcn_only_AD chr16 + chr16:31374696-31382404 chr16:31381420-31382404 9;3 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 3;39 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 227;5 K intron_retention CUFF.1081 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 66;11 N cassette CUFF.1073 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 20;73 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 6;21 N jcn_only_AD CUFF.1119 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 105;7 K alternative_first_exon CUFF.1070 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190733-2190950 chr16:2198793-2198979 9;25 K intron_retention CUFF.1095 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 40;8 N alternative_acceptor CUFF.1081 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 160;0 N jcn_only_AA CUFF.1092 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 55;29 N jcn_only_AA chr16 + chr16:19592976-19612985;chr16:19592976-19603111 chr16:19592976-19598714 38;12 N jcn_only_AA CUFF.1062 chr16 + chr16:31383992-31388119 chr16:31383992-31384569 5;9 N jcn_only_AD CUFF.1092 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 6;60 K intron_retention CUFF.1132 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 112;7 K intron_retention CUFF.1132 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 101;21 N coord_cassette CUFF.1126 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 14;37 K intron_retention CUFF.1118 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 10;17 K alternative_first_exon CUFF.1105 chr16 + chr16:56269297-56309842;chr16:56227625-56309842;chr16:56260484-56309842 chr16:56226529-56309842 chr16:56227504-56227624;chr16:56260261-56260483 chr16:56226486-56226528 38;3 K alternative_acceptor CUFF.1131 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 5;3 K intron_retention CUFF.1099 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 143;137 N jcn_only_AD CUFF.1115 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 9;98 N jcn_only_AD CUFF.1059 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 10;15 N cassette CUFF.1081 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 8;174 N coord_cassette CUFF.1092 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 30;152 N coord_cassette CUFF.1126 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77769724;chr16:77769884-77775478 chr16:77759328-77759481;chr16:77769725-77769883 14;36 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 10;59 N jcn_only_AA CUFF.1092 chr16 + chr16:19586445-19589625;chr16:19586445-19590373 chr16:19586445-19592846 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 29;18 N alternative_donor CUFF.1095 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693147-21695873 chr16:21693146-21693147 3;2 N alternative_acceptor CUFF.1095 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 65;0 K cassette CUFF.1123 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 69;57 K intron_retention CUFF.1119 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 27;86 K alternative_first_exon CUFF.1132 chr16 + chr16:89788254-89788938;chr16:89786991-89788938 chr16:89787685-89788938 chr16:89787878-89788253;chr16:89786808-89786990 chr16:89787353-89787684 73;15 N jcn_only_AA CUFF.1092 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 45;3 K cassette CUFF.1081 chr16 - chr16:4463406-4466459 chr16:4463406-4465715;chr16:4465854-4466459 chr16:4465716-4465853 160;13 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 12;4 N jcn_only_AA CUFF.1060,CUFF.1073 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 24;4 K jcn_only_AD CUFF.1081 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 138;98 N alternative_acceptor CUFF.1110 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 287;13 N alternative_acceptor chr16 + chr16:19586445-19589625;chr16:19586445-19592846 chr16:19586445-19590373 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 26;7 N jcn_only_AD chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 10;6 K intron_retention CUFF.1103 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 25;14 K jcn_only_AA CUFF.1059 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 15;64 K cassette CUFF.1087 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 14;50 K jcn_only_AD CUFF.1118 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 38;14 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 111;45 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 225;6 K cassette CUFF.1126 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77775478 chr16:77769725-77769883 23;56 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 49;21 N alternative_donor chr16 - chr16:4254636-4289634 chr16:4254636-4256727 chr16:4256728-4289634 chr16:4289634-4289635 10;0 N alternative_acceptor CUFF.1081 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 4;3 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 224;7 K alternative_acceptor CUFF.1118 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 13;10 N cassette CUFF.1096 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 95;29 K cassette CUFF.1115 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 36;48 N alternative_donor CUFF.1095 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 65;0 K alternative_acceptor CUFF.1132 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 7;40 K cassette CUFF.1059 chr16 + chr16:105883-106538 chr16:105883-106320;chr16:106421-106538 chr16:106321-106420 45;10 N alternative_acceptor CUFF.1105 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 4;0 K intron_retention CUFF.1103 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 47;4 K alternative_donor CUFF.1132 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 62;32 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 42;28 K jcn_only_AD CUFF.1114 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 19;31 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 221;10 K cassette CUFF.1115 chr16 + chr16:67233660-67234094 chr16:67233660-67233853;chr16:67233905-67234094 chr16:67233854-67233904 3;58 N alternative_donor CUFF.1092 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 6;30 K intron_retention CUFF.1070 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 81;31 K intron_retention CUFF.1065 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 4;5 K coord_cassette CUFF.1126 chr16 + chr16:77759482-77775478 chr16:77759482-77769724;chr16:77769884-77770546;chr16:77770641-77775478 chr16:77769725-77769883;chr16:77770547-77770640 23;32 K intron_retention CUFF.1123 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 82;39 N jcn_only_AA CUFF.1105 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 11;8 N mutually_exclusive CUFF.1119 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 10;12 K intron_retention CUFF.1096 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 89;15 K cassette CUFF.1123 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 61;29 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 27;6 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 33;0 N intron_retention CUFF.1070 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 26;16 K alternative_first_exon CUFF.1132 chr16 + chr16:89787685-89788938;chr16:89788254-89788938 chr16:89786991-89788938 chr16:89787353-89787684;chr16:89787878-89788253 chr16:89786808-89786990 68;20 K alternative_first_exon CUFF.1105 chr16 + chr16:56269297-56309842;chr16:56227625-56309842;chr16:56226529-56309842 chr16:56260484-56309842 chr16:56227504-56227624;chr16:56226486-56226528 chr16:56260261-56260483 25;16 N alternative_acceptor CUFF.1092 chr16 + chr16:19586445-19590373;chr16:19586445-19592846 chr16:19586445-19589625 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 25;8 N intron_retention CUFF.1099 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 14;194 N mutually_exclusive CUFF.1073 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 4;21 N coord_cassette CUFF.1073 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 1;120 K jcn_only_AA CUFF.1131 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 5;6 N alternative_donor CUFF.1123 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 72;2 N jcn_only_AD CUFF.1092 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 122;205 N coord_cassette CUFF.1096 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 22;53 K alternative_acceptor CUFF.1115 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 25;27 K jcn_only_AD CUFF.1095 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 14;2 K jcn_only_AD CUFF.1118 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 9;24 N mutually_exclusive CUFF.1103 chr16 - chr16:30005130-30006423,chr16:30006785-30006861 chr16:30005130-30005226,chr16:30006165-30006861 chr16:30006424-30006784 chr16:30005227-30006164 22;7 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 4;10 N alternative_donor CUFF.1099 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 65;109 N intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 5;34 K jcn_only_AA CUFF.1115 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 25;56 N cassette CUFF.1090 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 2;15 N alternative_first_exon chr16 - chr16:4445341-4466785,chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466786-4466962 chr16:4455492-4455581 44;108 K jcn_only_AA CUFF.1118 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 13;21 K intron_retention CUFF.1099 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 41;191 K alternative_acceptor CUFF.1087 chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 19;13 N alternative_donor CUFF.1095 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 41;7 N alternative_donor CUFF.1090 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 11;2 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 8;6 N alternative_donor CUFF.1073 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 80;30 N jcn_only_AA chr16 + chr16:31383106-31383917 chr16:31383106-31383698 4;11 K alternative_acceptor CUFF.1114 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 23;12 N alternative_donor CUFF.1123 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 119;25 N alternative_donor CUFF.1092 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 10;4 K cassette CUFF.1126 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 21;23 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 12;53 N jcn_only_AA chr16 + chr16:56226529-56268924;chr16:56226529-56247183 chr16:56226529-56309842 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 15;4 K alternative_acceptor CUFF.1059 chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 15;33 N cassette CUFF.1083 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 13;378 N jcn_only_AD chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 9;211 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 6;21 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 9;27 N cassette CUFF.1073 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 6;145 N jcn_only_AD CUFF.1081 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 38;13 N cassette CUFF.1098 chr16 + chr16:22448814-22466022 chr16:22448814-22462940;chr16:22462980-22466022 chr16:22462941-22462979 2;9 N jcn_only_AD CUFF.1073 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 101;40 K intron_retention CUFF.1081 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 95;33 K intron_retention CUFF.1116 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 12;12 N jcn_only_AD CUFF.1099 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 41;14 N coord_cassette CUFF.1081 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 11;221 K intron_retention CUFF.1096 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 40;9 K jcn_only_AA CUFF.1114 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 23;15 N alternative_acceptor CUFF.1104 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 16;6 N coord_cassette CUFF.1096 chr16 + chr16:21964778-21974081 chr16:21964778-21968555;chr16:21968640-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968556-21968639;chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 12;86 K alternative_first_exon CUFF.1095 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716228-21716358 15;28 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 5;23 N cassette CUFF.1119 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 18;24 N jcn_only_AA CUFF.1110 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 287;37 K intron_retention CUFF.1132 chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 66;5 N jcn_only_AA CUFF.1099 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 208;41 N jcn_only_AA CUFF.1081 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 160;6 N jcn_only_AD CUFF.1105 chr16 + chr16:56370773-56388777 chr16:56385450-56388777 6;41 K intron_retention CUFF.1116 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 16;12 K jcn_only_AD CUFF.1118 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 10;30 K coord_cassette CUFF.1119 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 93;23 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 15;18 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 4;21 N jcn_only_AA CUFF.1114 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 65;10 N intron_retention chr16 + chr16:31371785-31372383 chr16:31371784-31371785;chr16:31372383-31372384 4;3 K intron_retention CUFF.1059 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 14;13 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 213;18 K intron_retention CUFF.1096 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 154;3 K jcn_only_AA CUFF.1114 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 19;39 K cassette CUFF.1070 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 39;11 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 18;27 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 228;4 K jcn_only_AD CUFF.1114,CUFF.1118 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 20;27 N jcn_only_AA chr16 + chr16:19592976-19612985;chr16:19592976-19598714 chr16:19592976-19603111 21;29 N cassette CUFF.1073 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 16;133 N jcn_only_AD CUFF.1099 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 232;168 N jcn_only_AD chr16 + chr16:31383106-31383917 chr16:31383831-31383917 4;10 N alternative_acceptor CUFF.1092 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 45;6 N jcn_only_AD CUFF.1123 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 72;9 N jcn_only_AA CUFF.1092 chr16 + chr16:19586445-19590373;chr16:19586445-19592846 chr16:19586445-19589625 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 32;15 N jcn_only_AA CUFF.1115,CUFF.1119 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 114;9 N cassette CUFF.1081 chr16 - chr16:4466963-4475478 chr16:4466963-4470359;chr16:4470555-4475478 chr16:4470360-4470554 3;31 N alternative_acceptor CUFF.1092 chr16 + chr16:19586445-19589625;chr16:19586445-19590373 chr16:19586445-19592846 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 15;18 N alternative_acceptor chr16 + chr16:56226529-56268924;chr16:56226529-56247183 chr16:56226529-56309842 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 0;4 N jcn_only_AD CUFF.1081 chr16 - chr16:4445341-4466785 chr16:4445341-4466459 chr16:4466460-4466785 chr16:4466785-4466786 22;35 N coord_cassette CUFF.1092 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 4;92 N jcn_only_AD CUFF.1098 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 9;3 K alternative_last_exon CUFF.1086 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660299-5660675 7;41 N jcn_only_AA chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 6;161 N jcn_only_AA CUFF.1095 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 65;2 N intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 29;11 N jcn_only_AD CUFF.1099 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 392;8 N jcn_only_AA chr16 + chr16:19586445-19589625;chr16:19586445-19592846 chr16:19586445-19590373 chr16:19589626-19590373;chr16:19590374-19592846 chr16:19590373-19590374;chr16:19592846-19592847 33;14 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 222;10 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 168;22 N alternative_donor CUFF.1073 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 70;40 N alternative_acceptor CUFF.1070 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 107;24 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 82;149 N alternative_donor CUFF.1119 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380952-70381893 chr16:70380951-70380952 105;1 N coord_cassette CUFF.1103 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 10;22 N alternative_donor chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23521642-23530907 chr16:23530907-23530908 9;13 K alternative_donor CUFF.1118 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 38;12 N jcn_only_AD CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 220;12 K alternative_donor CUFF.1099,CUFF.1118 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 26;12 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 6;19 K jcn_only_AA CUFF.1072 chr16 + chr16:2653729-2663960 chr16:2653729-2660462 7;2 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 5;3 N jcn_only_AA CUFF.1105 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 12;7 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 6;6 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 10;51 N jcn_only_AD CUFF.1095 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693147-21695873 chr16:21693146-21693147 3;9 N cassette CUFF.1110 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 6;124 N alternative_donor CUFF.1073 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 75;35 N jcn_only_AD CUFF.1095 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 41;4 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 29;4 K alternative_donor CUFF.1114,CUFF.1118 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 20;19 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 54;43 N jcn_only_AA CUFF.1104 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 16;4 K cassette CUFF.1096 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 38;66 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 72;197 K intron_retention CUFF.1059 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 45;9 N coord_cassette CUFF.1081 chr16 - chr16:4455569-4462356 chr16:4455569-4457562;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457563-4457685;chr16:4458182-4458252 11;224 K cassette CUFF.1090 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 3;153 K alternative_last_exon CUFF.1101 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097989-25098044;chr16:25111842-25112006 chr16:25096909-25097093 38;9 N alternative_acceptor CUFF.1105 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 4;0 K intron_retention CUFF.1114 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 7;34 K alternative_donor CUFF.1081 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 138;80 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 9;3 N alternative_acceptor CUFF.1099 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 187;63 K intron_retention CUFF.1087 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 14;20 N cassette CUFF.1081 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 31;167 K intron_retention CUFF.1119 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 33;7 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 6;20 K intron_retention CUFF.1081 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 84;3 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 28;5 K intron_retention CUFF.1087 chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 19;20 N jcn_only_AA CUFF.1098 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 12;2 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 3;43 N alternative_acceptor CUFF.1092 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 55;1 N cassette CUFF.1119 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 93;30 N alternative_donor CUFF.1073 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 105;5 K alternative_first_exon CUFF.1132 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89787353-89787684;chr16:89786808-89786990 chr16:89787878-89788253 35;53 K intron_retention CUFF.1059 chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 11;14 N jcn_only_AA CUFF.1081 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4412133-4438632 chr16:4412132-4412133 4;183 K cassette CUFF.1112 chr16 + chr16:66613796-66620899 chr16:66613796-66613928;chr16:66614088-66620899 chr16:66613929-66614087 chr16:66613351-66613795;chr16:66620900-66621001 3;36 K alternative_last_exon CUFF.1125 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170206-76170263 chr16:76174260-76174301 20;28 N alternative_donor CUFF.1081 chr16 - chr16:4445341-4466785 chr16:4445341-4466459 chr16:4466460-4466785 chr16:4466785-4466786 22;90 K cassette CUFF.1103 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 20;13 K alternative_donor CUFF.1131 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 12;11 K jcn_only_AA CUFF.1132 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 7;66 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 40;30 K intron_retention CUFF.1081 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 38;39 K alternative_last_exon CUFF.1101 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096909-25097093;chr16:25111842-25112006 chr16:25097989-25098044 36;11 K intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 168;7 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 22;13 K intron_retention CUFF.1081 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 80;7 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 10;6 N intron_retention CUFF.1104 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 4;5 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 6;22 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 65;169 N jcn_only_AD CUFF.1073 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 104;37 N jcn_only_AA CUFF.1092 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 9;48 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 33;0 K alternative_last_exon CUFF.1101 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097989-25098044;chr16:25096909-25097093 chr16:25111842-25112006 20;27 N jcn_only_AA chr16 + chr16:19592976-19598714;chr16:19592976-19603111 chr16:19592976-19612985 41;9 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 24;3 N cassette CUFF.1083 chr16 + chr16:4526489-4555484 chr16:4526489-4533637;chr16:4533756-4555484 chr16:4533638-4533755 19;357 N cassette CUFF.1119 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 4;102 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 136;55 K cassette CUFF.1081 chr16 - chr16:4407261-4408367 chr16:4407261-4407968;chr16:4408105-4408367 chr16:4407969-4408104 10;66 N jcn_only_AD CUFF.1099 chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 176;224 K jcn_only_AD CUFF.1131 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812414-87812592 chr16:87812592-87812593 12;11 N cassette CUFF.1096 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 28;90 N jcn_only_AD CUFF.1095 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 65;2 K jcn_only_AA CUFF.1116 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 21;63 N intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 6;20 N alternative_donor CUFF.1092 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 122;8 N jcn_only_AD CUFF.1073 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 87;54 K intron_retention CUFF.1083 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 757;4 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 3;28 N alternative_acceptor CUFF.1081 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 38;27 K alternative_acceptor CUFF.1116 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 21;34 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 5;196 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 20;32 N jcn_only_AA CUFF.1099 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 184;65 N alternative_donor CUFF.1099 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 166;8 K jcn_only_AA CUFF.1087 chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 19;12 N jcn_only_AD chr16 + chr16:19592976-19612985 chr16:19603197-19612985 9;96 N alternative_acceptor CUFF.1098 chr16 + chr16:22466187-22470675 chr16:22466187-22466770 chr16:22466771-22470675 chr16:22470675-22470676 12;0 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 10;22 N intron_retention chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 11;14 N jcn_only_AD CUFF.1092 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 10;62 N jcn_only_AD CUFF.1110 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 287;35 N alternative_acceptor CUFF.1099 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 209;41 N jcn_only_AA CUFF.1099 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 106;143 N jcn_only_AD chr16 + chr16:31383992-31388119 chr16:31384712-31388119 5;7 K jcn_only_AD CUFF.1099,CUFF.1118 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 26;25 K alternative_donor CUFF.1118 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 14;9 N alternative_acceptor CUFF.1092 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 10;6 K intron_retention CUFF.1132 chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 7;12 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 128;5 N coord_cassette CUFF.1096 chr16 + chr16:21964778-21974081 chr16:21964778-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 12;65 N mutually_exclusive CUFF.1073 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 13;5 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 6;4 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 12;74 N alternative_donor CUFF.1059 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 10;7 K jcn_only_AD CUFF.1132 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 62;70 N cassette CUFF.1073 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 9;106 N alternative_donor CUFF.1098 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 9;3 N cassette CUFF.1092 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 132;63 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 1;20 K alternative_donor CUFF.1071 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 121;6 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 5;107 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 49;21 N jcn_only_AD chr16 - chr16:4254636-4289634 chr16:4254636-4256727 chr16:4256728-4289634 chr16:4289634-4289635 10;3 K coord_cassette CUFF.1123 chr16 - chr16:75576582-75589701 chr16:75576582-75579249;chr16:75579394-75579723;chr16:75579853-75589701 chr16:75579250-75579393;chr16:75579724-75579852 69;19 K intron_retention CUFF.1119 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 12;5 N alternative_acceptor CUFF.1114 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 65;6 N alternative_donor CUFF.1099 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 117;57 K intron_retention CUFF.1087 chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 12;13 K intron_retention CUFF.1070 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 45;10 K intron_retention CUFF.1081 chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 60;71 N jcn_only_AA CUFF.1070 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 107;26 K alternative_donor CUFF.1115 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 52;20 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 4;22 K intron_retention CUFF.1070 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 107;19 K alternative_first_exon CUFF.1105 chr16 + chr16:56269297-56309842;chr16:56260484-56309842;chr16:56226529-56309842 chr16:56227625-56309842 chr16:56260261-56260483;chr16:56226486-56226528 chr16:56227504-56227624 25;16 N mutually_exclusive CUFF.1073 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 4;21 K jcn_only_AD CUFF.1118 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 14;18 K intron_retention CUFF.1116 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 55;9 N cassette CUFF.1126 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 14;50 N alternative_acceptor CUFF.1092 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 9;24 K alternative_last_exon CUFF.1075 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3195669-3195779 chr16:3194985-3195170 3;15 K jcn_only_AD CUFF.1071 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 121;13 K alternative_first_exon CUFF.1102 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523458 chr16:28518102-28518155 46;8 K cassette CUFF.1114 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 27;4 K mutually_exclusive CUFF.1115 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 3;32 N cassette CUFF.1092 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 5;22 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 15;19 N alternative_donor CUFF.1115 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 9;49 N cassette CUFF.1096 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 11;31 N jcn_only_AD CUFF.1073 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 132;10 K intron_retention CUFF.1123 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 119;12 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 33;0 K intron_retention CUFF.1112 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 14;24 K alternative_last_exon CUFF.1062 chr16 + chr16:583999-597558 chr16:583999-596816 chr16:597559-598264 chr16:596817-597392 19;12 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 4;59 K alternative_donor CUFF.1095 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 14;1 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 5;13 K jcn_only_AD CUFF.1115 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 52;42 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 37;39 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 33;0 N alternative_donor CUFF.1110 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 287;6 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 21;21 N alternative_acceptor CUFF.1060,CUFF.1073 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 24;12 N jcn_only_AA CUFF.1092 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 10;60 K alternative_donor CUFF.1118 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 9;12 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 21;30 N alternative_acceptor CUFF.1099 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 104;146 N jcn_only_AD CUFF.1123 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 119;47 N jcn_only_AA CUFF.1081 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 38;12 K intron_retention CUFF.1090 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 17;12 N alternative_donor CUFF.1110 chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 33;0 K intron_retention CUFF.1104 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 16;7 N jcn_only_AD CUFF.1019 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 62;51 N alternative_donor CUFF.1042 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 72;1 N alternative_acceptor chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 13;0 K cassette CUFF.993 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 74;5 K cassette CUFF.997 chr15 + chr15:40558697-40564424 chr15:40558697-40559123;chr15:40559199-40564424 chr15:40559124-40559198 25;8 N alternative_donor CUFF.1019 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 0;48 K intron_retention CUFF.1037 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 74;15 N jcn_only_AA CUFF.1034 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 16;2 N alternative_donor CUFF.1044 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 131;0 N alternative_donor CUFF.997 chr15 + chr15:40532004-40532799;chr15:40509869-40532799;chr15:40531337-40532799 chr15:40532297-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 2;0 N jcn_only_AA CUFF.1044 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 39;74 N alternative_first_exon CUFF.997 chr15 + chr15:40531337-40545378,chr15:40544465-40545378;chr15:40532883-40545378;chr15:40509869-40545378;chr15:40544893-40545378 chr15:40545216-40545378 chr15:40532694-40532882;chr15:40509629-40509868;chr15:40544723-40544892 chr15:40545063-40545215 150;24 K alternative_acceptor CUFF.1019 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 4;37 K alternative_last_exon CUFF.1007 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45753072 10;21 K alternative_first_exon CUFF.1037 chr15 + chr15:77713347-77750745,chr15:77750627-77750745;chr15:77713080-77750745 chr15:77713437-77750745 chr15:77712661-77713079 chr15:77713206-77713436 195;32 N alternative_donor CUFF.1044 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 131;0 N jcn_only_AA CUFF.1044 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 130;68 K cassette CUFF.1040 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 12;108 N alternative_first_exon CUFF.997 chr15 + chr15:40531337-40545378,chr15:40544465-40545378;chr15:40545216-40545378;chr15:40532883-40545378;chr15:40509869-40545378 chr15:40544893-40545378 chr15:40545063-40545215;chr15:40532694-40532882;chr15:40509629-40509868 chr15:40544723-40544892 151;23 N alternative_donor CUFF.1034 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 16;1 N cassette CUFF.1004 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 15;13 K cassette CUFF.1009 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 6;6 N cassette CUFF.1051 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 3;11 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 9;11 N jcn_only_AD CUFF.1050 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 5;20 N jcn_only_AA chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 27;9 N jcn_only_AA chr15 - chr15:90414779-90421496 chr15:90420657-90421496 chr15:90414779-90420656 chr15:90414778-90414779 12;14 K alternative_last_exon CUFF.1035 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779623-75780118 1;45 N jcn_only_AA CUFF.1044 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;5 N jcn_only_AA CUFF.1019 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 98;4 K alternative_first_exon CUFF.1057 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102211689-102211789 chr15:102204373-102204699 29;9 N jcn_only_AD CUFF.995 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 13;22 N cassette CUFF.1004 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 8;17 K alternative_last_exon CUFF.1050 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90421533-90431752 chr15:90414707-90414778 chr15:90421528-90421532 189;35 K cassette CUFF.1057 chr15 - chr15:102194934-102197124 chr15:102194934-102196069;chr15:102196224-102197124 chr15:102196070-102196223 46;11 K coord_cassette CUFF.1009 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47685518;chr15:47685683-47687757 chr15:47672654-47672792;chr15:47685519-47685682 6;2 N alternative_donor chr15 - chr15:90414779-90421496;chr15:90414779-90420537 chr15:90414779-90431752 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 1;142 N jcn_only_AD CUFF.1034 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 16;3 N alternative_donor CUFF.1034 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 29;1 K jcn_only_AD CUFF.1051 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 8;18 K alternative_first_exon CUFF.1007 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742275-45742488 chr15:45752644-45752767 29;20 N alternative_donor CUFF.1034 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 11;19 K jcn_only_AA CUFF.1010 chr15 - chr15:50793035-50821993 chr15:50793249-50821993 chr15:50793035-50793248 chr15:50793034-50793035 44;9 N alternative_donor CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66678987 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 13;13 K alternative_first_exon CUFF.988 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115256 chr15:23114586-23114689 37;201 N alternative_acceptor chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 6;8 N jcn_only_AD CUFF.1050 chr15 - chr15:90414779-90421496;chr15:90414779-90431752 chr15:90414779-90420537 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 154;74 N cassette CUFF.1005 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 4;48 N cassette CUFF.1026 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 6;62 N jcn_only_AD CUFF.1044 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 30;16 K alternative_first_exon CUFF.1014 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55488551-55488912 chr15:55487502-55487789 10;8 K jcn_only_AD CUFF.1030 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 245;73 N intron_retention chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 27;32 K cassette CUFF.1016 chr15 - chr15:55783455-55789909 chr15:55783455-55787325;chr15:55787401-55789909 chr15:55787326-55787400 144;49 N alternative_donor CUFF.1055 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 60;5 K alternative_first_exon CUFF.1015 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700746-55700984 chr15:55709861-55709957 33;10 K alternative_acceptor CUFF.1016 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 35;61 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 2;48 N jcn_only_AD CUFF.1005 chr15 - chr15:64658275-64665896 chr15:64658275-64665354 chr15:64665355-64665896 chr15:64665896-64665897 6;21 K cassette CUFF.1001 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 7;10 N alternative_donor CUFF.997 chr15 + chr15:40532297-40532799;chr15:40532004-40532799;chr15:40531337-40532799 chr15:40509869-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 0;2 N alternative_donor CUFF.1030 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 174;17 N jcn_only_AD chr15 - chr15:77578847-77657504;chr15:77578847-77638883 chr15:77578847-77712347 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 44;86 N alternative_acceptor CUFF.1050 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 63;377 K jcn_only_AD CUFF.991 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 4;11 N mutually_exclusive CUFF.1004 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 3;5 N alternative_donor CUFF.1019 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 35;1 K jcn_only_AD CUFF.1030 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 23;79 N cassette CUFF.993 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 5;13 N jcn_only_AA CUFF.1005 chr15 - chr15:45470505-45492924 chr15:45491319-45492924 chr15:45470505-45491318 chr15:45470504-45470505 14;2 K alternative_first_exon CUFF.1005 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45473492;chr15:45492925-45493434 chr15:45479652-45480221 72;23 K cassette CUFF.1016 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 40;43 N alternative_acceptor CUFF.1040 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 43;2 K cassette CUFF.1016 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 28;117 N jcn_only_AD CUFF.993 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 59;4 N cassette CUFF.1030 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 24;175 N jcn_only_AD CUFF.997 chr15 + chr15:40532297-40532799;chr15:40509869-40532799;chr15:40531337-40532799 chr15:40532004-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 18;2 K intron_retention CUFF.1049 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 11;7 N jcn_only_AA CUFF.1019 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 27;148 N alternative_donor CUFF.1050 chr15 - chr15:90414779-90420537;chr15:90414779-90431752 chr15:90414779-90421496 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 143;0 N jcn_only_AA CUFF.1036 chr15 - chr15:77577421-77578764;chr15:77577398-77578764 chr15:77474383-77578764 136;3 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 6;7 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 13;6 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 2;5 N jcn_only_AA chr15 + chr15:40531337-40545378 chr15:40531337-40532799 18;14 N jcn_only_AD CUFF.1050 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 196;29 N alternative_acceptor CUFF.1036 chr15 - chr15:77578847-77712347 chr15:77657568-77712347 chr15:77578847-77657567 chr15:77578846-77578847 86;0 K intron_retention CUFF.1002 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 3;5 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 11;9 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 62;163 N jcn_only_AD CUFF.1055 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 71;6 K cassette CUFF.1057 chr15 - chr15:102226266-102241288 chr15:102226266-102239533;chr15:102239639-102241288 chr15:102239534-102239638 35;3 N jcn_only_AD CUFF.1055 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 72;5 N alternative_first_exon CUFF.997 chr15 + chr15:40531337-40545378,chr15:40544465-40545378;chr15:40545216-40545378;chr15:40509869-40545378;chr15:40544893-40545378 chr15:40532883-40545378 chr15:40545063-40545215;chr15:40509629-40509868;chr15:40544723-40544892 chr15:40532694-40532882 94;80 K alternative_acceptor CUFF.1010 chr15 - chr15:50793035-50821993 chr15:50793249-50821993 chr15:50793035-50793248 chr15:50793034-50793035 44;7 N alternative_donor CUFF.1050 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 5;7 K intron_retention CUFF.1004 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 5;2 N alternative_donor CUFF.1003 chr15 - chr15:42300064-42305882 chr15:42300064-42302276 chr15:42302277-42305882 chr15:42305882-42305883 chr15:42299927-42300063;chr15:42305883-42305955 2;0 N alternative_acceptor CUFF.1044 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 130;25 N jcn_only_AD CUFF.1036,CUFF.1040 chr15 - chr15:78500445-78526712;chr15:78500445-78537610 chr15:78500445-78501486 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 80;10 K intron_retention CUFF.1025 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 30;34 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 19;16 N alternative_donor CUFF.1037 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 152;5 K intron_retention CUFF.1025 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 32;14 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 16;4 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 14;88 N jcn_only_AD CUFF.1019 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 23;48 N alternative_acceptor chr15 - chr15:90414779-90421496 chr15:90420657-90421496 chr15:90414779-90420656 chr15:90414778-90414779 12;1 N alternative_acceptor CUFF.1034 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 16;2 K intron_retention CUFF.997 chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 20;6 K cassette CUFF.1057 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 11;39 N alternative_donor chr15 - chr15:77578847-77657504;chr15:77578847-77638883 chr15:77578847-77712347 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 0;86 N jcn_only_AA CUFF.1036 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 22;164 K alternative_donor CUFF.1030 chr15 - chr15:66786891-66787667 chr15:66786891-66787240 chr15:66787241-66787667 chr15:66787667-66787668 245;92 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 30;40 K jcn_only_AA CUFF.991 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 3;6 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 26;25 N jcn_only_AD CUFF.1044 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 169;6 N jcn_only_AD chr15 - chr15:66645294-66678944;chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66648976 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 38;31 N jcn_only_AD CUFF.1040 chr15 - chr15:78500445-78526712;chr15:78500445-78501486 chr15:78500445-78537610 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 89;2 K alternative_last_exon CUFF.1016 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722492-55722977 19;58 N alternative_acceptor CUFF.1044 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 30;3 K jcn_only_AD CUFF.1014,CUFF.1026 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 27;15 N cassette CUFF.997 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 3;38 K intron_retention CUFF.1002 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 4;4 N jcn_only_AA CUFF.1054 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 45;2 N mutually_exclusive CUFF.1026 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 5;5 K cassette CUFF.991 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 5;18 N coord_cassette CUFF.1019 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 16;35 N jcn_only_AD CUFF.997 chr15 + chr15:40532297-40532799;chr15:40532004-40532799;chr15:40531337-40532799 chr15:40509869-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 18;2 N jcn_only_AD chr15 + chr15:40545491-40555999 chr15:40549288-40555999 chr15:40545491-40549287 chr15:40545490-40545491 4;9 N alternative_acceptor CUFF.1019 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 23;0 K intron_retention CUFF.1025 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 53;14 N intron_retention chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 9;62 N jcn_only_AD chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 86;14 K cassette CUFF.1019 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 47;40 N coord_cassette CUFF.1004 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;27 K intron_retention CUFF.1004 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 14;23 N jcn_only_AD CUFF.1019 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 3;106 N cassette CUFF.1029 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 21;39 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 2;163 N jcn_only_AD CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 64;7 N jcn_only_AD CUFF.1003 chr15 - chr15:42300064-42305882 chr15:42300064-42302276 chr15:42302277-42305882 chr15:42305882-42305883 chr15:42299927-42300063;chr15:42305883-42305955 2;2 K alternative_first_exon CUFF.999 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780240-40780406 chr15:40800181-40800266 17;6 N alternative_donor CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 48;0 N coord_cassette CUFF.1051 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 4;62 N jcn_only_AA CUFF.1036 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 2;12 K cassette CUFF.1005 chr15 - chr15:45464517-45467416 chr15:45464517-45465773;chr15:45465915-45467416 chr15:45465774-45465914 63;20 N jcn_only_AD CUFF.1036 chr15 - chr15:77578847-77657504;chr15:77578847-77712347 chr15:77578847-77638883 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 120;10 K alternative_donor CUFF.1014,CUFF.1026 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 27;22 N jcn_only_AA CUFF.1034,CUFF.1037 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 36;6 N cassette CUFF.1004 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 6;31 N jcn_only_AA CUFF.1036 chr15 - chr15:77577421-77578764;chr15:77474383-77578764 chr15:77577398-77578764 135;4 K coord_cassette CUFF.1014 chr15 - chr15:55485032-55488550 chr15:55485032-55486350;chr15:55486382-55486493;chr15:55486558-55488550 chr15:55486351-55486381;chr15:55486494-55486557 49;5 N jcn_only_AD CUFF.1019 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 56;7 N jcn_only_AD CUFF.1055 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 11;66 K alternative_donor CUFF.1030 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 23;173 N coord_cassette CUFF.1004 chr15 - chr15:44865019-44876011 chr15:44865019-44865744;chr15:44865944-44867099;chr15:44867240-44876011 chr15:44865745-44865943;chr15:44867100-44867239 3;45 N alternative_acceptor CUFF.1036 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 22;2 N jcn_only_AA CUFF.1050 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 63;124 N alternative_donor CUFF.1044,CUFF.1050 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 124;4 N alternative_donor CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 48;0 K intron_retention CUFF.997 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 16;33 N jcn_only_AD CUFF.997 chr15 + chr15:40532297-40532799;chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 5;14 N alternative_donor CUFF.1036 chr15 - chr15:77578847-77638883;chr15:77578847-77712347 chr15:77578847-77657504 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 86;0 N alternative_donor CUFF.1004 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 7;8 K alternative_first_exon CUFF.1004,CUFF.1050 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44884529-44884636 chr15:44882619-44883172 23;41 N alternative_donor CUFF.995 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294234-31327859 chr15:31294233-31294234 13;0 N alternative_donor chr15 - chr15:77544869-77577299;chr15:77544869-77547790 chr15:77544869-77576224 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 23;18 K alternative_last_exon CUFF.1041 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826012 10;53 N alternative_donor CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 48;0 N jcn_only_AA CUFF.1050 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380955-90408925 chr15:90380954-90380955 163;25 N alternative_acceptor CUFF.1019 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 19;4 K cassette CUFF.1045 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 858;9 N alternative_donor CUFF.993 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 0;55 N jcn_only_AD CUFF.1032 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 6;7 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 1;130 N jcn_only_AD CUFF.993 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 52;4 N alternative_acceptor CUFF.1034,CUFF.1037 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 36;3 N jcn_only_AD CUFF.1004 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 11;2 N coord_cassette CUFF.1045 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 9;639 N jcn_only_AD CUFF.1050 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 218;7 N cassette CUFF.1010 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 13;67 K cassette CUFF.1014 chr15 - chr15:55485032-55486493 chr15:55485032-55486350;chr15:55486382-55486493 chr15:55486351-55486381 7;4 K alternative_last_exon CUFF.1033 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587664 chr15:69580747-69580903 43;31 N jcn_only_AA CUFF.989 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 90;3 N jcn_only_AA CUFF.1004 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 43;20 N cassette CUFF.989 chr15 + chr15:24820151-24832713 chr15:24820151-24825373;chr15:24825478-24832713 chr15:24825374-24825477 10;48 K cassette CUFF.1014 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 49;8 N jcn_only_AD CUFF.1042 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 72;8 N jcn_only_AD CUFF.1034 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 45;2 K intron_retention CUFF.1038 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 15;5 N jcn_only_AD chr15 - chr15:67722739-67758831 chr15:67722739-67752029 2;141 N jcn_only_AD CUFF.1037 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 152;10 N cassette CUFF.1051 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 6;37 N jcn_only_AA CUFF.1005 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 74;8 N alternative_donor chr15 - chr15:77544869-77576224;chr15:77544869-77577299 chr15:77544869-77547790 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 40;1 N alternative_donor CUFF.1032 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 6;4 N jcn_only_AA CUFF.1044 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 104;9 N jcn_only_AD chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 15;4 K intron_retention CUFF.1044 chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 74;11 K alternative_first_exon CUFF.1020 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007451 chr15:61945388-61945400 5;7 N alternative_donor CUFF.1036,CUFF.1040 chr15 - chr15:78500445-78526712;chr15:78500445-78537610 chr15:78500445-78501486 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 7;0 K intron_retention CUFF.1034 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 9;23 N intron_retention chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 11;38 N alternative_donor CUFF.1050 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 165;0 N alternative_donor CUFF.1036 chr15 - chr15:77578847-77657504;chr15:77578847-77712347 chr15:77578847-77638883 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 86;0 N jcn_only_AA chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 21;106 N jcn_only_AD CUFF.1036 chr15 - chr15:77578847-77638883;chr15:77578847-77712347 chr15:77578847-77657504 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 96;34 N intron_retention chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 5;26 N jcn_only_AD CUFF.1034 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 38;10 N alternative_first_exon CUFF.997 chr15 + chr15:40531337-40545378,chr15:40544465-40545378;chr15:40545216-40545378;chr15:40532883-40545378;chr15:40544893-40545378 chr15:40509869-40545378 chr15:40545063-40545215;chr15:40532694-40532882;chr15:40544723-40544892 chr15:40509629-40509868 169;5 N jcn_only_AD chr15 - chr15:90414779-90421496;chr15:90414779-90420537 chr15:90414779-90431752 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 86;142 N coord_cassette CUFF.993 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 5;24 N jcn_only_AD CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 59;12 N alternative_last_exon CUFF.1044 chr15 - chr15:83350333-83357909 chr15:83357584-83357909 chr15:83350172-83350332 chr15:83355189-83357583 11;166 K jcn_only_AD CUFF.1035 chr15 - chr15:75762341-75766029 chr15:75762341-75763020 4;16 N cassette CUFF.1019 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 16;53 K jcn_only_AA CUFF.1019 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 4;62 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 29;6 N jcn_only_AD CUFF.1014 chr15 - chr15:83350333-83357909 chr15:83350333-83357487 6;30 N alternative_acceptor CUFF.1050 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380955-90408925 chr15:90380954-90380955 163;1 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 17;5 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 38;17 N jcn_only_AA CUFF.1004 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 36;6 N cassette CUFF.1045 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 9;349 N jcn_only_AD CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 56;12 N jcn_only_AA CUFF.1019 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 92;10 K intron_retention CUFF.1034 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 12;21 N jcn_only_AD CUFF.1019 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 66;4 K alternative_acceptor CUFF.1051 chr15 + chr15:91298169-91303376 chr15:91298169-91303210 chr15:91303211-91303376 chr15:91303376-91303377 4;11 K cassette CUFF.997 chr15 + chr15:40545491-40556981 chr15:40545491-40556004;chr15:40556121-40556981 chr15:40556005-40556120 136;83 N jcn_only_AA chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 6;7 N cassette CUFF.1030 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787240;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787241-66787757 24;124 K alternative_first_exon CUFF.1007 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45740542-45740999 chr15:45751162-45751248 24;9 N jcn_only_AA chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 13;9 N jcn_only_AD CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66678987 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 55;13 N alternative_donor CUFF.1055 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 11;54 N coord_cassette CUFF.1004 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 8;22 N jcn_only_AD CUFF.1004 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 36;3 N alternative_donor chr15 - chr15:77544869-77576224;chr15:77544869-77547790 chr15:77544869-77577299 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 19;22 K intron_retention CUFF.1025 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 51;12 N alternative_donor CUFF.993 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 55;0 K alternative_first_exon CUFF.1019 chr15 + chr15:57511789-57523349;chr15:57490024-57523349 chr15:57506595-57523349 chr15:57489971-57490023 chr15:57506194-57506594 36;171 N jcn_only_AD chr15 - chr15:77544869-77576224;chr15:77544869-77577299 chr15:77544869-77547790 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 98;27 N jcn_only_AA chr15 + chr15:40509869-40545378 chr15:40509869-40532799 6;2 K cassette CUFF.1009 chr15 - chr15:47672793-47687757 chr15:47672793-47685518;chr15:47685683-47687757 chr15:47685519-47685682 6;4 N jcn_only_AA CUFF.1036 chr15 - chr15:77577398-77578764;chr15:77474383-77578764 chr15:77577421-77578764 7;131 N jcn_only_AA CUFF.1036 chr15 - chr15:77578847-77712347 chr15:77657568-77712347 chr15:77578847-77657567 chr15:77578846-77578847 86;64 N jcn_only_AD CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678944;chr15:66645294-66678987 chr15:66645294-66678757 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 56;12 K cassette CUFF.1056 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 chr15:99514265-99514387;chr15:99548658-99548885 3;21 N jcn_only_AD CUFF.993 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 59;3 N alternative_donor chr15 + chr15:40545491-40555999 chr15:40549288-40555999 chr15:40545491-40549287 chr15:40545490-40545491 4;1 K alternative_donor CUFF.1051 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 8;16 N jcn_only_AD CUFF.1036,CUFF.1050 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 199;26 K intron_retention CUFF.1025 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 3;5 N alternative_donor CUFF.997 chr15 + chr15:40532297-40532799;chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 2;0 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 6;14 N alternative_acceptor CUFF.1004 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 43;1 N jcn_only_AD CUFF.1030 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789828-66789979 chr15:66789979-66789980 174;15 N alternative_acceptor CUFF.1005 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 74;7 N jcn_only_AD CUFF.1025 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 40;9 N jcn_only_AD CUFF.1050 chr15 - chr15:90414779-90420537;chr15:90414779-90431752 chr15:90414779-90421496 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 216;12 K jcn_only_AA CUFF.1016 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 35;79 N alternative_donor CUFF.1055 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 59;6 N alternative_acceptor CUFF.1050 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 3;97 N coord_cassette CUFF.1040 chr15 - chr15:78475128-78526712 chr15:78475128-78485847;chr15:78485969-78486273;chr15:78486363-78486847;chr15:78487069-78526712 chr15:78485848-78485968;chr15:78486274-78486362;chr15:78486848-78487068 23;17 N alternative_donor CUFF.1004 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 36;0 N alternative_donor CUFF.1036,CUFF.1050 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 164;1 K alternative_first_exon CUFF.1005,CUFF.1035 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45473492;chr15:45479652-45480221 chr15:45492925-45493434 73;22 K cassette CUFF.1010 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 84;10 N jcn_only_AA CUFF.1044 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 83;30 N alternative_acceptor chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 21;53 N alternative_acceptor CUFF.1005 chr15 - chr15:45470505-45492924 chr15:45491319-45492924 chr15:45470505-45491318 chr15:45470504-45470505 14;0 N alternative_donor CUFF.993 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 55;0 N alternative_donor CUFF.1004 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 43;2 N alternative_acceptor CUFF.1054 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 45;0 N jcn_only_AD chr15 - chr15:77544869-77576224;chr15:77544869-77547790 chr15:77544869-77577299 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 103;22 N jcn_only_AD CUFF.1044,CUFF.1050 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 124;8 K cassette CUFF.993 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 3;28 K coord_cassette CUFF.1010 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 40;17 K jcn_only_AA CUFF.1051 chr15 + chr15:91298169-91303376 chr15:91298169-91303210 chr15:91303211-91303376 chr15:91303376-91303377 4;11 K cassette CUFF.1053 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 6;3 K intron_retention CUFF.1055 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 6;43 N jcn_only_AA CUFF.1044 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 30;10 N alternative_donor CUFF.989 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 15;5 N jcn_only_AD CUFF.1034 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 12;36 N alternative_donor CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678944;chr15:66645294-66678987 chr15:66645294-66678757 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 20;6 N jcn_only_AD chr15 + chr15:24758885-24778841 chr15:24766978-24778841 14;20 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 45;130 K alternative_last_exon CUFF.1010 chr15 - chr15:50793035-50821993,chr15:50793249-50821993 chr15:50805710-50821993 chr15:50792759-50793034 chr15:50805607-50805709 39;5 N alternative_donor CUFF.1019 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 56;0 N jcn_only_AD CUFF.1004 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 7;10 K cassette CUFF.1041 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 50;32 N jcn_only_AD CUFF.993 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 7;55 N jcn_only_AD chr15 + chr15:63128273-63131054 chr15:63128318-63131054 13;3 N cassette CUFF.1051 chr15 + chr15:91298169-91303823 chr15:91298169-91303210;chr15:91303510-91303823 chr15:91303211-91303509 3;17 K intron_retention CUFF.1025 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 40;15 N alternative_acceptor CUFF.1004 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 36;0 N alternative_donor CUFF.1040 chr15 - chr15:78500445-78526712;chr15:78500445-78501486 chr15:78500445-78537610 chr15:78501487-78526712;chr15:78526713-78537610 chr15:78526712-78526713;chr15:78537610-78537611 5;2 N cassette CUFF.1019 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 28;53 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 4;19 N jcn_only_AA CUFF.1040 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78471174-78471322 chr15:78471173-78471174 43;4 N alternative_donor CUFF.1029 chr15 - chr15:66645294-66648976;chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 19;7 N alternative_donor CUFF.1025 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 40;12 N intron_retention chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 12;2 N jcn_only_AD CUFF.1019 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 35;31 K intron_retention CUFF.1025 chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 10;16 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 6;36 K alternative_last_exon CUFF.1007,CUFF.989 chr15 + chr15:45768751-45769966;chr15:45768751-45804570 chr15:45768751-45789310 chr15:45804571-45804647 chr15:45789311-45789479 25;20 N alternative_donor chr15 - chr15:66645294-66678944;chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66648976 chr15:66648977-66678757;chr15:66678758-66678944;chr15:66678945-66678987 chr15:66678757-66678758;chr15:66678944-66678945;chr15:66678987-66678988 26;0 N jcn_only_AD chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 51;5 N alternative_donor CUFF.1005 chr15 - chr15:64658275-64665896 chr15:64658275-64665354 chr15:64665355-64665896 chr15:64665896-64665897 6;22 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 8;5 K alternative_last_exon CUFF.1054 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527385 chr15:94512823-94512924 12;7 N jcn_only_AD CUFF.1004 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 43;13 N alternative_donor CUFF.1050 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 164;1 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 12;79 N alternative_donor CUFF.1050 chr15 - chr15:90414779-90421496;chr15:90414779-90431752 chr15:90414779-90420537 chr15:90420538-90421496;chr15:90421497-90431752 chr15:90421496-90421497;chr15:90431752-90431753 142;1 K intron_retention CUFF.1044 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 47;36 N alternative_donor CUFF.993 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 52;0 N jcn_only_AD CUFF.989 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 15;6 K intron_retention CUFF.1055 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 66;6 K cassette CUFF.994 chr15 + chr15:30771397-30776704 chr15:30771397-30772944;chr15:30773111-30776704 chr15:30772945-30773110 8;4 N jcn_only_AD chr15 - chr15:77544869-77577299;chr15:77544869-77547790 chr15:77544869-77576224 chr15:77547791-77576224;chr15:77576225-77577299 chr15:77576224-77576225;chr15:77577299-77577300 49;76 N alternative_donor CUFF.997 chr15 + chr15:40532297-40532799;chr15:40509869-40532799;chr15:40531337-40532799 chr15:40532004-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 2;0 N coord_cassette CUFF.1004 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44865744;chr15:44865944-44867099;chr15:44867240-44876011 chr15:44864881-44865018;chr15:44865745-44865943;chr15:44867100-44867239 15;38 K cassette CUFF.1045 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 10;678 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 9;40 K alternative_first_exon CUFF.1051 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91303824-91304485 chr15:91305556-91305652 39;12 N alternative_acceptor CUFF.1044 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 47;23 N alternative_donor CUFF.1019 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 62;17 N jcn_only_AD chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 22;34 N jcn_only_AA CUFF.1007,CUFF.998 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 3;11 N jcn_only_AD CUFF.1044 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 154;21 N jcn_only_AD CUFF.1044 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 156;18 N cassette CUFF.1019 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 15;142 N coord_cassette CUFF.1005 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45465773;chr15:45465915-45467416 chr15:45464345-45464516;chr15:45465774-45465914 4;16 N alternative_acceptor CUFF.1019 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 27;82 N alternative_acceptor CUFF.989 chr15 + chr15:24825478-24869114 chr15:24825478-24832713 chr15:24832714-24869114 chr15:24869114-24869115 90;0 K alternative_first_exon CUFF.1005 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45479652-45480221;chr15:45492925-45493434 chr15:45473305-45473492 50;45 N alternative_acceptor CUFF.1007,CUFF.998 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 3;5 N jcn_only_AD CUFF.997 chr15 + chr15:40532004-40532799;chr15:40509869-40532799;chr15:40531337-40532799 chr15:40532297-40532799 chr15:40509869-40531336;chr15:40531337-40532003;chr15:40532004-40532296 chr15:40509868-40509869;chr15:40531336-40531337;chr15:40532003-40532004 18;2 N jcn_only_AA CUFF.1050 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 3;165 N alternative_donor CUFF.1044 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 130;1 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 31;4 N alternative_donor CUFF.1034 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 20;10 K intron_retention CUFF.1044 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 124;3 N alternative_donor chr15 - chr15:90420657-90431752 chr15:90420657-90421496 chr15:90421497-90431752 chr15:90431752-90431753 86;0 N alternative_acceptor CUFF.1036 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 2;0 K alternative_first_exon CUFF.993 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29346048-29347038 chr15:29362787-29363302 37;77 N alternative_donor CUFF.1044 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 30;5 N alternative_donor CUFF.943 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 9;3 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76407766 chr14:76368568-76420766 69;10 K cassette CUFF.942 chr14 + chr14:39954462-39982820 chr14:39954462-39961458;chr14:39961761-39982820 chr14:39961459-39961760 18;50 K alternative_last_exon CUFF.959 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542062-69542128 chr14:69555921-69557873 20;14 K alternative_acceptor CUFF.937,CUFF.967 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 4;76 N mutually_exclusive CUFF.966 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 21;43 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 8;7 K cassette CUFF.938 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 41;47 N jcn_only_AD CUFF.957 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 66;16 K alternative_acceptor CUFF.941 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 31;15 N alternative_donor CUFF.956,CUFF.966 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 54;2 K coord_cassette CUFF.938 chr14 + chr14:24459569-24473545 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592;chr14:24470727-24473545 chr14:24470072-24470142;chr14:24470242-24470293;chr14:24470593-24470726 5;16 N jcn_only_AD chr14 + chr14:76150000-76156534 chr14:76156205-76156534 29;9 K cassette CUFF.959 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 5;11 N jcn_only_AD CUFF.943 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 46;8 N alternative_acceptor CUFF.983 chr14 - chr14:104208629-104212709 chr14:104209161-104212709 chr14:104208629-104209160 chr14:104208628-104208629 10;8 K intron_retention CUFF.939 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 8;3 N cassette CUFF.957 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 16;42 N alternative_donor CUFF.937 chr14 + chr14:24568446-24568766 chr14:24568457-24568766 chr14:24568446-24568456 chr14:24568445-24568446 75;5 N coord_cassette CUFF.966 chr14 - chr14:75143456-75151156 chr14:75143456-75144881;chr14:75145033-75149998;chr14:75150237-75151156 chr14:75144882-75145032;chr14:75149999-75150236 23;22 N jcn_only_AD CUFF.957 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 76;6 N alternative_donor CUFF.938 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 72;2 N coord_cassette CUFF.966 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 26;26 N cassette CUFF.937 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 15;54 N jcn_only_AD CUFF.976 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 22;2 N alternative_donor CUFF.967 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 53;8 K jcn_only_AD CUFF.955,CUFF.966 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 65;60 N alternative_donor CUFF.957 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 9;54 N intron_retention chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 34;3 K intron_retention CUFF.952 chr14 + chr14:58894356-58894989 chr14:58894355-58894356;chr14:58894989-58894990 2;3 N jcn_only_AD chr14 + chr14:76201633-76211437 chr14:76203951-76211437 14;8 K cassette CUFF.961 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 16;52 K jcn_only_AA CUFF.949 chr14 - chr14:52486897-52495439 chr14:52494063-52495439 22;3 N jcn_only_AA chr14 + chr14:58899176-58906787;chr14:58899176-58899829 chr14:58899176-58909423 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 24;38 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76373021-76420766 chr14:76407838-76420766 80;23 K jcn_only_AD CUFF.941 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 31;16 K cassette CUFF.938 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 14;10 N alternative_acceptor CUFF.957 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 61;0 K cassette CUFF.942 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 52;19 N jcn_only_AD chr14 + chr14:76187047-76198680 chr14:76198577-76198680 28;10 N jcn_only_AD CUFF.978 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 42;2 K alternative_first_exon CUFF.955 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031765-60031993 chr14:60031076-60031295 chr14:60030455-60030577 20;22 K coord_cassette CUFF.938 chr14 + chr14:24464343-24473545 chr14:24464343-24470071;chr14:24470143-24470241;chr14:24470294-24470592;chr14:24470727-24473545 chr14:24470072-24470142;chr14:24470242-24470293;chr14:24470593-24470726 10;16 K cassette CUFF.952 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 15;12 K intron_retention CUFF.939 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 6;6 N alternative_donor CUFF.957 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 105;5 N intron_retention chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 3;4 N jcn_only_AA chr14 + chr14:76368568-76372897;chr14:76368568-76420766 chr14:76368568-76407766 43;36 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 0;61 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 17;20 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 3;14 N jcn_only_AA chr14 + chr14:76201633-76211437;chr14:76201633-76210719 chr14:76201633-76203908 78;7 N coord_cassette CUFF.938 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 9;26 N jcn_only_AD CUFF.970 chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77275402-77275986 81;12 N jcn_only_AD CUFF.973 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 30;5 N jcn_only_AA CUFF.975 chr14 - chr14:92185823-92191423 chr14:92189534-92191423 chr14:92191424-92191512 13;44 N cassette CUFF.937 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 38;235 N alternative_acceptor CUFF.966 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 48;0 N alternative_acceptor chr14 + chr14:58899176-58906787;chr14:58899176-58899829 chr14:58899176-58909423 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 3;38 N alternative_last_exon chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935817 chr14:77930941-77931029 5;148 N alternative_donor CUFF.970,CUFF.976 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 20;0 N jcn_only_AD CUFF.956 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 169;16 N alternative_acceptor chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 18;62 K intron_retention CUFF.937 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 70;13 K alternative_donor CUFF.941 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 31;9 N alternative_acceptor CUFF.952 chr14 + chr14:58899176-58906787;chr14:58899176-58909423 chr14:58899176-58899829 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 41;0 N jcn_only_AA chr14 + chr14:76174051-76184203 chr14:76174051-76175521 3;18 N intron_retention chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 22;24 N alternative_donor CUFF.957 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 59;4 K coord_cassette CUFF.943 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50079189;chr14:50079343-50080973 chr14:50074118-50074839;chr14:50079190-50079342 24;22 N cassette CUFF.961 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 2;39 N alternative_donor CUFF.957 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 61;1 K intron_retention CUFF.983 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 251;47 N cassette CUFF.936 chr14 + chr14:23390330-23393509 chr14:23390330-23392287;chr14:23392414-23393509 chr14:23392288-23392413 7;56 N coord_cassette CUFF.957 chr14 + chr14:61518854-61545547 chr14:61518854-61519066;chr14:61519704-61540565;chr14:61540660-61545547 chr14:61519067-61519703;chr14:61540566-61540659 3;25 N cassette CUFF.946 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 5;110 N alternative_donor CUFF.984 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046341-105047962 chr14:105046340-105046341 23;1 N alternative_donor CUFF.973 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 30;0 K alternative_first_exon CUFF.978 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874664-92874778 7;51 N jcn_only_AA CUFF.978 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 36;20 N cassette CUFF.952 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 9;47 N jcn_only_AA CUFF.951 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 27;6 K intron_retention CUFF.946 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 50;254 K intron_retention CUFF.937 chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 218;22 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104251252-104263707 chr14:104245159-104263707 52;9 N jcn_only_AD CUFF.938 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 72;5 K alternative_acceptor CUFF.955 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 chr14:60027837-60027946;chr14:60018073-60018140 12;22 N jcn_only_AD CUFF.967 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 53;229 N jcn_only_AD CUFF.957 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 77;6 N jcn_only_AD CUFF.943 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 41;12 N alternative_donor CUFF.983 chr14 - chr14:104208629-104212709 chr14:104208629-104208990 chr14:104208991-104212709 chr14:104212709-104212710 10;7 N jcn_only_AA chr14 + chr14:76219299-76230957 chr14:76219299-76224173 11;22 N jcn_only_AA CUFF.983 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 chr14:104201417-104202539 chr14:104201416-104201417 201;50 K intron_retention CUFF.970 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 chr14:77270129-77270255;chr14:77270718-77270758 12;28 N jcn_only_AD chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 6;18 N jcn_only_AD chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 13;7 N mutually_exclusive CUFF.946 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 4;10 K jcn_only_AD CUFF.952 chr14 + chr14:58894532-58896080 chr14:58894576-58896080 chr14:58894532-58894575 chr14:58894531-58894532 30;6 N jcn_only_AD CUFF.970 chr14 - chr14:77275987-77278647;chr14:77275987-77276431 chr14:77275987-77280649 chr14:77275402-77275986 66;26 N jcn_only_AA CUFF.966 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 44;18 N jcn_only_AD CUFF.956 chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 132;53 N intron_retention chr14 + chr14:77935329-77935419 chr14:77935328-77935329;chr14:77935419-77935420 4;7 K intron_retention CUFF.937 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 388;6 N mutually_exclusive CUFF.936 chr14 + chr14:23390330-23393509,chr14:23393651-23395669 chr14:23390330-23392287,chr14:23392414-23395669 chr14:23393510-23393650 chr14:23392288-23392413 6;17 N jcn_only_AA CUFF.957 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 11;23 K alternative_acceptor CUFF.959 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 4;5 K intron_retention chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 218;89 N jcn_only_AA chr14 + chr14:59377061-59475751 chr14:59377061-59415030 chr14:59415031-59475751 chr14:59475751-59475752 19;50 N alternative_donor CUFF.961 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 54;4 N jcn_only_AA CUFF.966 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 48;8 N coord_cassette CUFF.952 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59010600;chr14:59010686-59014498 chr14:59006789-59006854;chr14:59010601-59010685 5;2 N cassette CUFF.966 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 23;53 N jcn_only_AD CUFF.957 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 29;54 N jcn_only_AA chr14 - chr14:104225643-104245081;chr14:104230817-104245081 chr14:104224089-104245081 15;20 N jcn_only_AA chr14 + chr14:23390330-23392180 chr14:23390330-23392177 chr14:23392178-23392180 chr14:23392180-23392181 18;126 K jcn_only_AA CUFF.937,CUFF.967 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 4;66 N cassette CUFF.967 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 26;5 N cassette CUFF.966 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 7;53 N jcn_only_AA chr14 + chr14:76349246-76368484 chr14:76349246-76353042 59;5 K jcn_only_AA CUFF.972,CUFF.986 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 16;29 N jcn_only_AD CUFF.978 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 14;22 N alternative_acceptor CUFF.966 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 44;9 K intron_retention CUFF.966 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 38;6 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 10;61 K intron_retention CUFF.957 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 54;36 N jcn_only_AD CUFF.956 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 69;116 N jcn_only_AD CUFF.941 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 19;9 N jcn_only_AA chr14 + chr14:76241974-76243089 chr14:76241974-76243047 9;11 K alternative_last_exon CUFF.973 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81726994-81728275 chr14:81734372-81734841 5;26 N alternative_donor CUFF.946 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 59;10 K intron_retention CUFF.938 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 11;14 N alternative_donor CUFF.978 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 17;9 N cassette CUFF.936 chr14 + chr14:23392414-23395669 chr14:23392414-23393509;chr14:23393651-23395669 chr14:23393510-23393650 20;52 N alternative_donor CUFF.978 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958585-92959268 chr14:92958584-92958585 42;0 N jcn_only_AA chr14 + chr14:76201633-76203908;chr14:76201633-76211437 chr14:76201633-76210719 22;63 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 32;5 K intron_retention CUFF.949 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 65;4 K cassette CUFF.943 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 24;89 N jcn_only_AA CUFF.983 chr14 - chr14:104208629-104212709 chr14:104209161-104212709 chr14:104208629-104209160 chr14:104208628-104208629 10;13 N alternative_donor chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 0;20 N alternative_donor CUFF.956 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59941446-59942586 chr14:59942586-59942587 21;11 K alternative_last_exon CUFF.982 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237468-103237910 8;41 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 62;9 N alternative_first_exon chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204197 7;58 K alternative_acceptor CUFF.984 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 11;5 N cassette CUFF.938 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 5;19 N alternative_donor CUFF.976 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 20;0 K cassette CUFF.943 chr14 + chr14:50074840-50080973 chr14:50074840-50079189;chr14:50079343-50080973 chr14:50079190-50079342 54;16 N alternative_donor CUFF.957 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 60;3 K jcn_only_AD CUFF.972 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 43;448 N cassette CUFF.966 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 14;25 K cassette CUFF.966 chr14 - chr14:75143456-75149998 chr14:75143456-75144881;chr14:75145033-75149998 chr14:75144882-75145032 41;17 N jcn_only_AD CUFF.957 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 105;20 N cassette CUFF.956 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 148;22 K intron_retention CUFF.983 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 272;41 N jcn_only_AD CUFF.956 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59941446-59942586 chr14:59942586-59942587 21;9 K alternative_last_exon CUFF.972 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77935420-77935817 chr14:77934933-77935104 170;156 N cassette CUFF.952 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59014498 chr14:59006789-59006854 5;39 K cassette CUFF.981 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 48;12 N coord_cassette CUFF.966 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635 chr14:75158744-75159031;chr14:75165467-75165559 11;30 N cassette CUFF.974 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 3;54 N coord_cassette CUFF.957 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 12;131 K intron_retention CUFF.983 chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 41;26 K jcn_only_AD CUFF.957 chr14 + chr14:61451522-61482621 chr14:61453876-61482621 131;33 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 65;24 K intron_retention CUFF.946 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 117;127 N jcn_only_AD CUFF.957 chr14 + chr14:61512886-61517229 chr14:61515016-61517229 chr14:61512886-61515015 chr14:61512885-61512886 61;11 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 69;2 N jcn_only_AD CUFF.973 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 25;12 N alternative_acceptor CUFF.983 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 7;55 N jcn_only_AD chr14 + chr14:76368568-76420766;chr14:76407838-76420766 chr14:76373021-76420766 33;71 N intron_retention chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 7;13 N mutually_exclusive CUFF.937 chr14 + chr14:24563464-24566100,chr14:24566347-24567411 chr14:24563464-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 31;10 N jcn_only_AA CUFF.976 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 20;2 N jcn_only_AD CUFF.983 chr14 - chr14:104208629-104212709 chr14:104208629-104208990 chr14:104208991-104212709 chr14:104212709-104212710 10;58 N alternative_donor CUFF.956 chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 131;43 N jcn_only_AD CUFF.970 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77275402-77275986 38;55 K jcn_only_AA CUFF.941 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 31;24 N alternative_acceptor CUFF.957 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 90;9 N intron_retention chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 50;13 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104230817-104245081 chr14:104225643-104245081 23;12 N jcn_only_AA CUFF.952 chr14 + chr14:58899176-58906787;chr14:58899176-58909423 chr14:58899176-58899829 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 58;4 N cassette CUFF.975 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 chr14:92195745-92195823;chr14:92246920-92247139 4;29 N jcn_only_AD chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 53;18 N jcn_only_AA CUFF.957 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 90;13 N jcn_only_AD chr14 - chr14:104251252-104263707 chr14:104251252-104260913 22;26 K alternative_first_exon CUFF.952 chr14 + chr14:58906879-58909423;chr14:58899176-58909423 chr14:58908062-58909423 chr14:58899106-58899175 chr14:58907685-58908061 47;12 N jcn_only_AD chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 4;20 K jcn_only_AA CUFF.936,CUFF.972 chr14 + chr14:77928586-77934425 chr14:77928586-77928984 43;222 N alternative_acceptor CUFF.952 chr14 + chr14:58899176-58899829;chr14:58899176-58909423 chr14:58899176-58906787 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 38;3 N jcn_only_AA CUFF.943,CUFF.986 chr14 + chr14:50065922-50069087 chr14:50065922-50068259 chr14:50068260-50069087 chr14:50069087-50069088 68;14 N alternative_acceptor CUFF.957 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 61;0 N jcn_only_AA CUFF.978 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 42;2 N jcn_only_AA CUFF.957 chr14 + chr14:61512886-61514868;chr14:61512886-61517229 chr14:61512886-61514965 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 66;4 N cassette CUFF.966 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 26;27 K intron_retention CUFF.978 chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 3;8 K jcn_only_AD CUFF.973 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 5;14 N alternative_acceptor chr14 + chr14:59377061-59475751 chr14:59377061-59415030 chr14:59415031-59475751 chr14:59475751-59475752 19;0 K alternative_donor CUFF.955,CUFF.966 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 65;36 N jcn_only_AA chr14 + chr14:76243194-76245921 chr14:76243194-76245917 18;10 N alternative_acceptor CUFF.983 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 chr14:104201417-104202539 chr14:104201416-104201417 201;26 K intron_retention CUFF.983 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 201;35 N alternative_acceptor chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 9;3 N intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 10;62 N mutually_exclusive CUFF.946 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 9;35 K cassette CUFF.966 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 35;36 N jcn_only_AA CUFF.952 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 5;3 N jcn_only_AA chr14 + chr14:76201633-76203908;chr14:76201633-76210719 chr14:76201633-76211437 71;14 K alternative_first_exon CUFF.978 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92790152-92790304 2;10 N jcn_only_AD chr14 - chr14:104245159-104263707 chr14:104245159-104251131 9;54 N alternative_donor CUFF.961 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 76;2 N alternative_donor CUFF.943 chr14 + chr14:50065922-50069087 chr14:50068368-50069087 chr14:50065922-50068367 chr14:50065921-50065922 68;2 N alternative_donor CUFF.941 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354174-31354618 chr14:31354618-31354619 19;5 N jcn_only_AD CUFF.961 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 54;168 N cassette CUFF.946 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 11;80 K cassette CUFF.955 chr14 - chr14:60010173-60018072 chr14:60010173-60011880;chr14:60012018-60018072 chr14:60011881-60012017 chr14:60010062-60010172;chr14:60018073-60018140 5;20 N intron_retention CUFF.956 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 9;8 N alternative_donor chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 6;107 N jcn_only_AD CUFF.961 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 76;2 N cassette CUFF.937 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 15;406 N jcn_only_AD CUFF.978 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 26;11 K intron_retention CUFF.972 chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 80;20 N jcn_only_AD CUFF.943 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 20;34 N jcn_only_AA CUFF.983 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 7;41 K alternative_first_exon CUFF.973 chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81902665-81902894 chr14:81902432-81902636 12;7 N alternative_acceptor CUFF.957 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 11;12 K coord_cassette CUFF.953 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 70;4 K alternative_first_exon CUFF.952 chr14 + chr14:58894532-58896080,chr14:58894576-58896080 chr14:58895182-58896080 chr14:58894357-58894531 chr14:58894956-58895181 36;4 N jcn_only_AA chr14 - chr14:104251252-104263707;chr14:104245159-104263707 chr14:104261001-104263707 30;30 K alternative_first_exon CUFF.972 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924213-77924325 chr14:77924326-77924612 5;264 K intron_retention CUFF.949 chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 22;8 N jcn_only_AD chr14 + chr14:76219299-76230957 chr14:76224213-76230957 11;25 N alternative_donor CUFF.943 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 4;8 N alternative_acceptor CUFF.978 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 36;0 N jcn_only_AD CUFF.937 chr14 + chr14:24568446-24568766 chr14:24568457-24568766 chr14:24568446-24568456 chr14:24568445-24568446 75;10 N jcn_only_AD CUFF.946 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 59;15 N cassette CUFF.966 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75179635 chr14:75158744-75159031 11;114 K alternative_first_exon CUFF.938 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457961-24458284 20;87 K mutually_exclusive CUFF.942 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 22;14 N alternative_acceptor CUFF.943,CUFF.986 chr14 + chr14:50065922-50069087 chr14:50065922-50068259 chr14:50068260-50069087 chr14:50069087-50069088 68;2 N cassette CUFF.957 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 8;63 N alternative_donor CUFF.956 chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 159;15 K jcn_only_AA CUFF.955 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 chr14:60027837-60027946;chr14:60018073-60018140 12;43 N jcn_only_AD CUFF.956,CUFF.966 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 54;12 N alternative_donor CUFF.943 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 11;1 N alternative_donor CUFF.978 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 23;3 N alternative_donor CUFF.956 chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 chr14:59950208-59950397;chr14:59950398-59950526 chr14:59950397-59950398;chr14:59950526-59950527 58;116 N alternative_acceptor CUFF.951 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 27;3 N jcn_only_AA CUFF.966 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 54;15 N alternative_acceptor CUFF.966 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 54;3 K alternative_donor CUFF.952 chr14 + chr14:58894532-58896080 chr14:58894576-58896080 chr14:58894532-58894575 chr14:58894531-58894532 30;6 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 29;42 N jcn_only_AD chr14 + chr14:76373021-76420766;chr14:76407838-76420766 chr14:76368568-76420766 94;10 N alternative_acceptor CUFF.976 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 20;0 N cassette CUFF.966 chr14 - chr14:75136830-75138110 chr14:75136830-75137464;chr14:75137575-75138110 chr14:75137465-75137574 6;45 K jcn_only_AA CUFF.959 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 4;11 N jcn_only_AD CUFF.978 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 33;3 N intron_retention chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 7;16 K jcn_only_AA CUFF.984 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 11;7 N jcn_only_AA CUFF.957 chr14 + chr14:61512886-61514965;chr14:61512886-61517229 chr14:61512886-61514868 chr14:61514869-61514965;chr14:61514966-61517229 chr14:61514965-61514966;chr14:61517229-61517230 65;5 N jcn_only_AA CUFF.972 chr14 + chr14:76368568-76420766;chr14:76368568-76407766 chr14:76368568-76372897 45;34 K cassette CUFF.952 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 52;2 K intron_retention CUFF.946 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 74;137 N alternative_donor CUFF.957 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 61;2 N jcn_only_AA CUFF.952 chr14 + chr14:58899176-58899829;chr14:58899176-58909423 chr14:58899176-58906787 chr14:58899830-58906787;chr14:58906788-58909423 chr14:58906787-58906788;chr14:58909423-58909424 43;20 N cassette CUFF.983 chr14 - chr14:104212891-104213269 chr14:104212891-104212988;chr14:104213198-104213269 chr14:104212989-104213197 5;274 N mutually_exclusive CUFF.937 chr14 + chr14:24563644-24566100,chr14:24566347-24567411 chr14:24563644-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 31;10 K alternative_last_exon CUFF.984,CUFF.986 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106950171-106951462 chr14:106946394-106946501 2;12 N cassette CUFF.961 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 69;9 N mutually_exclusive CUFF.938 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 4;6 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104225643-104245081 chr14:104230817-104245081 32;3 N alternative_donor chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 13;1 N jcn_only_AA chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 9;409 K intron_retention CUFF.937 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 108;31 N jcn_only_AD CUFF.984 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046341-105047962 chr14:105046340-105046341 23;3 K cassette CUFF.959 chr14 - chr14:69589078-69619481 chr14:69589078-69616147;chr14:69616221-69619481 chr14:69616148-69616220 12;16 N cassette CUFF.959 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 8;17 N jcn_only_AD CUFF.943 chr14 + chr14:50065922-50069087 chr14:50068368-50069087 chr14:50065922-50068367 chr14:50065921-50065922 68;14 N jcn_only_AD CUFF.970,CUFF.976 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 22;2 N alternative_acceptor CUFF.978 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 42;0 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104245159-104263707 chr14:104251252-104263707 39;22 N cassette CUFF.946 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 39;61 N alternative_donor CUFF.978 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 12;14 N cassette CUFF.957 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 6;78 K cassette CUFF.972 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 80;292 N jcn_only_AD CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6072015 chr19:6047516-6057172 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 122;10 N alternative_donor chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 20;49 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 29;9 K intron_retention CUFF.1252 chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 9;14 K alternative_donor CUFF.1259 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 6;17 N alternative_donor CUFF.1324 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 14;15 N cassette CUFF.1270 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14867049 chr19:14865766-14865939 20;56 N alternative_last_exon CUFF.1270 chr19 - chr19:14877922-14883153;chr19:14879747-14883153 chr19:14876383-14883153 chr19:14877790-14877921;chr19:14879603-14879746 chr19:14876336-14876382 145;7 K jcn_only_AA CUFF.1265 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 24;74 N alternative_acceptor chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 4;32 K intron_retention CUFF.1272 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 7;11 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 159;10 K cassette CUFF.1245 chr19 - chr19:5897009-5903622 chr19:5897009-5901345;chr19:5901466-5903622 chr19:5901346-5901465 15;13 N alternative_acceptor CUFF.1283 chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 0;27 N jcn_only_AD CUFF.1287,CUFF.1292 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 52;15 K intron_retention CUFF.1277 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 187;95 N jcn_only_AA CUFF.1277 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 75;44 N cassette CUFF.1248 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 15;76 N alternative_acceptor CUFF.1243 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 11;29 N jcn_only_AD CUFF.1272 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 93;2 K cassette CUFF.1325 chr19 + chr19:55084903-55085542 chr19:55084903-55085164;chr19:55085380-55085542 chr19:55085165-55085379 6;18 K cassette CUFF.1257 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 59;18 N alternative_acceptor CUFF.1241,CUFF.1277 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 180;10 K intron_retention CUFF.1245 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 30;18 K intron_retention CUFF.1265 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 32;30 N jcn_only_AA CUFF.1277 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 89;30 N intron_retention CUFF.1303 chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 3;21 N alternative_acceptor CUFF.1278 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 18;2 K coord_cassette CUFF.1319 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 10;69 K alternative_donor CUFF.1292 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 93;47 N alternative_donor CUFF.1241 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 113;86 N alternative_first_exon chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314374 chr19:49314066-49314239 10;18 K jcn_only_AA CUFF.1278 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 6;56 N alternative_acceptor CUFF.1265 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 21;1 N jcn_only_AD chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6110403 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 51;82 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 20;44 K alternative_first_exon CUFF.1319 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51531199 chr19:51528923-51529011 chr19:51530713-51531007;chr19:51529794-51530498;chr19:51531200-51531382 chr19:51529012-51529165 124;22 N jcn_only_AA CUFF.1283 chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 29;5 N alternative_acceptor CUFF.1324 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 14;6 K intron_retention CUFF.1313 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 14;4 N intron_retention CUFF.1241 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 113;70 K cassette CUFF.1325 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 123;26 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 60;45 K alternative_first_exon CUFF.1304 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254484-45254637 chr19:45258343-45258731 9;7 K intron_retention CUFF.1313 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 74;6 N alternative_acceptor CUFF.1265 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 39;45 N jcn_only_AA CUFF.1327 chr19 - chr19:56312543-56312937;chr19:56309671-56312937 chr19:56307617-56312937 13;42 N jcn_only_AD CUFF.1263,CUFF.1298 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 chr19:41939177-41939441 chr19:41939441-41939442 35;34 N jcn_only_AA chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 4;20 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 74;45 N jcn_only_AA CUFF.1298 chr19 - chr19:41939579-41944122 chr19:41942378-41944122 chr19:41939579-41942377 chr19:41939578-41939579 138;94 K intron_retention CUFF.1292 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 229;21 N alternative_donor CUFF.1270 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 151;25 N alternative_acceptor chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 7;7 N jcn_only_AD CUFF.1243 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 40;65 K intron_retention CUFF.1276 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 30;7 K intron_retention CUFF.1292 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 103;24 N coord_cassette CUFF.1278 chr19 + chr19:17581517-17598268 chr19:17581517-17597371;chr19:17597767-17597982;chr19:17598145-17598268 chr19:17597372-17597766;chr19:17597983-17598144 3;41 K intron_retention CUFF.1277 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 528;30 N alternative_acceptor CUFF.1324 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 3;16 N jcn_only_AA chr19 - chr19:33984244-34003498 chr19:34002062-34003498 5;12 K intron_retention CUFF.1322 chr19 + chr19:52918293-52918376 chr19:52918292-52918293;chr19:52918376-52918377 12;3 N intron_retention CUFF.1324 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 6;16 K alternative_first_exon CUFF.1277 chr19 + chr19:17448386-17448816,chr19:17448457-17448816,chr19:17448079-17448816,chr19:17447967-17448816,chr19:17445921-17448816;chr19:17445932-17448816;chr19:17448474-17448816 chr19:17447844-17448816 chr19:17445729-17445931;chr19:17448320-17448473 chr19:17447434-17447843 136;220 N jcn_only_AA CUFF.1243 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 104;5 K intron_retention CUFF.1267 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 15;10 N jcn_only_AA CUFF.1241 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 21;113 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 4;41 K intron_retention CUFF.1272 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 202;12 N alternative_donor CUFF.1278 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 15;18 K mutually_exclusive CUFF.1325 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085164,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085165-55085379 7;47 N jcn_only_AA CUFF.1327 chr19 - chr19:56307617-56312937;chr19:56312543-56312937 chr19:56309671-56312937 52;3 K jcn_only_AA CUFF.1303,CUFF.1324 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 78;12 K intron_retention CUFF.1313 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 98;5 N alternative_donor CUFF.1265 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 27;7 N jcn_only_AA chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 4;26 N alternative_donor CUFF.1298 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 33;45 N alternative_donor CUFF.1303 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 15;21 N jcn_only_AD CUFF.1281 chr19 + chr19:18118652-18119519;chr19:18118181-18119519 chr19:18119394-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 6;26 N jcn_only_AA CUFF.1284 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637275-21638406 chr19:21637274-21637275 102;13 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 10;10 K intron_retention chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 95;27 N jcn_only_AD CUFF.1303 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 30;17 N alternative_acceptor CUFF.1241 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 188;2 N jcn_only_AA CUFF.1321 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 59;4 N alternative_acceptor CUFF.1303 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 22;7 N jcn_only_AA CUFF.1327 chr19 - chr19:56307617-56312937;chr19:56309671-56312937 chr19:56312543-56312937 45;10 K intron_retention CUFF.1267 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 21;7 K cassette CUFF.1272 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 140;79 K jcn_only_AA CUFF.1277 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 11;52 N jcn_only_AD CUFF.1241 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 43;172 N jcn_only_AA CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 311;16 N jcn_only_AD CUFF.1259 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 17;4 N mutually_exclusive CUFF.1248 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 25;7 N jcn_only_AD CUFF.1303 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 45;3 N cassette CUFF.1248 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 9;138 K intron_retention CUFF.1281 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 34;5 N jcn_only_AA CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 318;10 N alternative_acceptor CUFF.1298 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 37;22 K intron_retention CUFF.1296 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 7;11 N jcn_only_AA CUFF.1324 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 26;2 N alternative_donor chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 52;26 K cassette CUFF.1331 chr19 + chr19:58963072-58965062 chr19:58963072-58963494;chr19:58964150-58965062 chr19:58963495-58964149 65;20 K alternative_donor CUFF.1304 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 49;6 N jcn_only_AD CUFF.1262 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 7;6 N cassette CUFF.1322 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 44;19 K intron_retention CUFF.1284 chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 18;7 K jcn_only_AD CUFF.1317 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 48;210 N jcn_only_AD CUFF.1278 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 35;21 N jcn_only_AD CUFF.1288 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 6;17 N jcn_only_AA CUFF.1270 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 47;5 N jcn_only_AD CUFF.1292 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 111;229 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 3;19 K alternative_first_exon CUFF.1327 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56348076-56348245 chr19:56347702-56347880 20;8 K alternative_first_exon CUFF.1277 chr19 + chr19:17448386-17448816,chr19:17448457-17448816,chr19:17448079-17448816,chr19:17447967-17448816,chr19:17445921-17448816;chr19:17445932-17448816;chr19:17447844-17448816 chr19:17448474-17448816 chr19:17445729-17445931;chr19:17447434-17447843 chr19:17448320-17448473 318;38 K intron_retention CUFF.1284 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 82;2 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 20;39 N alternative_acceptor CUFF.1303 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 16;13 K cassette CUFF.1317 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 202;43 N alternative_acceptor chr19 + chr19:1438892-1439714;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1440017 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 60;130 K alternative_first_exon CUFF.1278 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598269-17598338 chr19:17599515-17599748 4;190 K cassette CUFF.1270 chr19 - chr19:14865940-14867049 chr19:14865940-14866465;chr19:14866690-14867049 chr19:14866466-14866689 37;27 N jcn_only_AD CUFF.1281 chr19 + chr19:18119394-18119519;chr19:18118652-18119519 chr19:18118181-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 29;4 N alternative_acceptor CUFF.1324 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 18;1 K alternative_first_exon CUFF.1319 chr19 - chr19:51528923-51530712;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51529793 chr19:51530713-51531007;chr19:51529012-51529165;chr19:51531200-51531382 chr19:51529794-51530498 100;46 N jcn_only_AD CUFF.1303 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 20;28 N alternative_acceptor CUFF.1321 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 48;2 N alternative_donor CUFF.1281 chr19 + chr19:18118652-18119519;chr19:18118181-18119519 chr19:18119394-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 5;16 N jcn_only_AA CUFF.1321 chr19 + chr19:52264484-52271897;chr19:52264484-52266614 chr19:52264484-52265669 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 53;10 K alternative_last_exon CUFF.1284 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21631925-21632179 chr19:21635828-21636081 63;21 K jcn_only_AD CUFF.1296 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 9;27 K cassette CUFF.1257 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 58;54 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 10;9 N cassette CUFF.1248 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 12;24 N cassette CUFF.1277 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 15;102 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 169;13 N jcn_only_AD CUFF.1303 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 21;2 K intron_retention CUFF.1301 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 20;54 N jcn_only_AA chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 7;10 N alternative_acceptor CUFF.1243 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 34;6 N jcn_only_AD CUFF.1298 chr19 - chr19:41944320-41945378;chr19:41944320-41945786 chr19:41944320-41946385 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 182;45 K intron_retention CUFF.1304 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 49;14 K cassette CUFF.1296 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 16;23 K alternative_first_exon CUFF.1253 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217023 chr19:6216416-6216524 7;17 N alternative_donor CUFF.1272 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 93;0 K jcn_only_AA CUFF.1243 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 31;38 N alternative_donor CUFF.1243 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 27;55 N cassette CUFF.1248 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 17;81 N jcn_only_AD chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 96;131 N jcn_only_AA CUFF.1324 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 9;16 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 27;49 N alternative_donor CUFF.1259 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 17;3 N jcn_only_AA CUFF.1319 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 12;127 N alternative_acceptor CUFF.1298 chr19 - chr19:41938968-41939441;chr19:41939340-41939441 chr19:41938314-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 24;35 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 16;10 N alternative_donor CUFF.1272 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 13;54 K intron_retention CUFF.1272 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 43;22 N jcn_only_AA CUFF.1324 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 13;14 K intron_retention CUFF.1277 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 11;18 N jcn_only_AD CUFF.1241 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 113;72 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 61;9 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 9;44 K jcn_only_AA CUFF.1327 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 36;18 N jcn_only_AA CUFF.1298 chr19 - chr19:41938968-41939441;chr19:41939340-41939441 chr19:41938314-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 134;35 K intron_retention CUFF.1281 chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 16;35 N alternative_acceptor CUFF.1311 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 194;15 N intron_retention CUFF.1313 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 9;16 N intron_retention chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 20;17 K alternative_last_exon CUFF.1284 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21636352-21636579 7;83 K jcn_only_AD CUFF.1259 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 6;26 N jcn_only_AA chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 7;16 K intron_retention CUFF.1313 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 34;31 K intron_retention CUFF.1254 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 chr19:6375159-6375627;chr19:6375713-6379069 7;4 N jcn_only_AD CUFF.1314 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 51;41 N jcn_only_AD CUFF.1327 chr19 - chr19:14876383-14883153 chr19:14876383-14876469 9;101 N cassette CUFF.1270 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 16;53 N jcn_only_AA CUFF.1257 chr19 - chr19:8154555-8154982 chr19:8154844-8154982 6;23 N alternative_acceptor CUFF.1319 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 78;3 N cassette CUFF.1322 chr19 + chr19:52909897-52918376 chr19:52909897-52918191;chr19:52918293-52918376 chr19:52918192-52918292 3;7 N coord_cassette CUFF.1270 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14863141-14863338;chr19:14865766-14865939;chr19:14866466-14866689 22;39 N alternative_acceptor CUFF.1303 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 20;9 N alternative_donor CUFF.1241 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 43;100 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 2;48 K alternative_first_exon CUFF.1319 chr19 - chr19:51528923-51529793;chr19:51528923-51529011;chr19:51528923-51531199 chr19:51528923-51530712 chr19:51529794-51530498;chr19:51529012-51529165;chr19:51531200-51531382 chr19:51530713-51531007 104;42 N jcn_only_AD CUFF.1248 chr19 - chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6148241 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 123;10 K alternative_first_exon CUFF.1253,CUFF.1287 chr19 - chr19:33968997-33980901;chr19:33968997-33978155 chr19:33968997-33977808 chr19:33978156-33978388 chr19:33977809-33978072 92;86 N jcn_only_AA CUFF.1311 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 194;39 K cassette CUFF.1310 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 95;12 N alternative_first_exon chr19 - chr19:8154555-8154982 chr19:8154555-8154777 chr19:8154983-8155135 chr19:8154778-8154874 6;25 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 4;28 N coord_cassette CUFF.1270 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 22;50 N alternative_acceptor CUFF.1263 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 41;0 K intron_retention CUFF.1277 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 74;57 K alternative_acceptor CUFF.1255,CUFF.1322 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 3;3 N alternative_donor CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172 chr19:6047516-6072015 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 11;0 N jcn_only_AA CUFF.1263 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 41;3 N alternative_last_exon CUFF.1270 chr19 - chr19:14877922-14883153;chr19:14876383-14883153 chr19:14879747-14883153 chr19:14877790-14877921;chr19:14876336-14876382 chr19:14879603-14879746 72;80 K cassette CUFF.1304 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 2;40 N intron_retention CUFF.1277 chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 44;21 N jcn_only_AA CUFF.1303 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 35;37 K cassette CUFF.1289 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 13;24 N alternative_acceptor CUFF.1324 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 6;14 N alternative_acceptor CUFF.1284 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637275-21638406 chr19:21637274-21637275 102;4 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-33991843 chr19:33984244-34001933 18;16 K alternative_first_exon CUFF.1269 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 8;29 K jcn_only_AD CUFF.1304 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 49;2 N jcn_only_AA CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 290;37 N alternative_acceptor CUFF.1313 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 chr19:50305791-50306205 chr19:50306205-50306206 14;6 N jcn_only_AD CUFF.1259,CUFF.1287 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 377;41 N jcn_only_AD chr19 - chr19:6176455-6199490 chr19:6176455-6199486 55;38 N intron_retention chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 10;23 N alternative_acceptor CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 186;4 K intron_retention CUFF.1241 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 21;70 K intron_retention CUFF.1265 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 27;11 N alternative_donor CUFF.1243 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 110;1 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 247;14 N alternative_donor CUFF.1298,CUFF.1319 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 71;7 N jcn_only_AA CUFF.1324 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 22;3 N jcn_only_AD CUFF.1243 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 110;3 N coord_cassette CUFF.1311 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 126;192 N alternative_donor CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6072015 chr19:6047516-6057172 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 11;0 N jcn_only_AA chr19 - chr19:33984244-34001933 chr19:33991908-34001933 16;15 K alternative_donor CUFF.1274 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 3;10 K intron_retention CUFF.1313 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 24;4 N alternative_acceptor chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 7;13 K alternative_donor CUFF.1296 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 9;13 N jcn_only_AD CUFF.1241 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 247;25 N alternative_acceptor CUFF.1283 chr19 - chr19:20339293-20349096;chr19:20243397-20349096 chr19:20287619-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 27;0 N alternative_donor CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6049146 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 11;0 K intron_retention CUFF.1303 chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 24;21 N jcn_only_AD CUFF.1243 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 70;35 N alternative_acceptor CUFF.1283 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 6;16 N jcn_only_AD CUFF.1324 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 14;37 K alternative_acceptor CUFF.1265 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 24;44 N cassette CUFF.1248 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 76;40 K alternative_first_exon CUFF.1283 chr19 - chr19:20243397-20351308;chr19:20243397-20349096 chr19:20243397-20261169 chr19:20349097-20349333 chr19:20261170-20261357 42;4 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 14;48 N jcn_only_AD CUFF.1272 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 93;12 N mutually_exclusive CUFF.1318 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 66;7 N cassette CUFF.1298 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 23;87 N intron_retention chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 2;4 K intron_retention CUFF.1281 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 30;14 N jcn_only_AD chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 16;14 N alternative_donor CUFF.1259,CUFF.1287 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 377;12 K jcn_only_AD CUFF.1311 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 194;37 N alternative_acceptor CUFF.1324 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 17;2 K intron_retention CUFF.1293 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 29;8 N jcn_only_AA CUFF.1324 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54657681-54658995;chr19:54658996-54659046 chr19:54658995-54658996;chr19:54659046-54659047 19;6 N alternative_acceptor CUFF.1283 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 27;0 N jcn_only_AA CUFF.1265 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 69;36 K jcn_only_AD CUFF.1327 chr19 - chr19:56307617-56312937 chr19:56307617-56309594 42;19 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 4;12 N alternative_donor CUFF.1303 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 24;12 K intron_retention CUFF.1319 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 129;9 N jcn_only_AD chr19 - chr19:33984244-33991843;chr19:33984244-34001933 chr19:33984244-34003498 29;5 N intron_retention chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 3;18 N intron_retention CUFF.1292 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 8;22 N jcn_only_AD CUFF.1272 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 86;19 N jcn_only_AD CUFF.1243 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 99;5 N alternative_acceptor chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 4;13 K intron_retention CUFF.1259 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 17;4 N alternative_donor CUFF.1278 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 28;5 N alternative_acceptor CUFF.1324 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 20;0 N jcn_only_AA CUFF.1265 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 41;63 N jcn_only_AD CUFF.1272 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 85;20 K intron_retention CUFF.1241 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 72;31 N jcn_only_AA CUFF.1321 chr19 + chr19:18118181-18119519 chr19:18118181-18118398 chr19:18118399-18119519 chr19:18119519-18119520 4;5 K jcn_only_AA CUFF.1255,CUFF.1322 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 3;6 N jcn_only_AD CUFF.1322 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 32;37 N jcn_only_AD CUFF.1272 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 51;54 K intron_retention CUFF.1243 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 70;23 N jcn_only_AA CUFF.1296 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 4;2 N jcn_only_AD CUFF.1292 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 237;103 N cassette CUFF.1263 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 20;61 N alternative_donor CUFF.1292 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 267;4 K mutually_exclusive CUFF.1325 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 7;57 N alternative_donor CUFF.1243 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 77;5 N alternative_donor CUFF.1241 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 247;20 N alternative_donor CUFF.1303 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 33;3 N cassette CUFF.1318 chr19 - chr19:51485171-51487106 chr19:51485171-51485582;chr19:51485714-51487106 chr19:51485583-51485713 7;59 N jcn_only_AD CUFF.1278 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 38;18 N jcn_only_AA CUFF.1303 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 24;3 N jcn_only_AA CUFF.1243 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 18;91 K intron_retention CUFF.1313 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 78;29 N alternative_acceptor CUFF.1265 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 48;36 N alternative_acceptor CUFF.1298 chr19 - chr19:41939579-41944122 chr19:41942378-41944122 chr19:41939579-41942377 chr19:41939578-41939579 138;6 K intron_retention CUFF.1292 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 93;25 N cassette CUFF.1310 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 5;77 N alternative_donor CUFF.1262 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11041001-11042936 chr19:11041000-11041001 7;1 N coord_cassette CUFF.1287 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 5;283 N jcn_only_AD CUFF.1269,CUFF.1317 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 238;12 N alternative_last_exon CUFF.1270 chr19 - chr19:14879747-14883153;chr19:14876383-14883153 chr19:14877922-14883153 chr19:14879603-14879746;chr19:14876336-14876382 chr19:14877790-14877921 87;65 N alternative_donor CUFF.1322 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 41;15 N cassette CUFF.1311 chr19 - chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311569-49314240 chr19:49311013-49311568 159;88 N jcn_only_AA CUFF.1283 chr19 - chr19:20287619-20349096;chr19:20339293-20349096 chr19:20243397-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 7;27 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 37;17 K intron_retention CUFF.1277 chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 45;51 K intron_retention CUFF.1320 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 15;10 K alternative_first_exon CUFF.1283,CUFF.1327 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329624 28;35 N jcn_only_AD CUFF.1270 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 151;34 N jcn_only_AA chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 5;95 N jcn_only_AA CUFF.1243 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 97;12 N jcn_only_AA CUFF.1310 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 97;9 N jcn_only_AA CUFF.1298 chr19 - chr19:41938314-41939441;chr19:41939340-41939441 chr19:41938968-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 157;12 N alternative_acceptor CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 153;37 N intron_retention chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 2;57 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 31;38 K intron_retention CUFF.1313 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 116;14 N intron_retention chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 21;128 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 65;10 K alternative_acceptor CUFF.1303,CUFF.1324 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 78;6 N jcn_only_AA CUFF.1265 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 21;12 N alternative_donor chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6110403 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 10;1 K alternative_first_exon CUFF.1321 chr19 + chr19:52266771-52271897,chr19:52265789-52271897;chr19:52264484-52271897 chr19:52271786-52271897 chr19:52264184-52264483 chr19:52271604-52271785 69;23 K alternative_first_exon CUFF.1289 chr19 + chr19:36139796-36142134;chr19:36139306-36142134 chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139554-36139810 13;12 K intron_retention CUFF.1281 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 28;7 N alternative_acceptor CUFF.1321 chr19 + chr19:18118181-18119519 chr19:18118181-18118398 chr19:18118399-18119519 chr19:18119519-18119520 4;17 N jcn_only_AA CUFF.1313 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 chr19:50305791-50306205 chr19:50306205-50306206 14;9 N alternative_acceptor CUFF.1277 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 3;102 N jcn_only_AA CUFF.1278 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 18;26 N intron_retention chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 43;28 K alternative_first_exon CUFF.1313 chr19 + chr19:50305399-50306205 chr19:50305857-50306205 chr19:50305238-50305398 chr19:50305692-50305856 13;59 N alternative_donor CUFF.1288 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 6;8 N alternative_acceptor CUFF.1298 chr19 - chr19:41938314-41939441;chr19:41939340-41939441 chr19:41938968-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 57;2 K intron_retention CUFF.1311 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 357;12 N intron_retention CUFF.1277 chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 30;25 N alternative_donor CUFF.1272 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 66;1 N jcn_only_AA CUFF.1241,CUFF.1277 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 312;15 N alternative_acceptor CUFF.1241 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 183;7 N jcn_only_AA CUFF.1283 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 6;46 K intron_retention CUFF.1292 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 362;16 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 46;23 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 14;50 K intron_retention CUFF.1281 chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 26;6 K cassette CUFF.1325 chr19 + chr19:55084903-55085542 chr19:55084903-55085297;chr19:55085380-55085542 chr19:55085298-55085379 6;18 N jcn_only_AD CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6049146 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 119;14 N alternative_donor CUFF.1243 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 60;22 N alternative_donor CUFF.1322 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 52;4 K alternative_donor CUFF.1317 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 48;148 K alternative_first_exon CUFF.1314 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 18;9 K intron_retention CUFF.1278 chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 4;31 N jcn_only_AD CUFF.1281 chr19 + chr19:18119394-18119519;chr19:18118181-18119519 chr19:18118652-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 30;3 N alternative_acceptor CUFF.1277 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 71;34 N alternative_donor CUFF.1248 chr19 - chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172;chr19:6047516-6072015 chr19:6047516-6148241 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 1;10 N jcn_only_AD CUFF.1248 chr19 - chr19:6047516-6148241;chr19:6047516-6049146;chr19:6047516-6110403;chr19:6047516-6057172 chr19:6047516-6072015 chr19:6049147-6057172;chr19:6057173-6072015;chr19:6072016-6110403;chr19:6110404-6148241 chr19:6057172-6057173;chr19:6072015-6072016;chr19:6110403-6110404;chr19:6148241-6148242 115;17 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 15;11 K intron_retention CUFF.1270 chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 4;9 N jcn_only_AA CUFF.1319 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 78;6 N jcn_only_AA CUFF.1277 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 3;16 N alternative_acceptor CUFF.1241 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 21;82 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 9;69 N jcn_only_AA CUFF.1309 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 406;7 K intron_retention CUFF.1317 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 238;4 N alternative_donor CUFF.1303 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 21;2 N intron_retention chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 39;158 N alternative_acceptor CUFF.1310 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 97;4 N coord_cassette CUFF.1248 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 11;30 K jcn_only_AD CUFF.1292 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 93;97 N intron_retention chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 5;35 K jcn_only_AD CUFF.1274 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 3;12 N alternative_acceptor CUFF.1296 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 4;1 N alternative_donor CUFF.1287,CUFF.1292 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 52;7 N intron_retention chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 2;10 K cassette CUFF.1325 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 127;35 K intron_retention CUFF.1267 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 26;3 N alternative_donor CUFF.1292 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 42;229 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 20;55 K cassette CUFF.1270 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 52;12 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 65;10 N jcn_only_AA CUFF.1265 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 99;5 N jcn_only_AA CUFF.1298 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41938314-41938967;chr19:41938968-41939339 chr19:41938313-41938314;chr19:41938967-41938968 46;122 K alternative_donor CUFF.1242 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 18;3 N alternative_donor CUFF.1272 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 60;7 N alternative_acceptor chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 5;60 K intron_retention CUFF.1331 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 24;50 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 9;20 K alternative_acceptor CUFF.1243 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 31;25 N intron_retention chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 14;44 K cassette CUFF.1274 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 3;6 N alternative_donor chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 16;1 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 15;23 N jcn_only_AA CUFF.1324 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 16;12 N alternative_donor CUFF.1281 chr19 + chr19:18119394-18119519;chr19:18118181-18119519 chr19:18118652-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 20;1 N alternative_donor CUFF.1322 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 19;37 N jcn_only_AA CUFF.1283 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243397-20287618;chr19:20287619-20339292 chr19:20243396-20243397;chr19:20287618-20287619 31;2 N intron_retention chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 13;49 N intron_retention chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 15;14 N alternative_donor CUFF.1272 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 62;5 N alternative_acceptor CUFF.1309 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116565-49117884 chr19:49116564-49116565 406;11 N jcn_only_AD CUFF.1278 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 38;17 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 33;57 N alternative_acceptor CUFF.1265 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 81;3 N alternative_acceptor CUFF.1319 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 12;80 N jcn_only_AA chr19 + chr19:1438892-1439714;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1440017 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 80;247 N jcn_only_AD CUFF.1292 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 332;8 K cassette CUFF.1327 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 29;22 N intron_retention chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 4;7 K jcn_only_AD CUFF.1242 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 18;5 K intron_retention CUFF.1304 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 2;14 K cassette CUFF.1324 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 15;6 K alternative_first_exon CUFF.1277 chr19 + chr19:17448386-17448816,chr19:17448457-17448816,chr19:17448079-17448816,chr19:17447967-17448816,chr19:17445921-17448816;chr19:17448474-17448816;chr19:17447844-17448816 chr19:17445932-17448816 chr19:17448320-17448473;chr19:17447434-17447843 chr19:17445729-17445931 352;4 N cassette CUFF.1270 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 22;65 N jcn_only_AD CUFF.1322 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 63;6 K intron_retention CUFF.1313 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 81;3 K intron_retention CUFF.1313 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 31;36 K intron_retention CUFF.1292 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 97;23 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-34001933 chr19:33984244-33991843 21;13 K cassette CUFF.1318 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 68;26 N jcn_only_AD CUFF.1278 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 200;16 K intron_retention CUFF.1243 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 16;31 K intron_retention CUFF.1317 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 191;64 N alternative_acceptor CUFF.1277 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 79;26 N cassette CUFF.1287 chr19 - chr19:33882386-33892626 chr19:33882386-33886995;chr19:33887062-33892626 chr19:33886996-33887061 14;134 N coord_cassette CUFF.1270 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 20;28 N intron_retention chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 21;81 N jcn_only_AD CUFF.1298,CUFF.1319 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41945379-41945786;chr19:41945787-41946385 chr19:41945786-41945787;chr19:41946385-41946386 177;51 K intron_retention CUFF.1293 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 31;3 N cassette CUFF.1248 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 33;166 N alternative_acceptor CUFF.1243 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 35;5 K alternative_acceptor CUFF.1277 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 11;34 N alternative_acceptor CUFF.1321 chr19 + chr19:52264484-52271897;chr19:52264484-52265669 chr19:52264484-52266614 chr19:52265670-52266614;chr19:52266615-52271897 chr19:52266614-52266615;chr19:52271897-52271898 50;0 N alternative_acceptor CUFF.1270 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 47;1 K intron_retention CUFF.1281 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 45;5 N alternative_donor CUFF.1278 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 200;26 N jcn_only_AA CUFF.1303 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 50;21 N alternative_donor CUFF.1292 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 233;38 K alternative_last_exon CUFF.1272 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206238 45;4 N coord_cassette CUFF.1248 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 71;8 K alternative_first_exon CUFF.1319 chr19 - chr19:51528923-51530712;chr19:51528923-51529793;chr19:51528923-51529011 chr19:51528923-51531199 chr19:51530713-51531007;chr19:51529794-51530498;chr19:51529012-51529165 chr19:51531200-51531382 110;36 N alternative_acceptor CUFF.1303 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 24;7 N cassette CUFF.1263 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 22;42 N jcn_only_AD CUFF.1322 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 44;26 N alternative_donor CUFF.1263,CUFF.1298 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 chr19:41939177-41939441 chr19:41939441-41939442 35;21 N jcn_only_AA CUFF.1241 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 324;3 K intron_retention CUFF.1241 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 172;24 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 25;14 N alternative_donor CUFF.1281 chr19 + chr19:18119394-18119519;chr19:18118652-18119519 chr19:18118181-18119519 chr19:18118181-18118651;chr19:18118652-18119393 chr19:18118180-18118181;chr19:18118651-18118652 17;4 N jcn_only_AA CUFF.1303 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 58;13 K intron_retention CUFF.1303 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 17;18 N alternative_donor CUFF.1278 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 23;10 N alternative_donor CUFF.1269,CUFF.1317 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 238;7 N jcn_only_AD CUFF.1265 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 27;4 K alternative_first_exon CUFF.1272 chr19 + chr19:16178773-16186856;chr19:16178549-16186856 chr19:16186520-16186856 chr19:16178344-16178548 chr19:16186427-16186519 70;23 K alternative_donor CUFF.1311 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 194;117 N alternative_donor CUFF.1314 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 51;22 N jcn_only_AA CUFF.1233 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 3;6 K alternative_acceptor CUFF.1215 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 22;113 N jcn_only_AD CUFF.1219 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 143;36 K cassette CUFF.1206 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 13;17 N alternative_donor CUFF.1219 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 92;1 N jcn_only_AD CUFF.1219 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 165;14 N jcn_only_AD CUFF.1219 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 96;84 N alternative_donor CUFF.1219 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 163;4 K alternative_last_exon CUFF.1229 chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391127 chr18:61378569-61378628 23;30 K jcn_only_AA CUFF.1233 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 19;37 N jcn_only_AA chr18 + chr18:55711941-56057877 chr18:55711941-55833019 19;84 K alternative_first_exon CUFF.1237 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441436-77441517 6;66 N jcn_only_AA CUFF.1209 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 152;13 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47337765 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 73;1 N alternative_acceptor CUFF.1216 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 15;13 N jcn_only_AD CUFF.1238 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 14;6 N jcn_only_AA CUFF.1219,CUFF.1238 chr18 + chr18:55833094-55912658 chr18:55833094-55895061 chr18:55895062-55912658 chr18:55912658-55912659 82;21 N alternative_donor CUFF.1219 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 91;2 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47340051 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 42;32 N jcn_only_AD CUFF.1236 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 27;4 N alternative_donor CUFF.1219 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 91;2 N jcn_only_AA CUFF.1233 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 13;35 N coord_cassette CUFF.1219 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 19;25 K jcn_only_AD CUFF.1212 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 21;7 N jcn_only_AD CUFF.1219 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 173;6 K intron_retention CUFF.1215 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 152;14 N alternative_donor CUFF.1238 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77867357-77867905 chr18:77867356-77867357 14;4 N jcn_only_AA CUFF.1209 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 194;6 K alternative_donor CUFF.1212 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 21;9 N alternative_acceptor chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 15;6 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 102;18 K intron_retention CUFF.1209 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 98;44 K intron_retention CUFF.1230 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 11;10 K mutually_exclusive CUFF.1206 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 11;3 N cassette CUFF.1209 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 17;124 K cassette CUFF.1226 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 8;11 N mutually_exclusive CUFF.1216 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 22;11 N jcn_only_AD CUFF.1234 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 95;6 N alternative_acceptor chr18 + chr18:12014373-12021700;chr18:12014373-12017612 chr18:12014373-12028041 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 1;143 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 2;5 N jcn_only_AA CUFF.1212 chr18 + chr18:55862966-55912658 chr18:55862966-55895061 chr18:55895062-55912658 chr18:55912658-55912659 3;5 N jcn_only_AD CUFF.1219 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 171;9 K jcn_only_AA CUFF.1212,CUFF.1231 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 7;13 N alternative_donor CUFF.1219 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 2;5 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 21;9 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 21;10 N jcn_only_AA chr18 + chr18:12014373-12021700;chr18:12014373-12017612 chr18:12014373-12028041 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 22;143 N jcn_only_AD CUFF.1215 chr18 - chr18:44301433-44336340 chr18:44301433-44310168 chr18:44310169-44336340 chr18:44336340-44336341 102;28 N cassette CUFF.1237 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 3;8 K intron_retention CUFF.1215 chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 22;53 N jcn_only_AA CUFF.1229 chr18 + chr18:55888990-55912658 chr18:55888990-55895061 chr18:55895062-55912658 chr18:55912658-55912659 5;18 N jcn_only_AD CUFF.1219 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 168;11 N alternative_donor CUFF.1219 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 93;0 N alternative_donor CUFF.1219 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 161;3 K mutually_exclusive CUFF.1206 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 13;3 K alternative_last_exon CUFF.1228 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060642-61060782 chr18:61060787-61060799 26;10 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47339094 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 115;4 N alternative_donor CUFF.1215 chr18 - chr18:44301433-44336340 chr18:44301433-44310168 chr18:44310169-44336340 chr18:44336340-44336341 102;0 N alternative_acceptor CUFF.1219,CUFF.1238 chr18 + chr18:55833094-55912658 chr18:55833094-55895061 chr18:55895062-55912658 chr18:55912658-55912659 82;0 N jcn_only_AD chr18 + chr18:55833094-55895061;chr18:55888990-55895061 chr18:55862966-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 38;5 N alternative_donor CUFF.1236 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 21;1 N jcn_only_AD CUFF.1209 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 194;9 N alternative_donor CUFF.1219 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 9;84 N jcn_only_AD CUFF.1219 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 161;10 N alternative_donor CUFF.1219 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 93;0 N jcn_only_AD chr18 + chr18:55833094-55895061;chr18:55862966-55895061 chr18:55888990-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 26;18 N jcn_only_AA CUFF.1233 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 7;2 K cassette CUFF.1219 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 80;15 N jcn_only_AD chr18 + chr18:55888990-55895061;chr18:55862966-55895061 chr18:55833094-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 22;21 N cassette CUFF.1216 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 3;29 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47340051 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 65;54 N jcn_only_AD CUFF.1234 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 95;7 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47340101 chr18:47329224-47339838 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 62;12 N alternative_donor chr18 + chr18:55833094-55895061;chr18:55888990-55895061 chr18:55862966-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 21;0 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47339094 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 72;2 N jcn_only_AD CUFF.1213 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 5;2 K cassette CUFF.1238 chr18 + chr18:77891076-77893494 chr18:77891076-77891574;chr18:77891690-77893494 chr18:77891575-77891689 22;2 K jcn_only_AD CUFF.1229 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 11;28 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 18;4 K cassette CUFF.1237 chr18 + chr18:77489070-77513651 chr18:77489070-77496354;chr18:77496522-77513651 chr18:77496355-77496521 6;15 N jcn_only_AA CUFF.1216 chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 15;35 N alternative_donor CUFF.1234 chr18 - chr18:72914296-72917147;chr18:72914296-72920315 chr18:72914296-72920374 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 45;7 K cassette CUFF.1215 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 3;96 N alternative_acceptor CUFF.1212 chr18 + chr18:55862966-55912658 chr18:55862966-55895061 chr18:55895062-55912658 chr18:55912658-55912659 3;0 N jcn_only_AD CUFF.1219 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 176;4 N cassette CUFF.1229 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 3;35 K alternative_first_exon CUFF.1213 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728271-14728513 chr18:14796342-14796414 6;2 N alternative_donor CUFF.1219 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 90;3 N cassette CUFF.1216 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 8;67 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47340186 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 68;6 N jcn_only_AD CUFF.1209 chr18 + chr18:11981765-11999052;chr18:11981205-11999052 chr18:11981130-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 45;25 N jcn_only_AD CUFF.1219 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 221;6 N alternative_donor CUFF.1219 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 221;0 N cassette CUFF.1219 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 19;114 K alternative_last_exon CUFF.1216 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398134-44398410 10;22 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 21;2 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47337765 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 115;4 N jcn_only_AD CUFF.1209 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 41;29 N alternative_donor CUFF.1219 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 171;1 N alternative_first_exon CUFF.1219 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711527-55711940 chr18:56056317-56056424 10;179 N alternative_acceptor CUFF.1209 chr18 + chr18:12014373-12021700;chr18:12014373-12028041 chr18:12014373-12017612 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 143;1 K jcn_only_AA CUFF.1232 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 42;27 N alternative_donor CUFF.1236 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 5;17 N alternative_donor CUFF.1209 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 194;0 N alternative_acceptor CUFF.1209,CUFF.1213 chr18 + chr18:14791491-14796341 chr18:14791491-14796219 chr18:14796220-14796341 chr18:14796341-14796342 5;1 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 3;0 K alternative_donor CUFF.1238 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 14;7 K alternative_first_exon CUFF.1206 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158304-158714 chr18:158828-159021 4;23 N jcn_only_AD chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 13;88 N cassette CUFF.1219 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 2;185 K jcn_only_AD CUFF.1238 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 14;12 K intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 18;17 N alternative_first_exon chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624477 chr18:67613970-67614305 15;28 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 86;33 N jcn_only_AD CUFF.1219 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 168;12 N jcn_only_AA chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 15;12 N alternative_donor CUFF.1209 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 143;2 N alternative_acceptor CUFF.1209 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 144;0 N jcn_only_AD CUFF.1236 chr18 - chr18:76737430-76737554;chr18:76737430-76738462 chr18:76737430-76738785 chr18:76737555-76738462;chr18:76738463-76738785 chr18:76738462-76738463;chr18:76738785-76738786 14;17 K cassette CUFF.1228 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 28;31 K intron_retention CUFF.1212 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 21;5 N alternative_donor CUFF.1234 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 51;1 N jcn_only_AD CUFF.1219 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 178;2 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 21;39 K jcn_only_AA CUFF.1237 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 95;31 N alternative_donor CUFF.1209 chr18 + chr18:11981765-11999052;chr18:11981205-11999052 chr18:11981130-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 28;25 N cassette CUFF.1206 chr18 + chr18:166820-180235 chr18:166820-178932;chr18:179038-180235 chr18:178933-179037 4;10 N cassette CUFF.1215 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 13;62 N jcn_only_AD CUFF.1219 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 169;11 K alternative_first_exon CUFF.1216 chr18 - chr18:44486279-44497964;chr18:44486279-44500021 chr18:44486279-44497284 chr18:44500022-44500200 chr18:44497285-44497527 37;32 K alternative_last_exon CUFF.1231 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63476940-63477234 chr18:63470351-63471046 22;26 K cassette CUFF.1228 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 37;13 N alternative_acceptor CUFF.1209 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 194;4 N alternative_donor CUFF.1209 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 35;18 N coord_cassette CUFF.1215 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 13;88 K alternative_acceptor CUFF.1212,CUFF.1231 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 7;7 N alternative_donor chr18 + chr18:55888990-55895061;chr18:55862966-55895061 chr18:55833094-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 0;21 K alternative_last_exon CUFF.1213 chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14822604-14822676 chr18:14808671-14808730 1;2 N jcn_only_AA CUFF.1233 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 19;12 N alternative_acceptor CUFF.1233 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 13;37 N alternative_donor CUFF.1213 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 5;0 N jcn_only_AD CUFF.1219 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 163;19 K alternative_first_exon CUFF.1233 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67628828-67629132 chr18:67623991-67624477 16;9 N alternative_acceptor CUFF.1233 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 19;0 N alternative_donor chr18 + chr18:55833094-55895061;chr18:55862966-55895061 chr18:55888990-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 21;0 N jcn_only_AD CUFF.1209 chr18 + chr18:12014373-12028041 chr18:12021822-12028041 chr18:12014373-12021821 chr18:12014372-12014373 143;9 N cassette CUFF.1206 chr18 + chr18:163454-178932 chr18:163454-166786;chr18:166820-178932 chr18:166787-166819 14;5 K alternative_acceptor CUFF.1232 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 42;14 N jcn_only_AA CUFF.1209 chr18 + chr18:12014373-12017612;chr18:12014373-12028041 chr18:12014373-12021700 chr18:12017613-12021700;chr18:12021701-12028041 chr18:12021700-12021701;chr18:12028041-12028042 155;10 K alternative_first_exon CUFF.1219 chr18 + chr18:55895121-55912658,chr18:55888990-55912658,chr18:55862966-55912658,chr18:55895140-55912658;chr18:55833094-55912658 chr18:55865102-55912658 chr18:55833020-55833093 chr18:55864965-55865101 109;60 N jcn_only_AD CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47339838;chr18:47329224-47340101 chr18:47329224-47340186 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 113;6 K cassette CUFF.1206 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 19;21 N jcn_only_AA CUFF.1233 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 8;1 K intron_retention CUFF.1216 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 40;25 K intron_retention CUFF.1219 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 255;8 N alternative_donor CUFF.1218 chr18 - chr18:47329224-47337765;chr18:47329224-47340051;chr18:47329224-47339094;chr18:47329224-47340186;chr18:47329224-47339838 chr18:47329224-47340101 chr18:47337766-47339094;chr18:47339095-47339838;chr18:47339839-47340051;chr18:47340052-47340101;chr18:47340102-47340186 chr18:47339094-47339095;chr18:47339838-47339839;chr18:47340051-47340052;chr18:47340101-47340102;chr18:47340186-47340187 chr18:47329057-47329223;chr18:47340187-47340402 53;21 N jcn_only_AD CUFF.1209 chr18 + chr18:11981130-11999052;chr18:11981765-11999052 chr18:11981205-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 54;16 K alternative_first_exon CUFF.1231 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417398-63417616 chr18:63417846-63418386 10;8 N alternative_donor CUFF.1209 chr18 + chr18:11981130-11999052;chr18:11981765-11999052 chr18:11981205-11999052 chr18:11981130-11981204;chr18:11981205-11981764 chr18:11981129-11981130;chr18:11981204-11981205 43;10 N alternative_donor CUFF.1219 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 93;0 N jcn_only_AA CUFF.1209,CUFF.1213 chr18 + chr18:14791491-14796341 chr18:14791491-14796219 chr18:14796220-14796341 chr18:14796341-14796342 5;3 N alternative_first_exon chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44500022-44500200 chr18:44486190-44486287 32;12 N alternative_donor CUFF.1219 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 92;1 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 3;12 N cassette CUFF.1216 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 11;51 K alternative_last_exon CUFF.1207 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807932-4807994 7;10 N alternative_donor chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72917148-72920315;chr18:72920316-72920374 chr18:72920315-72920316;chr18:72920374-72920375 8;44 N jcn_only_AD CUFF.1219 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 2;45 N alternative_acceptor CUFF.1229 chr18 + chr18:55888990-55912658 chr18:55888990-55895061 chr18:55895062-55912658 chr18:55912658-55912659 5;0 N mutually_exclusive CUFF.1237 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 4;4 K jcn_only_AD CUFF.1229 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 6;54 K jcn_only_AA CUFF.1215 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 22;152 N jcn_only_AA CUFF.1420 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 7;8 N jcn_only_AD CUFF.1406 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 6;5 K cassette CUFF.1425 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 35;15 K alternative_first_exon CUFF.1411 chrX + chrX:15699311-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15693696-15706783 chrX:15693055-15693091;chrX:15693813-15693901 chrX:15693646-15693695 29;3 K jcn_only_AD CUFF.1422 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 49;16 K intron_retention CUFF.1414 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 11;7 K intron_retention CUFF.1453 chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 7;5 N alternative_donor CUFF.1452 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 3;4 N alternative_acceptor CUFF.1437 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 12;0 K jcn_only_AD CUFF.1414,CUFF.1433 chrX - chrX:106224708-106235517 chrX:106224708-106228325 3;4 K intron_retention CUFF.1410 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 21;43 K intron_retention CUFF.1417 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 4;6 N alternative_acceptor CUFF.1436 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 35;1 N jcn_only_AD CUFF.1414,CUFF.1433 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 26;3 K intron_retention CUFF.1408 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 30;5 K intron_retention CUFF.1434 chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 51;50 N jcn_only_AD CUFF.1452 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 35;2 K cassette CUFF.1428 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 37;7 N alternative_donor CUFF.1434 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 103;7 N jcn_only_AD CUFF.1434 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 103;9 N alternative_donor CUFF.1407,CUFF.1408 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 134;1 N jcn_only_AA CUFF.1415 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 28;2 K jcn_only_AA CUFF.1429 chrX - chrX:85219058-85302487 chrX:85282562-85302487 3;30 K jcn_only_AD CUFF.1443 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 2;4 K cassette CUFF.1422 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 10;5 K intron_retention CUFF.1443 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 2;3 K cassette CUFF.1422 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 23;24 N alternative_donor CUFF.1429 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 30;1 N cassette CUFF.1410 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 21;7 K intron_retention CUFF.1453 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 35;3 N jcn_only_AD CUFF.1425,CUFF.1435 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 53;6 K jcn_only_AA CUFF.1418 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 14;10 N jcn_only_AA CUFF.1437 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 18;21 N cassette CUFF.1434 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 57;42 N jcn_only_AA CUFF.1414 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 3;26 K jcn_only_AD CUFF.1453 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 7;22 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 4;3 K alternative_last_exon CUFF.1411 chrX + chrX:15711182-15713793;chrX:15711182-15720904 chrX:15711182-15715362 chrX:15720905-15721810 chrX:15715363-15715888 34;32 N jcn_only_AA CUFF.1415 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 5;43 K jcn_only_AD CUFF.1418 chrX + chrX:45129987-45184737 chrX:45184464-45184737 12;34 K intron_retention chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 5;18 N cassette CUFF.1408 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 48;36 K alternative_acceptor CUFF.1415 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 31;4 K alternative_first_exon CUFF.1414,CUFF.1415 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953927-19954016 chrX:19953476-19953785 16;59 N intron_retention chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 6;20 N intron_retention chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 6;13 K alternative_last_exon CUFF.1443 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654547 chrX:133634060-133634698 4;5 N alternative_acceptor CUFF.1420 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 4;1 K alternative_last_exon CUFF.1408 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13789150-13791149 chrX:13792061-13792743 13;81 N alternative_acceptor CUFF.1420 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 5;0 N alternative_acceptor CUFF.1437 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 12;0 N jcn_only_AA CUFF.1407 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 5;22 N jcn_only_AD CUFF.1407,CUFF.1408 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 134;15 K alternative_acceptor CUFF.1418 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 14;13 K cassette CUFF.1414 chrX - chrX:19935453-19947902 chrX:19935453-19941275;chrX:19941526-19947902 chrX:19941276-19941525 54;25 K alternative_first_exon CUFF.1415 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237170 30;46 N alternative_donor CUFF.1406 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 6;15 N alternative_acceptor CUFF.1415 chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 28;0 N alternative_acceptor CUFF.1414 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 3;4 K alternative_first_exon CUFF.1411 chrX + chrX:15699311-15706783;chrX:15693696-15706783;chrX:15693902-15706783 chrX:15693092-15706783 chrX:15693646-15693695;chrX:15693813-15693901 chrX:15693055-15693091 21;11 N alternative_acceptor CUFF.1411 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 59;1 N alternative_donor CUFF.1434 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 167;5 K alternative_first_exon CUFF.1411 chrX + chrX:15699311-15706783;chrX:15693696-15706783;chrX:15693092-15706783 chrX:15693902-15706783 chrX:15693646-15693695;chrX:15693055-15693091 chrX:15693813-15693901 19;13 K intron_retention CUFF.1425 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 9;23 N cassette CUFF.1453 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 4;24 N alternative_donor CUFF.1414,CUFF.1433 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955536-19955622 chrX:19955622-19955623 26;1 K alternative_acceptor CUFF.1422,CUFF.1447 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 3;1 N jcn_only_AD CUFF.1415 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 28;4 K intron_retention CUFF.1429 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 19;4 N jcn_only_AD CUFF.1452 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 27;10 K jcn_only_AD CUFF.1420 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 8;9 K intron_retention CUFF.1420 chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 8;18 N jcn_only_AD CUFF.1434 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 167;5 N jcn_only_AD CUFF.1452 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 12;25 K jcn_only_AA CUFF.1415 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 31;3 K alternative_last_exon CUFF.1433 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106235518-106235660;chrX:106229213-106229430 chrX:106057101-106059016 7;3 N alternative_donor CUFF.1425,CUFF.1435 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 53;4 K cassette CUFF.1430 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 3;17 K cassette CUFF.1434 chrX + chrX:107369418-107372010 chrX:107369418-107370022;chrX:107370325-107372010 chrX:107370023-107370324 34;52 N alternative_donor CUFF.1452 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 6;1 K alternative_donor CUFF.1422 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 49;8 K jcn_only_AA CUFF.1406 chrX - chrX:9050777-9130837 chrX:9130355-9130837 5;6 N alternative_first_exon CUFF.1410 chrX - chrX:15344169-15349337,chrX:15344169-15349995;chrX:15344169-15353622 chrX:15344169-15349711 chrX:15353623-15353676 chrX:15349712-15350133 7;6 K jcn_only_AA CUFF.1422,CUFF.1447 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 3;2 N alternative_donor CUFF.1448 chrX + chrX:148863659-148867663 chrX:148867506-148867663 chrX:148863659-148867505 chrX:148863658-148863659 9;0 K alternative_first_exon CUFF.1418 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042417-45042589 chrX:45182792-45182892 11;12 K intron_retention CUFF.1408 chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 44;8 N jcn_only_AD CUFF.1408 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 36;14 K mutually_exclusive CUFF.1406 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 19;2 N jcn_only_AA CUFF.1420 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 12;3 N jcn_only_AD CUFF.1436 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 35;13 N alternative_donor CUFF.1415 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 28;0 N alternative_donor CUFF.1408 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 36;1 N jcn_only_AA CUFF.1411 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 59;7 N jcn_only_AA CUFF.1436 chrX + chrX:114536689-114540769 chrX:114536689-114537864 chrX:114537865-114540769 chrX:114540769-114540770 35;12 K jcn_only_AD CUFF.1422 chrX + chrX:47035986-47040613 chrX:47039906-47040613 2;57 N alternative_acceptor CUFF.1407 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 5;19 N cassette CUFF.1410 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 7;139 K alternative_donor CUFF.1453 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 7;12 K intron_retention CUFF.1414 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 3;10 N alternative_acceptor CUFF.1437 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 12;0 K alternative_donor CUFF.1420 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 8;10 N alternative_donor CUFF.1408,CUFF.1433 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 142;3 N cassette CUFF.1434 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 8;61 N intron_retention CUFF.1451 chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 7;11 K intron_retention CUFF.1434 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 103;5 N alternative_acceptor CUFF.1415 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 5;31 K jcn_only_AA CUFF.1422 chrX + chrX:47035986-47040613 chrX:47035986-47038501 2;22 K alternative_first_exon CUFF.1415 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20285157-20285607 chrX:20258687-20258723 13;22 N alternative_acceptor CUFF.1437 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;12 K intron_retention CUFF.1414 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 5;5 N alternative_acceptor CUFF.1420 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 1;4 N coord_cassette CUFF.1434 chrX + chrX:107369418-107374489 chrX:107369418-107370022;chrX:107370325-107372010;chrX:107372083-107374489 chrX:107370023-107370324;chrX:107372011-107372082 57;45 N jcn_only_AA CUFF.1437 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 26;12 N jcn_only_AD CUFF.1408,CUFF.1433 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 142;12 N alternative_donor CUFF.1436 chrX + chrX:114536689-114540769 chrX:114537984-114540769 chrX:114536689-114537983 chrX:114536688-114536689 35;1 N jcn_only_AD CUFF.1448 chrX + chrX:148863659-148867663 chrX:148867506-148867663 chrX:148863659-148867505 chrX:148863658-148863659 9;2 K cassette CUFF.1428 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 9;15 N jcn_only_AA CUFF.1437 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 35;3 K alternative_first_exon CUFF.1406 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9050620-9050776 chrX:9001893-9002215 5;13 N jcn_only_AD CUFF.1429 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 30;3 K alternative_donor CUFF.1443 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 2;4 K alternative_last_exon CUFF.1433 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106057101-106059016;chrX:106229213-106229430 chrX:106235518-106235660 7;3 K alternative_first_exon CUFF.1428 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003129-78003531 chrX:78006707-78006808 8;8 N coord_cassette CUFF.1434 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 11;89 N jcn_only_AA CUFF.1437 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 36;2 K alternative_first_exon CUFF.1445 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250756-134250852 63;6 N jcn_only_AA CUFF.1420 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 11;4 K intron_retention CUFF.1420 chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 9;17 K alternative_first_exon CUFF.1407 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645820 chrX:10588330-10588421 135;8 N jcn_only_AD CUFF.1415 chrX - chrX:114358566-114364717 chrX:114358566-114361405 2;1 K alternative_first_exon CUFF.1451 chrX - chrX:152988744-152988962,chrX:152988744-152989409,chrX:152988744-152989470,chrX:152988744-152989788;chrX:152988744-152989941 chrX:152988744-152989655 chrX:152989942-152990241 chrX:152989656-152989838 59;6 N alternative_donor CUFF.1452 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238312-153238337;chrX:153238338-153246074 chrX:153238311-153238312;chrX:153238337-153238338 chrX:153247301-153248646;chrX:153237778-153238311 5;2 K alternative_last_exon CUFF.1433 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106057101-106059016;chrX:106235518-106235660 chrX:106229213-106229430 6;4 K intron_retention CUFF.1392 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 15;14 K cassette CUFF.1397 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 28;70 N alternative_first_exon CUFF.1397 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45148508-45182336 chr22:45130907-45131042;chr22:45161745-45162069;chr22:45122457-45122514 chr22:45148371-45148507 57;18 N alternative_donor CUFF.1383 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 5;15 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 85;29 N alternative_donor chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 5;5 N alternative_acceptor CUFF.1394 chr22 + chr22:37697061-37697921;chr22:37697061-37697975 chr22:37697061-37699294 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 19;7 K jcn_only_AD CUFF.1379 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 17;25 N jcn_only_AD CUFF.1379 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 51;7 N jcn_only_AD CUFF.1379 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 78;7 N alternative_acceptor CUFF.1387 chr22 + chr22:29684776-29686401;chr22:29684776-29687553 chr22:29684776-29687550 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 57;5 K intron_retention CUFF.1377 chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 36;2 K intron_retention CUFF.1372 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 36;31 K cassette CUFF.1377 chr22 + chr22:20755049-20759666 chr22:20755049-20755566;chr22:20755663-20759666 chr22:20755567-20755662 4;65 N alternative_acceptor chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 10;13 N jcn_only_AA CUFF.1372 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 135;3 K intron_retention CUFF.1392 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 16;6 K intron_retention CUFF.1385 chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 27;9 N jcn_only_AA CUFF.1379 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 51;4 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 20;4 K alternative_acceptor CUFF.1387 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 7;128 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 51;40 K intron_retention CUFF.1385 chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 3;10 K jcn_only_AD CUFF.1387 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 31;40 N alternative_acceptor CUFF.1386 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 9;0 N alternative_donor chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 85;23 K alternative_last_exon CUFF.1385 chr22 + chr22:25855483-25905149;chr22:25855483-25856833 chr22:25855483-25915889 chr22:25905150-25905309;chr22:25856834-25857645 chr22:25915890-25916129 38;36 N jcn_only_AA CUFF.1387 chr22 + chr22:29684776-29686401;chr22:29684776-29687553 chr22:29684776-29687550 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 68;7 K cassette CUFF.1399 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 140;48 N mutually_exclusive CUFF.1399 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 12;20 N alternative_acceptor CUFF.1394 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 4;9 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 18;7 N jcn_only_AA chr22 + chr22:45204319-45204885 chr22:45204319-45204551 16;3 K intron_retention CUFF.1402 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 83;23 N jcn_only_AD CUFF.1402 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 89;3 K intron_retention CUFF.1392 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 33;15 N alternative_first_exon CUFF.1397 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45122515-45182336 chr22:45162070-45182336 chr22:45130907-45131042;chr22:45148371-45148507;chr22:45122457-45122514 chr22:45161745-45162069 40;35 N jcn_only_AD chr22 + chr22:37697061-37699294 chr22:37698073-37699294 chr22:37697061-37698072 chr22:37697060-37697061 7;5 N coord_cassette CUFF.1377 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20755566;chr22:20755663-20759666 chr22:20754922-20755048;chr22:20755567-20755662 4;43 N jcn_only_AA CUFF.1380 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 2;4 N jcn_only_AD CUFF.1394 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 12;30 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 12;55 N alternative_acceptor CUFF.1394 chr22 + chr22:37697061-37699294;chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 8;18 K cassette CUFF.1383 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 7;2 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 2;16 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 22;12 N jcn_only_AD CUFF.1383 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 5;9 K alternative_donor CUFF.1377 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 14;56 N cassette CUFF.1399 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 21;37 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 5;13 K intron_retention CUFF.1387 chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 48;10 N cassette CUFF.1387 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 15;119 K alternative_donor CUFF.1373 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 4;41 N alternative_acceptor CUFF.1387 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 20;3 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 22;2 N jcn_only_AA CUFF.1394 chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 4;11 K jcn_only_AD CUFF.1379 chr22 + chr22:21058172-21058255;chr22:21057981-21058255 chr22:21058040-21058255 36;153 N coord_cassette CUFF.1399 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 3;40 N jcn_only_AA CUFF.1392 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 5;299 N jcn_only_AA CUFF.1380 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 18;10 N alternative_acceptor CUFF.1394 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 131;2 K intron_retention CUFF.1377 chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 14;9 N jcn_only_AD CUFF.1402 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 63;19 N jcn_only_AA CUFF.1387 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 97;7 N jcn_only_AD CUFF.1372 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 13;91 N coord_cassette CUFF.1377 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20753884;chr22:20753981-20754921 chr22:20749623-20749708;chr22:20753885-20753980 10;29 N jcn_only_AD CUFF.1402 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 20;18 N cassette CUFF.1402 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 11;57 K jcn_only_AA CUFF.1384 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 10;5 N jcn_only_AA CUFF.1394 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 133;6 N jcn_only_AA CUFF.1387 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 156;37 K cassette CUFF.1377 chr22 + chr22:20749709-20754921 chr22:20749709-20753884;chr22:20753981-20754921 chr22:20753885-20753980 40;30 N alternative_acceptor CUFF.1387 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 16;7 N jcn_only_AD CUFF.1402 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 43;48 K jcn_only_AA CUFF.1387 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 7;260 K intron_retention CUFF.1387 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 106;6 N alternative_donor CUFF.1402 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 61;1 K cassette CUFF.1387 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 131;114 N alternative_donor chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 22;40 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 14;15 N alternative_donor CUFF.1379 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 78;44 K intron_retention CUFF.1387 chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 20;6 N cassette CUFF.1377 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 10;41 K cassette CUFF.1399 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 14;49 N jcn_only_AA CUFF.1386 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 9;5 N jcn_only_AA chr22 + chr22:45122515-45182336 chr22:45122515-45127609 6;13 N coord_cassette CUFF.1402 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 11;54 N jcn_only_AD CUFF.1387 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 321;3 K mutually_exclusive CUFF.1397 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 22;8 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 3;130 N alternative_first_exon CUFF.1397 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45148508-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45131043-45182336 chr22:45148371-45148507;chr22:45161745-45162069;chr22:45122457-45122514 chr22:45130907-45131042 69;6 K jcn_only_AD CUFF.1373 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 4;51 N jcn_only_AA CUFF.1387 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 186;7 N jcn_only_AD CUFF.1387 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 15;106 N cassette CUFF.1372 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 4;75 N jcn_only_AD chr22 + chr22:45204613-45210551 chr22:45204979-45210551 3;10 N intron_retention CUFF.1402 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 19;14 N intron_retention chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 3;16 K intron_retention CUFF.1402 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 99;7 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 5;91 K intron_retention CUFF.1402 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 44;110 N jcn_only_AA CUFF.1394 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 136;3 K intron_retention CUFF.1385 chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 31;6 N jcn_only_AA CUFF.1402 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 5;44 K jcn_only_AD CUFF.1379 chr22 + chr22:21058040-21058255;chr22:21058172-21058255 chr22:21057981-21058255 154;34 N coord_cassette CUFF.1399 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 3;41 K alternative_acceptor CUFF.1386 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 9;27 N alternative_donor CUFF.1402 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 63;16 N alternative_donor CUFF.1402 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 41;21 K intron_retention CUFF.1402 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 107;162 N jcn_only_AD CUFF.1402 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 73;109 N intron_retention CUFF.1397 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 3;19 N intron_retention chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 18;67 K cassette CUFF.1399 chr22 + chr22:47158746-47188416 chr22:47158746-47184876;chr22:47184935-47188416 chr22:47184877-47184934 36;33 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 18;107 N intron_retention chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 15;6 N alternative_acceptor CUFF.1402 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 73;40 N alternative_first_exon CUFF.1399 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158468-47158745 chr22:47159092-47159228 15;34 N alternative_donor CUFF.1399 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 7;0 K jcn_only_AD CUFF.1379 chr22 + chr22:21058040-21058255;chr22:21057981-21058255 chr22:21058172-21058255 187;2 N alternative_acceptor CUFF.1379 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 51;42 N jcn_only_AD CUFF.1399 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 7;73 N jcn_only_AA CUFF.1387 chr22 + chr22:29684776-29686401;chr22:29684776-29687550 chr22:29684776-29687553 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 56;20 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 2;3 N alternative_donor CUFF.1386 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 7;6 K jcn_only_AD CUFF.1377 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 14;61 N alternative_first_exon CUFF.1397 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45162070-45182336 chr22:45122515-45182336 chr22:45130907-45131042;chr22:45148371-45148507;chr22:45161745-45162069 chr22:45122457-45122514 70;5 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 12;71 N alternative_donor CUFF.1372 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 13;58 N intron_retention chr22 - chr22:51009963-51010434 chr22:51009962-51009963;chr22:51010434-51010435 16;9 N intron_retention CUFF.1387 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 7;16 K intron_retention CUFF.1377 chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 76;6 K intron_retention CUFF.1402 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 41;63 N alternative_donor chr22 + chr22:37697061-37699294 chr22:37698073-37699294 chr22:37697061-37698072 chr22:37697060-37697061 7;2 K intron_retention CUFF.1373 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 4;19 N jcn_only_AA CUFF.1394 chr22 + chr22:37697061-37697921;chr22:37697061-37699294 chr22:37697061-37697975 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 132;5 K alternative_acceptor CUFF.1384 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 10;3 N alternative_donor CUFF.1387 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 321;2 K alternative_last_exon CUFF.1385 chr22 + chr22:25855483-25915889;chr22:25855483-25905149 chr22:25855483-25856833 chr22:25915890-25916129;chr22:25905150-25905309 chr22:25856834-25857645 50;24 N alternative_acceptor CUFF.1387 chr22 + chr22:29684776-29686401;chr22:29684776-29687550 chr22:29684776-29687553 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 42;20 N alternative_acceptor CUFF.1402 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 5;24 K intron_retention CUFF.1379 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 2;20 N alternative_donor CUFF.1387 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 15;50 N jcn_only_AA CUFF.1399 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 77;12 K jcn_only_AA CUFF.1387 chr22 + chr22:29683124-29688125 chr22:29683124-29684594 31;102 K intron_retention CUFF.1387 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 40;3 N jcn_only_AA CUFF.1394 chr22 + chr22:37697061-37699294;chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 13;124 N alternative_donor CUFF.1402 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 20;4 K alternative_donor CUFF.1379 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 17;25 N jcn_only_AA chr22 - chr22:21832391-21832873 chr22:21832451-21832873 11;12 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 11;79 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 2;5 N jcn_only_AD chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 85;5 N jcn_only_AA chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 44;149 N alternative_donor CUFF.1379 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 51;3 N alternative_acceptor CUFF.1380 chr22 - chr22:21830450-21832078 chr22:21831054-21832078 chr22:21830450-21831053 chr22:21830449-21830450 2;6 N alternative_donor CUFF.1394 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 12;6 N alternative_last_exon CUFF.1372 chr22 - chr22:18082862-18095577 chr22:18083948-18095577 chr22:18082793-18082861 chr22:18083446-18083947 6;55 N cassette CUFF.1399 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 36;39 N alternative_acceptor CUFF.1399 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 77;0 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 73;8 N alternative_acceptor CUFF.1397 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 27;0 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 9;130 N alternative_acceptor CUFF.1387 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 97;7 N cassette CUFF.1397 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 4;65 N intron_retention CUFF.1387 chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 7;6 K cassette CUFF.1379 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 104;10 N jcn_only_AA CUFF.1402 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 73;99 N alternative_acceptor CUFF.1394 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 132;1 K intron_retention CUFF.1387 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 97;12 K jcn_only_AA CUFF.1386 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 9;31 K cassette CUFF.1397 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 11;79 N alternative_acceptor CUFF.1402 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 16;43 K alternative_first_exon CUFF.1383 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700352-24700420 16;5 K intron_retention CUFF.1394 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 26;5 K intron_retention CUFF.1402 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 63;15 K alternative_last_exon CUFF.1385 chr22 + chr22:25855483-25915889;chr22:25855483-25856833 chr22:25855483-25905149 chr22:25915890-25916129;chr22:25856834-25857645 chr22:25905150-25905309 60;14 N jcn_only_AD CUFF.1386 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 7;12 N cassette CUFF.1399 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 3;76 K jcn_only_AA CUFF.1384 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 6;4 N alternative_acceptor CUFF.1380 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 18;4 N alternative_acceptor CUFF.1372 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 135;0 N alternative_acceptor CUFF.1387 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 25;37 N alternative_acceptor CUFF.1394 chr22 + chr22:37697061-37697921;chr22:37697061-37699294 chr22:37697061-37697975 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 25;1 N jcn_only_AA CUFF.1387 chr22 + chr22:29684776-29687550;chr22:29684776-29687553 chr22:29684776-29686401 chr22:29686402-29687550;chr22:29687551-29687553 chr22:29687550-29687551;chr22:29687553-29687554 27;48 K intron_retention CUFF.1377 chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 5;29 N alternative_acceptor CUFF.1392 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 5;10 N jcn_only_AD chr22 + chr22:37699444-37705252 chr22:37700328-37705252 2;7 N cassette CUFF.1377 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 4;15 N jcn_only_AA CUFF.1394 chr22 + chr22:37697061-37697921;chr22:37697061-37697975 chr22:37697061-37699294 chr22:37697922-37697975;chr22:37697976-37699294 chr22:37697975-37697976;chr22:37699294-37699295 130;7 K alternative_first_exon CUFF.1393 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688485-31688684 chr22:31731241-31731402 6;52 N jcn_only_AA CUFF.1387 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 2;6 N jcn_only_AD chr22 - chr22:18082862-18095577 chr22:18082862-18083857 8;68 N coord_cassette CUFF.1377 chr22 + chr22:20748953-20759666 chr22:20748953-20749622;chr22:20749709-20753884;chr22:20753981-20754921;chr22:20755049-20759666 chr22:20749623-20749708;chr22:20753885-20753980;chr22:20754922-20755048 4;15 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 2;12 N jcn_only_AA CUFF.1402 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 16;83 N intron_retention chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 7;57 K coord_cassette CUFF.1392 chr22 - chr22:30738869-30748939 chr22:30738869-30740921;chr22:30741180-30742300;chr22:30742509-30748939 chr22:30740922-30741179;chr22:30742301-30742508 445;42 N alternative_donor CUFF.1402 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 73;29 N jcn_only_AA CUFF.1397 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 27;5 K jcn_only_AA CUFF.1348 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 40;4 K coord_cassette CUFF.1348 chr20 - chr20:31115717-31123243 chr20:31115717-31120119;chr20:31120220-31121178;chr20:31121289-31123243 chr20:31120120-31120219;chr20:31121179-31121288 11;3 K intron_retention CUFF.1350 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 19;24 K cassette CUFF.1345 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 28;234 N alternative_acceptor CUFF.1347,CUFF.1350 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 19;68 N alternative_first_exon CUFF.1335 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 chr20:2842261-2842350 chr20:2843061-2843580 8;26 K cassette CUFF.1343 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 chr20:29966155-29966194;chr20:29978226-29978372 4;15 K jcn_only_AA CUFF.1353 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 7;11 N coord_cassette CUFF.1345 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30155442;chr20:30155610-30156922 chr20:30154013-30154098;chr20:30155443-30155609 30;24 N alternative_acceptor CUFF.1354 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 11;25 K coord_cassette CUFF.1345 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 29;145 K cassette CUFF.1345 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 227;167 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 11;6 K alternative_acceptor CUFF.1348 chr20 - chr20:31052921-31062403 chr20:31052938-31062403 chr20:31052921-31052937 chr20:31052920-31052921 32;3 K jcn_only_AD CUFF.1333,CUFF.1353 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 chr20:1517801-1517956;chr20:1532517-1532684 10;30 K intron_retention CUFF.1335 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 22;9 K alternative_last_exon CUFF.1349 chr20 + chr20:33114149-33122431 chr20:33114149-33117655 chr20:33122432-33122599 chr20:33117656-33119025 83;119 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 27;40 K alternative_acceptor CUFF.1333 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 chr20:1532337-1532684;chr20:1517801-1517956 30;6 K jcn_only_AA CUFF.1348 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 16;28 K intron_retention CUFF.1335 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 6;17 K jcn_only_AA CUFF.1340 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 12;11 N alternative_first_exon CUFF.1345 chr20 + chr20:30137925-30147413 chr20:30142633-30147413 chr20:30137867-30137924 chr20:30142364-30142632 4;312 N alternative_donor CUFF.1350 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 6;6 N jcn_only_AD CUFF.1345 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 334;6 K alternative_first_exon CUFF.1333,CUFF.1344 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011760 6;151 N alternative_donor CUFF.1345 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 286;4 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 11;15 N alternative_donor CUFF.1349 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 84;11 N alternative_donor CUFF.1345 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 334;2 K alternative_first_exon CUFF.1348 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099261 chr20:31071165-31071456 20;15 K intron_retention CUFF.1350 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 106;20 N cassette CUFF.1345 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 30;132 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 11;11 K jcn_only_AD CUFF.1353 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 11;3 N jcn_only_AA CUFF.1349 chr20 + chr20:30137925-30147413 chr20:30137925-30142548 5;386 K alternative_last_exon CUFF.1348 chr20 - chr20:31044199-31062403 chr20:31052921-31062403,chr20:31052938-31062403 chr20:31043921-31044198 chr20:31052573-31052920 7;49 K jcn_only_AA CUFF.1348 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 32;12 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 386;58 N jcn_only_AD CUFF.1356 chr20 - chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308 chr20:61987308-61987309 2;22 N jcn_only_AA CUFF.1348 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;18 N jcn_only_AA chr20 + chr20:2842351-2843710 chr20:2842351-2842450 11;12 N jcn_only_AD CUFF.1345 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 286;27 N alternative_acceptor CUFF.1348 chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 15;1 K alternative_donor CUFF.1353 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 11;2 K alternative_first_exon CUFF.1341 chr20 + chr20:21284112-21307127 chr20:21307045-21307127 chr20:21283919-21284111 chr20:21306917-21307044 7;4 N alternative_donor CUFF.1350 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 119;3 K cassette CUFF.1343 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 chr20:29964967-29965242;chr20:29978226-29978372 8;11 K alternative_donor CUFF.1349 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 93;85 K alternative_acceptor CUFF.1353 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 7;5 K jcn_only_AA CUFF.1333 chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 chr20:1532337-1532684;chr20:1517801-1517956 30;12 K jcn_only_AD CUFF.1349 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 93;60 K coord_cassette CUFF.1343 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 chr20:29964967-29965242;chr20:29978226-29978372 8;14 N jcn_only_AD CUFF.1350 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 119;5 K alternative_donor CUFF.1333,CUFF.1353 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 chr20:1517801-1517956;chr20:1532517-1532684 10;37 K alternative_last_exon CUFF.1345,CUFF.1354 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570184 2;36 N jcn_only_AA CUFF.1347,CUFF.1350 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 19;115 K jcn_only_AD CUFF.1337,CUFF.1356 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 4;3 K jcn_only_AA CUFF.1335 chr20 + chr20:2840454-2841094 chr20:2840454-2840699 11;3 K cassette CUFF.1345 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 29;209 K alternative_donor CUFF.1344 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 41;94 N jcn_only_AD CUFF.1350 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 6;5 N jcn_only_AA CUFF.1354 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 11;16 K jcn_only_AA CUFF.1348 chr20 - chr20:31052921-31062403 chr20:31052938-31062403 chr20:31052921-31052937 chr20:31052920-31052921 32;7 N jcn_only_AD CUFF.1344 chr20 - chr20:32816000-33142152 chr20:32816000-33087067 4;5 N alternative_donor CUFF.1356 chr20 - chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308 chr20:61987308-61987309 2;5 K cassette CUFF.1345 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 95;44 N alternative_first_exon chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3172411-3172467 chr20:3171836-3172230 chr20:3170984-3171465 5;531 K jcn_only_AD CUFF.1344 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 41;188 N jcn_only_AD CUFF.1349 chr20 + chr20:33114149-33122431 chr20:33118039-33122431 chr20:33114149-33118038 chr20:33114148-33114149 84;15 K alternative_donor CUFF.1337,CUFF.1356 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 4;1 N alternative_last_exon CUFF.1337 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170984-3171465 chr20:3171836-3171884 chr20:3172411-3172467 11;1122 K intron_retention CUFF.1337 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 chr20:3171836-3171884;chr20:3172411-3172467 1414;73 K cassette CUFF.1345 chr20 + chr20:30154099-30156922 chr20:30154099-30155442;chr20:30155610-30156922 chr20:30155443-30155609 95;23 N intron_retention CUFF.1350 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 115;16 N jcn_only_AD CUFF.1371 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 54;53 N cassette CUFF.1358 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 2;11 N cassette CUFF.1371 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 62;61 K jcn_only_AD CUFF.1361 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 65;28 N alternative_acceptor CUFF.1359 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 29;1 N jcn_only_AA CUFF.1358 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 7;2 N jcn_only_AA CUFF.1371 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 52;4 K jcn_only_AA CUFF.1371 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 113;106 N alternative_acceptor CUFF.1369 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 2;2 K alternative_last_exon CUFF.1358 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15678017-15678163 chr21:15671759-15673729 8;23 N jcn_only_AD CUFF.1361,CUFF.1371 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 66;7 N jcn_only_AD CUFF.1371 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 60;47 K cassette CUFF.1361 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 54;44 N alternative_last_exon chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 3;17 N alternative_donor CUFF.1371 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 64;80 N alternative_acceptor CUFF.1358 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 7;0 N jcn_only_AD CUFF.1369 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 chr21:43342081-43342194;chr21:43362256-43362368 59;6 N alternative_donor CUFF.1369 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 chr21:43342081-43342194;chr21:43362256-43362368 59;0 N intron_retention chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 2;5 N alternative_donor CUFF.1358 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 3;1 K cassette CUFF.1365 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 4;39 N alternative_first_exon CUFF.1371 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47565331-47565492 chr21:47562023-47562683 55;5 N alternative_donor CUFF.1371 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 133;11 K alternative_acceptor CUFF.1371 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 113;56 N alternative_donor CUFF.1371 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 91;53 N jcn_only_AD CUFF.1358 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 7;3 K cassette CUFF.1361 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 23;41 N jcn_only_AA CUFF.1369 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 2;3 N jcn_only_AA CUFF.1359 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 29;9 N alternative_acceptor CUFF.1371 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 52;2 K alternative_first_exon CUFF.1367 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 4;23 K alternative_last_exon CUFF.1363 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39325124-39325308 chr21:39426364-39427075 14;75 N alternative_donor CUFF.1358 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 8;4 N alternative_donor CUFF.1358 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 7;1 N jcn_only_AD CUFF.1371 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 101;7 N jcn_only_AD CUFF.1358 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 3;19 N jcn_only_AA CUFF.1358 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 13;4 K alternative_last_exon CUFF.1367 chr21 - chr21:40977930-40981509;chr21:40969917-40981509 chr21:40978275-40981509 chr21:40969058-40969916 chr21:40977510-40978274 15;94 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 3;10 N intron_retention chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 9;23 N jcn_only_AD CUFF.1358 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 8;23 N alternative_acceptor CUFF.1358 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 13;6 N alternative_donor CUFF.1361,CUFF.1371 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47566705-47570032 chr21:47570032-47570033 66;1 N alternative_donor CUFF.562 chr7 - chr7:86594341-86688640;chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 9;0 K intron_retention CUFF.599 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 33;8 N jcn_only_AA CUFF.553,CUFF.563 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 10;64 K alternative_acceptor CUFF.542,CUFF.601 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 3;2 N cassette CUFF.562 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 7;32 N alternative_donor CUFF.544 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 17;8 N jcn_only_AD CUFF.576 chr7 + chr7:107220747-107221203;chr7:107220812-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 274;15 K alternative_first_exon CUFF.537 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604052 21;18 N jcn_only_AD CUFF.562 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 17;4 N jcn_only_AD CUFF.580 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 152;15 N jcn_only_AA CUFF.531 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 75;6 N cassette CUFF.601 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 12;47 N jcn_only_AD CUFF.554 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 81;14 N jcn_only_AA CUFF.574 chr7 - chr7:102695626-102696090;chr7:102669866-102696090 chr7:102687468-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 56;9 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 4;194 N alternative_acceptor CUFF.589 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 18;3 N intron_retention chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 11;6 K alternative_first_exon CUFF.530 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:192969-193804 chr7:195179-195327 13;13 K jcn_only_AA CUFF.533,CUFF.557 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 16;19 N alternative_acceptor CUFF.554 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 81;1 N alternative_acceptor CUFF.541 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 3;0 N jcn_only_AD CUFF.544,CUFF.546 chr7 - chr7:38835212-38836344;chr7:38835212-38836531 chr7:38835212-38836014 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 70;13 K coord_cassette CUFF.599 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148988646;chr7:148988837-148989301 chr7:148987029-148987129;chr7:148988647-148988836 10;20 K intron_retention CUFF.589 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 24;10 N jcn_only_AA CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54636823;chr7:54617864-54621559 chr7:54617864-54618445 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 46;6 N alternative_donor CUFF.595 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 9;1 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784292-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 189;27 N alternative_acceptor CUFF.604 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 15;11 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 22;24 N jcn_only_AA CUFF.562 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 10;106 N intron_retention chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 6;19 N alternative_acceptor CUFF.574 chr7 - chr7:102695626-102696090;chr7:102687468-102696090 chr7:102669866-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 0;45 N alternative_acceptor CUFF.544 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 21;1 N alternative_donor CUFF.571,CUFF.574 chr7 - chr7:102669866-102696090;chr7:102669866-102695534 chr7:102669866-102687255 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 47;0 N jcn_only_AA CUFF.574 chr7 - chr7:102695626-102696090;chr7:102687468-102696090 chr7:102669866-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 19;45 N alternative_acceptor CUFF.533 chr7 + chr7:6641772-6647590;chr7:6641772-6647167 chr7:6641772-6642294 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 56;0 N jcn_only_AD CUFF.576 chr7 + chr7:107221091-107221203;chr7:107220812-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 22;267 K cassette CUFF.563 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 7;4 N jcn_only_AD chr7 - chr7:38835212-38836531;chr7:38835212-38836014 chr7:38835212-38836344 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 45;38 K jcn_only_AD CUFF.567 chr7 - chr7:99032892-99045574 chr7:99032892-99039012 6;29 K intron_retention CUFF.575 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 10;38 N jcn_only_AD 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 10;10 K intron_retention CUFF.604 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 9;5 N jcn_only_AD CUFF.576 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 473;28 N alternative_donor CUFF.562 chr7 - chr7:86594341-86688640;chr7:86594341-86595124 chr7:86594341-86595129 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 9;0 K cassette CUFF.590 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 10;6 K intron_retention chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 432;22 N jcn_only_AA CUFF.574 chr7 - chr7:102687468-102696090;chr7:102669866-102696090 chr7:102695626-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 54;11 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 10;53 N alternative_donor CUFF.580 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 111;0 N jcn_only_AD chr7 + chr7:129015768-129019478;chr7:128991503-129019478 chr7:129008393-129019478 32;16 N jcn_only_AA CUFF.604 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 109;9 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 4;14 K alternative_donor CUFF.553 chr7 + chr7:73098135-73100965 chr7:73098232-73100965 chr7:73098135-73098231 chr7:73098134-73098135 84;11 N alternative_acceptor CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54618445;chr7:54617864-54621559 chr7:54617864-54636823 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 27;18 N jcn_only_AD CUFF.546 chr7 - chr7:38835212-38836344;chr7:38835212-38836014 chr7:38835212-38836531 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 52;32 N cassette CUFF.604 chr7 - chr7:156476858-156516805 chr7:156476858-156480723;chr7:156480886-156516805 chr7:156480724-156480885 11;61 N alternative_donor CUFF.575 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 3;120 N jcn_only_AA CUFF.553 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 49;4 K intron_retention chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 10;23 N jcn_only_AD chr7 - chr7:86594341-86595129;chr7:86594341-86595124 chr7:86594341-86688640 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 29;9 N alternative_donor 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 7;0 K cassette CUFF.576 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 48;414 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 0;109 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 4;39 K jcn_only_AD CUFF.599 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 33;11 N jcn_only_AA CUFF.562 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 33;2 N jcn_only_AD CUFF.576 chr7 + chr7:107220747-107221203;chr7:107221091-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 282;7 K alternative_donor CUFF.565 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 4;26 N alternative_acceptor chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 12;0 N jcn_only_AD CUFF.562 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 33;5 N alternative_acceptor CUFF.553,CUFF.563 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 10;4 N jcn_only_AD chr7 - chr7:107642179-107643293 chr7:107642179-107642571 32;16 N alternative_donor CUFF.601 chr7 + chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784160-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 40;8 K jcn_only_AA CUFF.563 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 39;44 N cassette CUFF.544 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 10;15 N alternative_acceptor CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54636823;chr7:54617864-54621559 chr7:54617864-54618445 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 39;6 N alternative_donor CUFF.576 chr7 + chr7:107220747-107221203;chr7:107221091-107221203 chr7:107220812-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 297;3 N alternative_acceptor CUFF.533 chr7 + chr7:6641772-6647590;chr7:6641772-6642294 chr7:6641772-6647167 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 49;7 N jcn_only_AD CUFF.575 chr7 + chr7:107214329-107215632;chr7:107214267-107215632 chr7:107211712-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 41;120 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 11;102 N alternative_acceptor CUFF.574 chr7 - chr7:102695626-102696090;chr7:102669866-102696090 chr7:102687468-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 45;0 N jcn_only_AD chr7 + chr7:129015768-129019478;chr7:129008393-129019478 chr7:128991503-129019478 38;10 N jcn_only_AD CUFF.544 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 2;18 K jcn_only_AD CUFF.604 chr7 - chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446 chr7:156626446-156626447 119;29 N jcn_only_AD CUFF.601 chr7 + chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784160-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 176;41 N intron_retention chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 35;21 N jcn_only_AA CUFF.574 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 10;100 N jcn_only_AD CUFF.604 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 131;14 N alternative_donor CUFF.580 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 111;0 N alternative_donor chr7 - chr7:38835212-38836531;chr7:38835212-38836014 chr7:38835212-38836344 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 36;19 K alternative_acceptor CUFF.563 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 39;37 N intron_retention chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 21;28 K intron_retention CUFF.575 chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 20;35 N intron_retention chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 7;40 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150784292-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 42;6 N jcn_only_AD CUFF.537,CUFF.544 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 57;10 K intron_retention CUFF.589 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 18;5 K intron_retention CUFF.575 chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 30;46 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150783148-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 176;40 N jcn_only_AD CUFF.563 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 6;42 N jcn_only_AA CUFF.571 chr7 - chr7:102242853-102249207 chr7:102246435-102249207 2;27 N jcn_only_AA CUFF.580 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 111;7 N jcn_only_AA CUFF.604 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 63;9 N jcn_only_AD chr7 + chr7:129008393-129019478;chr7:128991503-129019478 chr7:129015768-129019478 26;22 N jcn_only_AA CUFF.576 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 473;28 K jcn_only_AA CUFF.567 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 7;27 K alternative_last_exon CUFF.530 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197576 17;37 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 11;6 N cassette CUFF.580 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 16;111 K alternative_last_exon CUFF.570 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100816981-100818092 chr7:100822378-100822417 15;1 K intron_retention chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 267;36 K coord_cassette CUFF.599 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 17;24 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 56;111 N alternative_donor CUFF.576 chr7 + chr7:107220747-107221203;chr7:107220812-107221203 chr7:107221091-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 270;30 K alternative_donor CUFF.575 chr7 + chr7:107204505-107205032 chr7:107204655-107205032 chr7:107204505-107204654 chr7:107204504-107204505 30;34 K jcn_only_AD CUFF.593 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 5;32 N jcn_only_AA CUFF.544 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 21;9 N jcn_only_AD CUFF.575 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 151;10 N alternative_acceptor CUFF.604 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 109;1 N alternative_donor CUFF.575 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 121;2 N alternative_donor 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 7;0 N alternative_donor chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 18;35 K alternative_first_exon CUFF.537,CUFF.583 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594787-7594821 chr7:7594319-7594421 20;12 N intron_retention chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 157;27 K alternative_first_exon CUFF.545 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 2;27 K alternative_donor CUFF.593 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 5;21 N alternative_donor CUFF.546 chr7 - chr7:38835212-38836344;chr7:38835212-38836014 chr7:38835212-38836531 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 23;32 K cassette CUFF.590 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 12;5 N alternative_acceptor CUFF.562 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 11;167 N cassette CUFF.547 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 34;31 N jcn_only_AA chr7 - chr7:107576102-107577537 chr7:107576819-107577537 29;11 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879 chr7:150812729-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 46;2 N jcn_only_AA CUFF.576 chr7 + chr7:107220747-107221203;chr7:107220747-107224326 chr7:107220747-107221090 299;8 K alternative_first_exon CUFF.544 chr7 - chr7:37172840-37250990;chr7:37172840-37236705 chr7:37172840-37243713 chr7:37250991-37251122;chr7:37236706-37236877 chr7:37243714-37243905 66;8 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150783148-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 29;19 N alternative_acceptor CUFF.574 chr7 - chr7:102687468-102696090;chr7:102669866-102696090 chr7:102695626-102696090 chr7:102669866-102687467;chr7:102687468-102695625 chr7:102669865-102669866;chr7:102687467-102687468 45;0 N jcn_only_AD chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 15;4 K jcn_only_AD CUFF.565 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 4;22 N jcn_only_AA chr7 + chr7:107410728-107591499 chr7:107410728-107564202 4;2 N intron_retention chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 32;23 K coord_cassette CUFF.552 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 22;5 K cassette CUFF.552 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 22;17 N jcn_only_AA CUFF.533,CUFF.553 chr7 + chr7:73101426-73106925 chr7:73101426-73105245 chr7:73105246-73106925 chr7:73106925-73106926 27;34 N alternative_acceptor CUFF.566 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 157;17 N jcn_only_AA CUFF.562 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 11;172 N jcn_only_AA CUFF.541 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 14;11 N coord_cassette CUFF.553 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 26;28 K alternative_first_exon CUFF.546 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38902145-38902222 chr7:38870816-38871041 45;33 N alternative_donor chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 2;4 K jcn_only_AA CUFF.533 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 9;8 N alternative_first_exon chr7 - chr7:102249902-102257071 chr7:102249902-102251532 chr7:102257072-102257204 chr7:102251533-102251589 6;9 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 10;5 N alternative_acceptor CUFF.562 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 10;83 N jcn_only_AD CUFF.533 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 chr7:6641772-6647228 chr7:6641771-6641772 49;9 N alternative_acceptor chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 2;11 N jcn_only_AD CUFF.583,CUFF.604 chr7 - chr7:117424509-117431344 chr7:117424509-117426439 chr7:117426440-117431344 chr7:117431344-117431345 2;3 N cassette CUFF.544 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 7;86 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 10;14 N alternative_donor CUFF.574,CUFF.604 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 135;0 N alternative_donor CUFF.583,CUFF.604 chr7 - chr7:117424509-117431344 chr7:117424509-117426439 chr7:117426440-117431344 chr7:117431344-117431345 2;0 N jcn_only_AA CUFF.566 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 157;10 N jcn_only_AD CUFF.604 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 231;31 N alternative_acceptor CUFF.604 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589187-156616617 chr7:156589186-156589187 63;1 N jcn_only_AD CUFF.591 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 83;22 N jcn_only_AA CUFF.604 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 21;9 N alternative_acceptor CUFF.601 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 12;8 N alternative_donor CUFF.541 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 14;4 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150787635-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 46;2 N intron_retention chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 199;24 K alternative_first_exon CUFF.595 chr7 + chr7:136553865-136554007;chr7:136553740-136554007 chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553791-136553920 111;32 N jcn_only_AA chr7 + chr7:75044513-75045258 chr7:75044513-75044869 4;28 K intron_retention CUFF.547 chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 58;11 K intron_retention CUFF.565 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 2;5 N cassette CUFF.580 chr7 - chr7:110303778-110603555 chr7:110303778-110304879;chr7:110305069-110603555 chr7:110304880-110305068 16;24 N jcn_only_AD 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 15;5 N jcn_only_AA CUFF.546 chr7 - chr7:38835212-38836344 chr7:38836127-38836344 chr7:38835212-38836126 chr7:38835211-38835212 38;30 K alternative_first_exon CUFF.549 chr7 + chr7:54613910-54614639;chr7:54612482-54614639 chr7:54614433-54614639 chr7:54612315-54612481 chr7:54614336-54614432 91;20 N alternative_acceptor CUFF.576 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 473;10 N jcn_only_AA chr7 + chr7:75042211-75044162 chr7:75042211-75043917 5;2 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150813738-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 46;2 K alternative_first_exon CUFF.544 chr7 - chr7:37172840-37243713;chr7:37172840-37250990 chr7:37172840-37236705 chr7:37243714-37243905;chr7:37250991-37251122 chr7:37236706-37236877 43;31 N intron_retention chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 8;17 N jcn_only_AA CUFF.575 chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 5;84 N jcn_only_AD chr7 - chr7:22233652-22259484 chr7:22233652-22234187 21;2 N jcn_only_AA CUFF.575 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 120;11 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 5;6 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150812729-150813879 chr7:150783097-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 208;9 K alternative_first_exon CUFF.562 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86554844-86554972;chr7:86549024-86549236 chr7:86550079-86550275 105;35 N jcn_only_AD CUFF.544 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 21;7 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 11;43 N coord_cassette CUFF.563 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 3;29 N cassette CUFF.543 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 52;55 N alternative_donor CUFF.546 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 7;0 N alternative_donor CUFF.575 chr7 + chr7:107211712-107215632;chr7:107214329-107215632 chr7:107214267-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 122;1 N alternative_acceptor CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54636823;chr7:54617864-54618445 chr7:54617864-54621559 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 45;0 N jcn_only_AD CUFF.552 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 48;5 K intron_retention CUFF.563 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 13;21 N jcn_only_AA chr7 + chr7:54617864-54636823;chr7:54617864-54618445;chr7:54617864-54621559 chr7:54617864-54636701 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 29;24 N alternative_acceptor CUFF.544 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 57;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 37;109 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;111 K cassette CUFF.604 chr7 - chr7:156626487-156629506 chr7:156626487-156627171;chr7:156627290-156629506 chr7:156627172-156627289 117;40 N jcn_only_AA chr7 - chr7:22357657-22396448 chr7:22396231-22396448 2;12 N alternative_donor CUFF.604 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 109;0 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 3;7 N jcn_only_AA CUFF.583 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 2;3 N cassette CUFF.547 chr7 + chr7:44247798-44250621 chr7:44247798-44250440;chr7:44250531-44250621 chr7:44250441-44250530 38;65 N alternative_acceptor CUFF.575 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 56;34 K alternative_donor CUFF.599 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 33;11 K jcn_only_AA CUFF.575 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 10;143 N cassette CUFF.601 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 19;194 K coord_cassette CUFF.547 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250441-44250530;chr7:44250622-44250723;chr7:44251153-44251203 34;83 K cassette CUFF.574 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 60;33 K cassette CUFF.574 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 5;98 N jcn_only_AD CUFF.544 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 17;5 N alternative_acceptor CUFF.575 chr7 + chr7:73098135-73105245 chr7:73098135-73100965 chr7:73100966-73105245 chr7:73105245-73105246 5;3 N intron_retention chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 6;84 N alternative_donor CUFF.576 chr7 + chr7:107221091-107221203;chr7:107220812-107221203 chr7:107220747-107221203 chr7:107220747-107220811;chr7:107220812-107221090 chr7:107220746-107220747;chr7:107220811-107220812 33;267 N alternative_first_exon chr7 - chr7:156619439-156685621 chr7:156619439-156626446,chr7:156619439-156626432 chr7:156685622-156685997 chr7:156626447-156626486 16;122 N alternative_donor CUFF.576 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 473;1 N jcn_only_AD CUFF.580 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 126;41 N jcn_only_AD chr7 + chr7:75045057-75045258;chr7:75044513-75045258 chr7:75045049-75045258 14;5 N jcn_only_AD CUFF.574 chr7 - chr7:102669866-102696090;chr7:102669866-102687255 chr7:102669866-102695534 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 63;11 N jcn_only_AD 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;4 N jcn_only_AD CUFF.544,CUFF.574 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 98;29 N alternative_donor CUFF.552 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 13;30 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150809332-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 208;9 K alternative_first_exon CUFF.550,CUFF.562 chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86550079-86550275;chr7:86549024-86549236 chr7:86554844-86554972 128;12 N jcn_only_AA CUFF.575 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 56;11 N alternative_acceptor CUFF.553 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 45;2 N jcn_only_AA CUFF.601 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 167;24 N alternative_acceptor chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 35;228 N alternative_acceptor CUFF.583 chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 2;0 N alternative_acceptor CUFF.546 chr7 - chr7:38835212-38836344 chr7:38836127-38836344 chr7:38835212-38836126 chr7:38835211-38835212 38;4 N alternative_acceptor CUFF.575 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 120;4 K alternative_last_exon CUFF.601 chr7 + chr7:150817233-150820880;chr7:150817233-150819811 chr7:150817233-150817606 chr7:150819812-150820973 chr7:150817607-150818120 133;263 N alternative_donor CUFF.544,CUFF.574 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 98;1 N alternative_donor CUFF.562 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 17;1 N cassette CUFF.574 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 6;76 N jcn_only_AD CUFF.580 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 70;4 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150809332-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 48;0 N alternative_first_exon CUFF.552 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579528-65579957 chr7:65599267-65599361 3;25 N cassette CUFF.544 chr7 - chr7:37382368-37488277 chr7:37382368-37433424;chr7:37433521-37488277 chr7:37433425-37433520 4;10 K cassette CUFF.542 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 5;3 N alternative_donor CUFF.604 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 231;17 N cassette CUFF.543 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 43;64 K alternative_acceptor CUFF.533 chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 9;5 K alternative_first_exon CUFF.570 chr7 - chr7:100818093-100823322 chr7:100818093-100822377 chr7:100823323-100823622 chr7:100822378-100822603 23;14 K cassette CUFF.574 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 12;47 N alternative_acceptor chr7 + chr7:54617864-54636823;chr7:54617864-54618445;chr7:54617864-54621559 chr7:54617864-54636701 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 24;21 N alternative_donor CUFF.554 chr7 + chr7:73275597-73279322 chr7:73275922-73279322 chr7:73275597-73275921 chr7:73275596-73275597 81;4 K alternative_donor CUFF.604 chr7 - chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446 chr7:156626446-156626447 119;30 K intron_retention CUFF.601 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 28;4 N jcn_only_AA chr7 + chr7:65579958-65610429 chr7:65579958-65592690 2;36 K alternative_first_exon CUFF.553 chr7 + chr7:73098331-73100965,chr7:73098254-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098232-73100965 chr7:73097355-73097713 chr7:73098097-73098134 18;91 N jcn_only_AA CUFF.533 chr7 + chr7:6641772-6647590;chr7:6641772-6647167 chr7:6641772-6642294 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 61;3 N alternative_donor CUFF.591 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 83;1 N cassette CUFF.553 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 77;57 N jcn_only_AA chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 12;7 N alternative_donor CUFF.562 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 33;46 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 5;42 N alternative_acceptor CUFF.541 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 14;0 K alternative_first_exon CUFF.562 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86554844-86554972;chr7:86550079-86550275 chr7:86549024-86549236 47;93 N alternative_acceptor CUFF.604 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 20;6 N alternative_donor CUFF.537,CUFF.544 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 57;0 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 14;36 N jcn_only_AA CUFF.604 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 18;12 K cassette CUFF.543 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 73;14 K cassette CUFF.552 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 14;4 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 4;45 N jcn_only_AD CUFF.575 chr7 + chr7:107211712-107215632;chr7:107214267-107215632 chr7:107214329-107215632 chr7:107211712-107214266;chr7:107214267-107214328 chr7:107211711-107211712;chr7:107214266-107214267 130;31 N jcn_only_AD CUFF.562 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 29;9 K alternative_first_exon CUFF.575 chr7 + chr7:107204693-107205032;chr7:107204192-107205032 chr7:107204505-107205032,chr7:107204655-107205032 chr7:107203929-107204191 chr7:107204378-107204504 14;43 N alternative_donor 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 3;4 N jcn_only_AD CUFF.552 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 18;36 N alternative_donor chr7 - chr7:86594341-86595129;chr7:86594341-86595124 chr7:86594341-86688640 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 0;9 N jcn_only_AA CUFF.589 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 5;26 N cassette CUFF.604 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 34;146 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 10;63 N intron_retention chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 2;7 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150787635-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 201;15 K jcn_only_AA CUFF.542,CUFF.601 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 3;3 N alternative_donor CUFF.544 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 21;0 N alternative_donor CUFF.546 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 36;4 N jcn_only_AA CUFF.589 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 18;3 N alternative_acceptor chr7 + chr7:75039744-75044162 chr7:75039744-75039888 chr7:75039889-75044162 chr7:75044162-75044163 4;1 N jcn_only_AA CUFF.601 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 12;16 N jcn_only_AA chr7 + chr7:150384176-150389402 chr7:150384176-150386576 5;11 N alternative_donor chr7 + chr7:6641772-6647167 chr7:6642384-6647167 chr7:6641772-6642383 chr7:6641771-6641772 12;7 N alternative_donor CUFF.583 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 5;1 N jcn_only_AD CUFF.535 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7197058-7222451 chr7:7197057-7197058 15;12 K cassette CUFF.606 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 23;17 N jcn_only_AA chr7 - chr7:107642179-107643293 chr7:107642830-107643293 32;10 K jcn_only_AD CUFF.604 chr7 - chr7:156516873-156526870 chr7:156516873-156518128 58;70 K intron_retention CUFF.547 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 103;19 N coord_cassette CUFF.601 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 22;33 N alternative_acceptor chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 6;167 N alternative_acceptor CUFF.589 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 5;29 N jcn_only_AA chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 35;432 N alternative_donor CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150812729-150813879 chr7:150783097-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 39;9 N alternative_acceptor CUFF.601 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 167;2 K cassette CUFF.583 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 110;7 N jcn_only_AD CUFF.604 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 123;23 N alternative_donor CUFF.533 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 chr7:6641772-6647228 chr7:6641771-6641772 49;1 K mutually_exclusive CUFF.580 chr7 - chr7:110303778-110526648,chr7:110526752-110603555 chr7:110303778-110304879,chr7:110305069-110603555 chr7:110526649-110526751 chr7:110304880-110305068 111;24 N jcn_only_AA chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 2;22 N jcn_only_AA CUFF.533 chr7 + chr7:6641772-6647590;chr7:6641772-6642294 chr7:6641772-6647167 chr7:6642295-6647167;chr7:6647168-6647590 chr7:6647167-6647168;chr7:6647590-6647591 53;12 K cassette CUFF.559 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 15;5 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129017465-129019481 chr7:129008393-129019481 38;12 N intron_retention chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 3;6 N alternative_acceptor CUFF.553 chr7 + chr7:73108381-73111934;chr7:73108381-73110735 chr7:73108381-73111795 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 45;2 N alternative_acceptor CUFF.580 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 111;0 K alternative_first_exon CUFF.538 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815298-16815509 3;14 N alternative_donor 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 4;3 N jcn_only_AD CUFF.562 chr7 - chr7:86594341-86688640;chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 21;16 N jcn_only_AD chr7 + chr7:75045049-75045258;chr7:75044513-75045258 chr7:75045057-75045258 9;11 N jcn_only_AD chr7 - chr7:102669866-102695534;chr7:102669866-102687255 chr7:102669866-102696090 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 29;45 N cassette CUFF.601 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 22;19 N alternative_acceptor CUFF.604 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 17;9 K alternative_first_exon CUFF.544 chr7 - chr7:37172840-37243713;chr7:37172840-37236705 chr7:37172840-37250990 chr7:37243714-37243905;chr7:37236706-37236877 chr7:37250991-37251122 39;35 N jcn_only_AD CUFF.546 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 36;7 N alternative_donor CUFF.544,CUFF.546 chr7 - chr7:38835212-38836344;chr7:38835212-38836531 chr7:38835212-38836014 chr7:38836015-38836344;chr7:38836345-38836531 chr7:38836344-38836345;chr7:38836531-38836532 51;4 N jcn_only_AA chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 6;44 N jcn_only_AA CUFF.553 chr7 + chr7:73108381-73111795;chr7:73108381-73111934 chr7:73108381-73110735 chr7:73110736-73111795;chr7:73111796-73111934 chr7:73111795-73111796;chr7:73111934-73111935 47;7 N coord_cassette CUFF.547 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845 chr7:44250441-44250530;chr7:44250622-44250723 34;39 K alternative_first_exon CUFF.552 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610430-65610487 chr7:65615650-65615935 38;16 N cassette CUFF.546 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 3;59 N alternative_acceptor CUFF.533,CUFF.553 chr7 + chr7:73101426-73106925 chr7:73101426-73105245 chr7:73105246-73106925 chr7:73106925-73106926 27;3 N jcn_only_AD CUFF.575 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 56;5 N jcn_only_AD chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 13;23 N jcn_only_AD 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 19;2 N jcn_only_AA CUFF.562 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 17;4 K intron_retention CUFF.583 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 93;6 N jcn_only_AA chr7 + chr7:107220747-107221090;chr7:107220747-107224326 chr7:107220747-107221203 40;267 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 5;4 K cassette CUFF.599 chr7 + chr7:148987130-148989301 chr7:148987130-148988646;chr7:148988837-148989301 chr7:148988647-148988836 22;24 N jcn_only_AD chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 47;2 N jcn_only_AD chr7 + chr7:6641772-6647167 chr7:6642384-6647167 chr7:6641772-6642383 chr7:6641771-6641772 12;5 N intron_retention chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 18;29 N intron_retention CUFF.547 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 12;28 N alternative_donor CUFF.604 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 109;0 N alternative_first_exon CUFF.576 chr7 + chr7:107220747-107224326 chr7:107221310-107224326 chr7:107220422-107220746 chr7:107220902-107221309 13;139 K alternative_last_exon CUFF.539 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153500-19153546 chr7:19155091-19155754 30;18 K jcn_only_AA CUFF.604 chr7 - chr7:156516873-156526870 chr7:156521415-156526870 58;55 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 chr7:75039889-75044162 chr7:75044162-75044163 4;13 N jcn_only_AA CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54618445;chr7:54617864-54621559 chr7:54617864-54636823 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 35;18 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 11;1 N alternative_acceptor CUFF.562 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 33;0 K alternative_acceptor CUFF.533,CUFF.557 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 16;9 K jcn_only_AD CUFF.553 chr7 + chr7:73098135-73100965 chr7:73098232-73100965 chr7:73098135-73098231 chr7:73098134-73098135 84;26 N jcn_only_AA CUFF.576 chr7 + chr7:107220747-107221090;chr7:107220747-107221203 chr7:107220747-107224326 275;32 K cassette CUFF.595 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 21;9 N jcn_only_AA CUFF.544 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 57;12 N alternative_donor CUFF.580 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 77;3 N intron_retention chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 2;3 N alternative_donor CUFF.583 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 10;0 N alternative_acceptor CUFF.531 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 75;8 K alternative_first_exon CUFF.544 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37052904-37053040 chr7:37024520-37024715 80;50 N jcn_only_AD CUFF.546 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 31;6 K alternative_first_exon CUFF.601 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815561-150815719 chr7:150816233-150816341 183;98 N cassette CUFF.546 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 6;30 K alternative_last_exon CUFF.539 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152742-19152763 10;20 K alternative_first_exon CUFF.537,CUFF.550 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 16;3 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 7;49 N jcn_only_AA CUFF.604 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 21;9 K alternative_last_exon CUFF.589 chr7 - chr7:127251731-127253075 chr7:127252055-127253075 chr7:127251589-127251730 chr7:127251803-127252054 10;18 K intron_retention CUFF.604 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 13;2 N alternative_donor CUFF.546 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 0;7 K jcn_only_AD CUFF.575 chr7 + chr7:107204505-107205032 chr7:107204655-107205032 chr7:107204505-107204654 chr7:107204504-107204505 30;20 K alternative_acceptor CUFF.575 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 10;91 N alternative_last_exon chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739993 chr7:91734992-91735079 11;70 N alternative_donor CUFF.552 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 30;13 K cassette CUFF.576 chr7 + chr7:107253878-107258772 chr7:107253878-107254098;chr7:107254178-107258772 chr7:107254099-107254177 9;127 N jcn_only_AD CUFF.583 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 10;5 N jcn_only_AD CUFF.595 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 9;4 N jcn_only_AD CUFF.574 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 81;3 N jcn_only_AA chr7 - chr7:22233074-22233532 chr7:22233396-22233532 31;4 N jcn_only_AD CUFF.571,CUFF.574 chr7 - chr7:102669866-102696090;chr7:102669866-102695534 chr7:102669866-102687255 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 56;18 N jcn_only_AA CUFF.549 chr7 + chr7:54617864-54636701;chr7:54617864-54636823;chr7:54617864-54618445 chr7:54617864-54621559 chr7:54618446-54621559;chr7:54621560-54636701;chr7:54636702-54636823 chr7:54621559-54621560;chr7:54636701-54636702;chr7:54636823-54636824 48;5 N alternative_donor CUFF.574 chr7 - chr7:102669866-102696090;chr7:102669866-102687255 chr7:102669866-102695534 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 45;2 N cassette CUFF.547 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 33;121 K cassette CUFF.546 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 18;48 N jcn_only_AA CUFF.554 chr7 + chr7:73275597-73279322 chr7:73275597-73275798 chr7:73275799-73279322 chr7:73279322-73279323 81;15 N alternative_donor CUFF.535 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7197058-7222451 chr7:7197057-7197058 15;0 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 4;43 N intron_retention CUFF.547 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 38;19 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 9;16 N alternative_donor chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 7;0 N jcn_only_AD CUFF.562 chr7 - chr7:86594341-86688640;chr7:86594341-86595124 chr7:86594341-86595129 chr7:86595125-86595129;chr7:86595130-86688640 chr7:86595129-86595130;chr7:86688640-86688641 25;12 N jcn_only_AD CUFF.546 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38969071;chr7:38969072-38971877 chr7:38969071-38969072;chr7:38971877-38971878 29;7 N alternative_donor CUFF.575 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 56;1 N jcn_only_AD chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 18;5 N jcn_only_AA CUFF.580 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 70;6 N coord_cassette CUFF.547 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 34;83 N jcn_only_AA chr7 + chr7:75040010-75044162 chr7:75040010-75040937 10;2 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150813738-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879 chr7:150812729-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 166;50 N alternative_donor chr7 - chr7:102669866-102695534;chr7:102669866-102687255 chr7:102669866-102696090 chr7:102687256-102695534;chr7:102695535-102696090 chr7:102695534-102695535;chr7:102696090-102696091 2;45 N alternative_donor CUFF.552 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 43;0 N jcn_only_AD CUFF.583 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 12;7 N cassette CUFF.583 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 4;13 K alternative_last_exon CUFF.566 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640425 chr7:93629609-93629684 chr7:93621349-93621478 8;8 N jcn_only_AD CUFF.574,CUFF.604 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 135;10 N alternative_acceptor CUFF.580 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 70;0 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 15;49 N jcn_only_AD CUFF.541 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 14;3 N alternative_donor CUFF.574 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 81;0 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 15;51 N jcn_only_AD CUFF.583 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 11;9 K cassette CUFF.599 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 10;16 K jcn_only_AD CUFF.589 chr7 - chr7:127251731-127253075 chr7:127251731-127251998 10;18 N alternative_donor CUFF.580 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 70;0 N jcn_only_AD CUFF.580 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202500-111202519 chr7:111202519-111202520 77;6 K cassette CUFF.604 chr7 - chr7:156556490-156589082 chr7:156556490-156572348;chr7:156572427-156589082 chr7:156572349-156572426 53;20 N jcn_only_AD chr7 + chr7:75045057-75045258;chr7:75045049-75045258 chr7:75044513-75045258 16;4 N alternative_last_exon chr7 + chr7:73108000-73111934 chr7:73108000-73108321 chr7:73111935-73112024 chr7:73108322-73108633 7;31 K alternative_first_exon CUFF.574 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715355 chr7:102714693-102715075 32;53 N jcn_only_AD CUFF.601 chr7 + chr7:150784160-150813879;chr7:150784292-150813879;chr7:150783148-150813879;chr7:150787635-150813879;chr7:150809332-150813879;chr7:150783097-150813879;chr7:150812729-150813879 chr7:150813738-150813879 chr7:150783097-150783147;chr7:150783148-150784159;chr7:150784160-150784291;chr7:150784292-150787634;chr7:150787635-150809331;chr7:150809332-150812728;chr7:150812729-150813737 chr7:150783096-150783097;chr7:150783147-150783148;chr7:150784159-150784160;chr7:150784291-150784292;chr7:150787634-150787635;chr7:150809331-150809332;chr7:150812728-150812729 191;26 N jcn_only_AD CUFF.552 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 41;13 N alternative_donor CUFF.583 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117512157;chr7:117512158-117514054 chr7:117512157-117512158;chr7:117514054-117514055 5;1 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 9;6 N alternative_acceptor CUFF.562 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 17;0 N jcn_only_AA CUFF.541 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22162140-22165039 chr7:22162139-22162140 3;6 N intron_retention chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 4;46 N coord_cassette CUFF.483 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 27;76 N alternative_acceptor CUFF.492 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 13;144 K intron_retention CUFF.476 chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 12;26 N alternative_acceptor CUFF.471 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 3;5 N jcn_only_AD CUFF.465 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 3;23 K jcn_only_AA CUFF.512 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 189;22 N jcn_only_AA CUFF.508 chr6 - chr6:114281204-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281183-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 56;116 N coord_cassette CUFF.512 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 7;41 N alternative_acceptor CUFF.479 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 143;3 N alternative_donor CUFF.510 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 3;18 N jcn_only_AD CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418 chr6:114281183-114291643 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 275;36 N jcn_only_AD chr6 + chr6:112375365-112375537 chr6:112375374-112375537 12;14 N jcn_only_AD CUFF.510 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 15;31 N alternative_donor CUFF.512 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 39;5 N alternative_acceptor CUFF.492 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 187;48 N coord_cassette CUFF.500 chr6 + chr6:90326377-90331640 chr6:90326377-90326592;chr6:90326676-90327672;chr6:90327751-90331640 chr6:90326593-90326675;chr6:90327673-90327750 39;31 K coord_cassette CUFF.505 chr6 + chr6:112558118-112627530 chr6:112558118-112604255;chr6:112604395-112604499;chr6:112604730-112627530 chr6:112604256-112604394;chr6:112604500-112604729 3;38 N alternative_acceptor CUFF.492 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 137;98 N alternative_donor CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114283530 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 151;3 N jcn_only_AD CUFF.483 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 15;14 N cassette CUFF.513 chr6 - chr6:133046119-133055391;chr6:133047978-133055391;chr6:133048152-133055391 chr6:133046119-133049879,chr6:133048152-133049879,chr6:133047978-133049879;chr6:133050119-133055391 chr6:133049880-133050118 41;43 K alternative_donor CUFF.475 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 54;17 N jcn_only_AA CUFF.479 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 85;4 K alternative_acceptor CUFF.473 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 chr6:31938689-31938924;chr6:31938383-31938529 52;39 K coord_cassette CUFF.513 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 21;23 K alternative_acceptor CUFF.513 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 27;18 N jcn_only_AA CUFF.492 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 139;90 K jcn_only_AD CUFF.521 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 22;20 K intron_retention CUFF.526 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 4;2 N alternative_first_exon CUFF.500 chr6 + chr6:90143095-90305634 chr6:90276816-90305634 chr6:90142889-90143094 chr6:90276553-90276815 23;350 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 11;2 K intron_retention CUFF.492 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 240;279 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 27;4 K alternative_last_exon CUFF.476 chr6 + chr6:32130400-32132355;chr6:32130400-32130583 chr6:32130400-32133914 chr6:32132356-32132435;chr6:32130584-32131455 chr6:32133915-32134012 17;6 N alternative_donor CUFF.489 chr6 - chr6:41491964-41513826 chr6:41491964-41513737 chr6:41513738-41513826 chr6:41513826-41513827 5;60 K alternative_first_exon CUFF.497,CUFF.509 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994748 chr6:75977357-75977466 20;7 N alternative_donor CUFF.493 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 17;1 N jcn_only_AA CUFF.508 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114283559-114292020 chr6:114289861-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 140;32 K cassette CUFF.487 chr6 - chr6:39859156-39864972 chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859399-39859539 4;7 N jcn_only_AA CUFF.492 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 181;48 N jcn_only_AD CUFF.524 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 6;4 N jcn_only_AA CUFF.513 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 91;15 N jcn_only_AA CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 40;11 K intron_retention CUFF.479 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 22;19 N jcn_only_AD CUFF.463 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 32;50 K alternative_acceptor CUFF.493 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 14;34 N jcn_only_AA CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 38;13 N mutually_exclusive CUFF.513 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 7;12 K intron_retention CUFF.460 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 9;34 N jcn_only_AA chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 32;50 N alternative_acceptor CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 23;6 N cassette CUFF.512 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 26;36 K cassette CUFF.512 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 15;151 N jcn_only_AA chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 47;44 K intron_retention CUFF.513 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 91;6 N jcn_only_AA CUFF.492 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 226;3 K intron_retention CUFF.473 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 chr6:31938120-31938255;chr6:31938383-31938529 163;21 N cassette CUFF.513 chr6 - chr6:133050119-133055391 chr6:133050119-133052513;chr6:133052667-133055391 chr6:133052514-133052666 16;24 N alternative_donor CUFF.483 chr6 - chr6:35478788-35479956 chr6:35478788-35479424 chr6:35479425-35479956 chr6:35479956-35479957 15;16 N alternative_acceptor CUFF.524 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 21;0 N cassette CUFF.513 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 41;39 K cassette CUFF.500 chr6 + chr6:90337416-90338830 chr6:90337416-90337965;chr6:90338061-90338830 chr6:90337966-90338060 82;29 N alternative_donor CUFF.465 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 3;11 N alternative_donor CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418 chr6:114281183-114291643 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 137;17 N alternative_acceptor CUFF.508 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114289861-114292020 chr6:114283559-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 124;1 N jcn_only_AA CUFF.492 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 161;68 K jcn_only_AA CUFF.528 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 10;77 K alternative_first_exon CUFF.524 chr6 + chr6:161518209-161522923 chr6:161519460-161522923 chr6:161518112-161518208 chr6:161519254-161519459 18;74 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 15;6 N jcn_only_AA CUFF.504 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 23;20 N jcn_only_AD CUFF.508 chr6 - chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114289797 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 279;32 N jcn_only_AD CUFF.504 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 35;2 N jcn_only_AD CUFF.512 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 39;37 N alternative_donor CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114289493 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 151;3 K cassette CUFF.465 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 3;8 K alternative_first_exon CUFF.473 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31940161 chr6:31939097-31939462 chr6:31938689-31938924 5;49 N jcn_only_AD CUFF.510 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 3;31 N alternative_acceptor CUFF.508 chr6 - chr6:114281204-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281183-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 9;116 N intron_retention CUFF.500 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 64;11 N jcn_only_AA CUFF.476,CUFF.524 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 6;6 N alternative_acceptor CUFF.512 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 63;0 K alternative_acceptor CUFF.455 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 48;434 N cassette CUFF.513 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 30;44 N alternative_donor CUFF.519 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 73;0 K cassette CUFF.493 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 7;51 N coord_cassette CUFF.513 chr6 - chr6:133048152-133055391 chr6:133048152-133049879;chr6:133050119-133052513;chr6:133052667-133055391 chr6:133049880-133050118;chr6:133052514-133052666 6;20 N jcn_only_AD CUFF.508 chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 3;21 K cassette CUFF.519 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 30;35 K alternative_first_exon CUFF.500 chr6 + chr6:90272618-90276552,chr6:90272643-90276552,chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193050-90193277 chr6:90218804-90218968 168;105 N cassette CUFF.500 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 10;125 K intron_retention CUFF.492 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 286;25 N jcn_only_AD CUFF.500 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 63;34 K alternative_first_exon CUFF.463 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486496;chr6:13486870-13487974 chr6:13472213-13472330 33;17 N cassette CUFF.505 chr6 + chr6:112558118-112627530 chr6:112558118-112604255;chr6:112604395-112627530 chr6:112604256-112604394 3;29 N alternative_donor CUFF.504 chr6 + chr6:112386201-112389407 chr6:112388236-112389407 chr6:112386201-112388235 chr6:112386200-112386201 96;1 N alternative_donor CUFF.480 chr6 + chr6:34434048-34494019;chr6:34452922-34494019 chr6:34482846-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 15;0 K alternative_first_exon CUFF.463 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472330;chr6:13486870-13487974 chr6:13486243-13486496 33;17 N cassette CUFF.492 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 6;431 N cassette CUFF.503 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 8;32 N intron_retention chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 5;22 N alternative_donor CUFF.524 chr6 + chr6:161529892-161530786 chr6:161530074-161530786 chr6:161529892-161530073 chr6:161529891-161529892 74;14 N jcn_only_AD CUFF.519 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 4;11 N alternative_acceptor CUFF.479 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 85;2 N alternative_acceptor CUFF.524 chr6 + chr6:161529892-161530786 chr6:161529892-161529982 chr6:161529983-161530786 chr6:161530786-161530787 74;1 N alternative_donor CUFF.524 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 4;22 N mutually_exclusive CUFF.513 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 9;15 K alternative_acceptor CUFF.503 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 11;16 N jcn_only_AD CUFF.493 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 17;8 N cassette CUFF.503 chr6 + chr6:111306342-111312949 chr6:111306342-111310230;chr6:111310269-111312949 chr6:111310231-111310268 8;24 K intron_retention chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 807;9 N alternative_donor CUFF.456 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 5;7 K intron_retention CUFF.492 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 774;13 N alternative_acceptor CUFF.473 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 chr6:31938689-31938916 21;44 N cassette CUFF.509 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 6;21 N alternative_donor CUFF.524 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 6;0 K intron_retention CUFF.493 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 47;22 K intron_retention CUFF.452 chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 70;29 N jcn_only_AD CUFF.524 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 4;45 N jcn_only_AA CUFF.456 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 5;3 N jcn_only_AA CUFF.479 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 143;5 N alternative_acceptor CUFF.475 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 72;5 N jcn_only_AA CUFF.492 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 13;240 N mutually_exclusive CUFF.513 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 9;12 K alternative_donor CUFF.523 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 14;11 N alternative_first_exon CUFF.489 chr6 - chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826,chr6:41491964-41513737 chr6:41515199-41515381 chr6:41513827-41513981 45;103 K intron_retention CUFF.513 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 13;9 N jcn_only_AD CUFF.489 chr6 - chr6:41491964-41513826 chr6:41491964-41513737 chr6:41513738-41513826 chr6:41513826-41513827 5;114 K cassette CUFF.478 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 14;46 N jcn_only_AA CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 40;11 K intron_retention CUFF.475 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 84;2 N jcn_only_AD CUFF.505 chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 43;12 N cassette CUFF.528 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 3;15 K jcn_only_AD CUFF.473,CUFF.509 chr6 - chr6:116980088-116981898 chr6:116980088-116981395 20;10 N jcn_only_AD chr6 - chr6:114283559-114289797;chr6:114283559-114332294 chr6:114283559-114292020 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 64;12 K cassette CUFF.498 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 3;7 N alternative_donor CUFF.508 chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 3;16 N alternative_acceptor CUFF.508 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114283559-114292020 chr6:114289861-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 123;2 N alternative_acceptor CUFF.504 chr6 + chr6:112386201-112389407 chr6:112386201-112388171 chr6:112388172-112389407 chr6:112389407-112389408 96;1 N alternative_donor CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291643 chr6:114281183-114291418 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 143;11 N jcn_only_AA CUFF.500 chr6 + chr6:90327751-90333128 chr6:90327751-90331640 chr6:90331641-90333128 chr6:90333128-90333129 2;64 K alternative_first_exon CUFF.523 chr6 - chr6:151757690-151766442;chr6:151757690-151773150 chr6:151757690-151765600 chr6:151766443-151767013;chr6:151773151-151773335 chr6:151765601-151765760 36;9 N jcn_only_AA CUFF.509 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 20;11 N jcn_only_AD CUFF.479 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 85;8 K jcn_only_AA CUFF.509 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 9;23 N alternative_acceptor CUFF.456 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 5;6 K cassette CUFF.475 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 3;10 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 26;4 N cassette CUFF.510 chr6 + chr6:126329892-126332398 chr6:126329892-126330480;chr6:126330581-126332398 chr6:126330481-126330580 2;12 N jcn_only_AA CUFF.492 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 807;16 N alternative_donor CUFF.504 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 35;1 N alternative_donor CUFF.480 chr6 + chr6:34452922-34494019;chr6:34482846-34494019 chr6:34434048-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 0;15 K intron_retention CUFF.508 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 245;3 K alternative_acceptor CUFF.510 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 30;14 N alternative_donor CUFF.510 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 37;5 N alternative_acceptor CUFF.492 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 807;5 K cassette CUFF.512 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 41;47 K alternative_first_exon CUFF.452 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292005-292560 2;47 K cassette CUFF.476 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 75;52 N jcn_only_AA CUFF.524 chr6 + chr6:161518209-161522923 chr6:161518209-161519309 chr6:161519310-161522923 chr6:161522923-161522924 27;52 N jcn_only_AD CUFF.497 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 3;4 N alternative_donor CUFF.475 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 26;20 K cassette CUFF.510 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 107;16 K jcn_only_AD CUFF.523 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 14;10 N coord_cassette CUFF.487 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39859398;chr6:39859540-39864972 chr6:39859082-39859155;chr6:39859399-39859539 12;7 K intron_retention CUFF.492 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 145;5 N alternative_acceptor CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 18;11 K alternative_first_exon CUFF.523 chr6 - chr6:151757690-151765600;chr6:151757690-151773150 chr6:151757690-151766442 chr6:151765601-151765760;chr6:151773151-151773335 chr6:151766443-151767013 21;24 N jcn_only_AD CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291643 chr6:114281183-114291418 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 278;33 N cassette CUFF.452 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 30;54 N alternative_donor CUFF.479 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 85;0 K mutually_exclusive CUFF.505 chr6 + chr6:112558118-112666314,chr6:112666362-112668493 chr6:112558118-112664599,chr6:112664981-112668493 chr6:112666315-112666361 chr6:112664600-112664980 11;38 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 9;22 N alternative_donor chr6 - chr6:114283559-114292020;chr6:114283559-114332294 chr6:114283559-114289797 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 14;1 N alternative_acceptor CUFF.500 chr6 + chr6:90327751-90333128 chr6:90327751-90331640 chr6:90331641-90333128 chr6:90333128-90333129 2;7 N alternative_donor CUFF.510 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 11;31 N jcn_only_AA CUFF.473 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 chr6:31938689-31938916 21;90 N alternative_donor CUFF.497 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75982180-75993935 chr6:75993935-75993936 3;0 N alternative_donor CUFF.476 chr6 + chr6:32130400-32133914 chr6:32132435-32133914 chr6:32130400-32132434 chr6:32130399-32130400 9;3 K intron_retention CUFF.473 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 chr6:31938383-31938529;chr6:31938689-31938924 52;24 N jcn_only_AA CUFF.471 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 3;9 N jcn_only_AD CUFF.475 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 26;48 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 9;0 N alternative_acceptor chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 32;3 N alternative_acceptor chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 36;2 K intron_retention CUFF.487 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 2;9 N alternative_acceptor CUFF.492 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 214;21 K alternative_last_exon CUFF.476 chr6 + chr6:32130400-32133914;chr6:32130400-32132355 chr6:32130400-32130583 chr6:32133915-32134012;chr6:32132356-32132435 chr6:32130584-32131455 10;13 K jcn_only_AD CUFF.475 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 54;35 N jcn_only_AD CUFF.519 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 73;3 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 13;278 N cassette CUFF.500 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 39;47 K alternative_last_exon CUFF.476 chr6 + chr6:32130400-32133914;chr6:32130400-32130583 chr6:32130400-32132355 chr6:32133915-32134012;chr6:32130584-32131455 chr6:32132356-32132435 19;4 N alternative_acceptor CUFF.524 chr6 + chr6:161518209-161522923 chr6:161518209-161519309 chr6:161519310-161522923 chr6:161522923-161522924 27;5 K jcn_only_AA CUFF.503 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 11;36 K intron_retention CUFF.452 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 128;23 N jcn_only_AD CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114283530 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 236;74 N jcn_only_AD CUFF.480 chr6 + chr6:34452922-34494019;chr6:34482846-34494019 chr6:34434048-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 34;15 N jcn_only_AD chr6 - chr6:114283559-114292020;chr6:114283559-114289797 chr6:114283559-114332294 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 62;14 K alternative_first_exon CUFF.498 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88065834-88066221 chr6:88068774-88068919 15;7 N cassette CUFF.500 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 44;50 N alternative_donor CUFF.519 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 4;0 N alternative_acceptor CUFF.492 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 229;6 N jcn_only_AA CUFF.475 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 72;13 N alternative_acceptor CUFF.492 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 173;62 K coord_cassette CUFF.513 chr6 - chr6:133046119-133055391 chr6:133046119-133049879;chr6:133050119-133052513;chr6:133052667-133055391 chr6:133049880-133050118;chr6:133052514-133052666 21;16 N alternative_first_exon CUFF.524 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 7;25 N alternative_donor CUFF.510 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 36;6 N jcn_only_AD chr6 - chr6:114283559-114292020;chr6:114283559-114332294 chr6:114283559-114289797 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 27;50 K jcn_only_AA CUFF.455 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 48;544 N alternative_acceptor chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 47;18 K cassette CUFF.500 chr6 + chr6:90326377-90327672 chr6:90326377-90326592;chr6:90326676-90327672 chr6:90326593-90326675 51;35 N cassette CUFF.510 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 6;52 N jcn_only_AD CUFF.456 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 5;27 N alternative_acceptor CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 22;7 K coord_cassette CUFF.510 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126330480;chr6:126330581-126332398 chr6:126329803-126329891;chr6:126330481-126330580 60;11 K intron_retention CUFF.519 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 44;37 N jcn_only_AD CUFF.524 chr6 + chr6:161529892-161530786 chr6:161530074-161530786 chr6:161529892-161530073 chr6:161529891-161529892 74;14 K jcn_only_AA CUFF.510 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 30;31 N cassette CUFF.452 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 38;24 N alternative_donor CUFF.519 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 3;1 N alternative_acceptor CUFF.504 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 23;1 N alternative_acceptor CUFF.508 chr6 - chr6:114281183-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281204-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 119;6 N jcn_only_AA CUFF.504 chr6 + chr6:112386201-112389407 chr6:112386201-112388171 chr6:112388172-112389407 chr6:112389407-112389408 96;11 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 9;10 N jcn_only_AD CUFF.510 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 37;9 N jcn_only_AD chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114292020 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 195;116 K jcn_only_AA CUFF.473 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 chr6:31938689-31938924;chr6:31938383-31938529 52;53 N cassette CUFF.476 chr6 + chr6:32122555-32123544;chr6:32122555-32123464 chr6:32122555-32122806;chr6:32122961-32123544,chr6:32122961-32123464 chr6:32122807-32122960 126;81 N cassette CUFF.513 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 30;38 K alternative_first_exon CUFF.463 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486496;chr6:13472213-13472330 chr6:13486870-13487974 34;16 N jcn_only_AA CUFF.512 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 63;5 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 2;29 N jcn_only_AD CUFF.503 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 30;4 K intron_retention CUFF.473 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 chr6:31938689-31938924 53;16 N jcn_only_AA chr6 - chr6:114281183-114291643 chr6:114289861-114291643 chr6:114281183-114289860 chr6:114281182-114281183 36;50 N jcn_only_AA CUFF.492 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 210;19 K jcn_only_AA CUFF.513 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 27;15 K alternative_first_exon CUFF.523 chr6 - chr6:151757690-151765600;chr6:151757690-151766442 chr6:151757690-151773150 chr6:151765601-151765760;chr6:151766443-151767013 chr6:151773151-151773335 33;12 K alternative_first_exon CUFF.465 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109644-28109807 chr6:28109915-28110041 6;9 N jcn_only_AD CUFF.519 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 12;3 K alternative_first_exon CUFF.518 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665148-144665440 4;13 N coord_cassette CUFF.513 chr6 - chr6:133047978-133055391 chr6:133047978-133049879;chr6:133050119-133052513;chr6:133052667-133055391 chr6:133049880-133050118;chr6:133052514-133052666 14;25 K coord_cassette CUFF.493 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 24;23 N intron_retention CUFF.524 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 5;14 K alternative_first_exon CUFF.524 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443154-161443259 2;17 N jcn_only_AA CUFF.508 chr6 - chr6:114281183-114292020;chr6:114289861-114292020;chr6:114283559-114292020 chr6:114281204-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 161;12 N alternative_donor CUFF.508 chr6 - chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114289797 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 150;4 N jcn_only_AD CUFF.476 chr6 + chr6:32130400-32133914 chr6:32132435-32133914 chr6:32130400-32132434 chr6:32130399-32130400 9;3 N alternative_donor CUFF.500 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 63;36 N coord_cassette CUFF.452 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 20;42 N coord_cassette CUFF.460 chr6 - chr6:5109726-5260880 chr6:5109726-5113304;chr6:5113652-5216850;chr6:5216972-5260880 chr6:5113305-5113651;chr6:5216851-5216971 3;21 K cassette CUFF.512 chr6 - chr6:128313855-128316606 chr6:128313855-128316393;chr6:128316412-128316606 chr6:128316394-128316411 23;18 K alternative_acceptor CUFF.528 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 10;38 K alternative_acceptor CUFF.509 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 9;25 N mutually_exclusive CUFF.513 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 7;15 K intron_retention CUFF.513 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 80;15 N jcn_only_AD CUFF.489,CUFF.512 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 40;22 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 14;10 K cassette CUFF.512 chr6 - chr6:128718834-128841403 chr6:128718834-128730438;chr6:128730478-128841403 chr6:128730439-128730477 22;11 K alternative_last_exon CUFF.512 chr6 - chr6:128384671-128385902;chr6:128330414-128385902 chr6:128383570-128385902 chr6:128330275-128330413 chr6:128383207-128383569 59;83 N alternative_donor CUFF.505 chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 43;0 N cassette CUFF.500 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 14;205 N jcn_only_AD CUFF.480 chr6 + chr6:34434048-34494019;chr6:34482846-34494019 chr6:34452922-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 43;6 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 chr6:31938120-31938155 6;18 N jcn_only_AD CUFF.519 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 13;2 N coord_cassette CUFF.513 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 21;23 N alternative_donor CUFF.463 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114291644-114292020 chr6:114292020-114292021 32;53 N alternative_acceptor CUFF.513 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 91;11 N cassette CUFF.505 chr6 + chr6:112604395-112627530 chr6:112604395-112604499;chr6:112604730-112627530 chr6:112604500-112604729 14;41 N intron_retention chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 14;31 N jcn_only_AD CUFF.508 chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114292020;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114289493 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 291;20 N alternative_donor CUFF.503 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 30;3 K jcn_only_AA CUFF.493 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 14;11 N cassette CUFF.510 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 60;7 N alternative_acceptor CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 24;5 N alternative_last_exon CUFF.489 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491633-41491963 23;6 K cassette CUFF.476 chr6 + chr6:32125498-32130344 chr6:32125498-32125616;chr6:32125702-32130344 chr6:32125617-32125701 11;61 N jcn_only_AA CUFF.473 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 chr6:31939706-31940161;chr6:31938689-31938924 35;16 K alternative_first_exon CUFF.478 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32811913-32812051 chr6:32821900-32822066 18;18 N jcn_only_AD CUFF.475 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 2;28 K cassette CUFF.512 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 7;50 N alternative_donor CUFF.519 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 1;3 N jcn_only_AA CUFF.524 chr6 + chr6:161529892-161530786 chr6:161529892-161529982 chr6:161529983-161530786 chr6:161530786-161530787 74;5 N jcn_only_AA CUFF.493 chr6 + chr6:161413116-161491639 chr6:161413116-161455290 5;2 N alternative_donor chr6 - chr6:114281183-114289797;chr6:114281183-114283530;chr6:114281183-114289493;chr6:114281183-114291418;chr6:114281183-114291643 chr6:114281183-114292020 chr6:114283531-114289493;chr6:114289494-114289797;chr6:114289798-114291418;chr6:114291419-114291643;chr6:114291644-114292020 chr6:114289493-114289494;chr6:114289797-114289798;chr6:114291418-114291419;chr6:114291643-114291644;chr6:114292020-114292021 38;116 N cassette CUFF.505 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 4;93 N jcn_only_AA CUFF.508 chr6 - chr6:114281183-114292020;chr6:114281204-114292020;chr6:114289861-114292020 chr6:114283559-114292020 chr6:114281183-114281203;chr6:114281204-114283558;chr6:114283559-114289860 chr6:114281182-114281183;chr6:114281203-114281204;chr6:114283558-114283559 160;12 N cassette CUFF.452 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 16;64 N jcn_only_AD CUFF.480 chr6 + chr6:34434048-34494019;chr6:34452922-34494019 chr6:34482846-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 21;28 K intron_retention CUFF.479 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 115;6 N jcn_only_AD CUFF.504 chr6 + chr6:112386201-112389407 chr6:112388236-112389407 chr6:112386201-112388235 chr6:112386200-112386201 96;11 N jcn_only_AD CUFF.510 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 39;6 N alternative_acceptor CUFF.509 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 20;1 N alternative_donor chr6 - chr6:114283559-114292020;chr6:114283559-114289797 chr6:114283559-114332294 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 1;14 N alternative_donor chr6 - chr6:114283559-114289797;chr6:114283559-114332294 chr6:114283559-114292020 chr6:114289798-114292020;chr6:114292021-114332294 chr6:114292020-114292021;chr6:114332294-114332295 15;0 N alternative_donor CUFF.489,CUFF.512 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 40;3 K jcn_only_AA CUFF.471 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 16;29 N jcn_only_AA CUFF.524 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 21;2 N alternative_acceptor CUFF.476,CUFF.524 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 6;2 N cassette CUFF.487 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 12;7 N alternative_donor CUFF.480 chr6 + chr6:34434048-34494019;chr6:34482846-34494019 chr6:34452922-34494019 chr6:34434048-34452921;chr6:34452922-34482845 chr6:34434047-34434048;chr6:34452921-34452922 15;0 N alternative_last_exon CUFF.512 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128319865-128320049 chr6:128321106-128321475 14;64 N cassette CUFF.505 chr6 + chr6:112558118-112668493 chr6:112558118-112666314;chr6:112666362-112668493 chr6:112666315-112666361 4;12 N alternative_donor chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 3;31 N alternative_donor CUFF.449 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 6;12 K alternative_last_exon CUFF.423,CUFF.432 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 1;91 N alternative_donor CUFF.432 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 9;2 N alternative_donor CUFF.420 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 42;12 K intron_retention CUFF.439 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 21;13 K jcn_only_AD CUFF.405 chr5 - chr5:37309370-37310653 chr5:37309370-37309505 15;3 N alternative_acceptor CUFF.450 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 31;1 K mutually_exclusive CUFF.415 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 67;96 K cassette CUFF.436 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 13;46 K intron_retention CUFF.439 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 183;12 K alternative_first_exon CUFF.425 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82970344;chr5:82969369-82978143 chr5:82969369-83016607 chr5:82970345-82970701;chr5:82978144-82978425 chr5:83016608-83017432 45;0 N jcn_only_AA CUFF.407 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 47;3 N jcn_only_AA chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 8;19 K jcn_only_AA CUFF.406 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 29;28 K intron_retention CUFF.439 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 11;13 K cassette CUFF.450 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 24;28 K intron_retention CUFF.415 chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 192;13 K alternative_acceptor CUFF.397 chr5 - chr5:471939-472793 chr5:472081-472793 chr5:471939-472080 chr5:471938-471939 18;54 K alternative_last_exon CUFF.427 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411049 chr5:121362637-121364331 17;18 K alternative_donor CUFF.439 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 183;28 K alternative_first_exon CUFF.425 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82978143;chr5:82969369-83016607 chr5:82969369-82970344 chr5:82978144-82978425;chr5:83016608-83017432 chr5:82970345-82970701 20;25 K mutually_exclusive CUFF.429 chr5 - chr5:127302621-127412638,chr5:127412786-127418426 chr5:127302621-127396835,chr5:127396937-127418426 chr5:127412639-127412785 chr5:127396836-127396936 8;7 N jcn_only_AA CUFF.425 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 2;6 N cassette CUFF.402 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 79;46 K cassette CUFF.448 chr5 - chr5:162516353-162852808 chr5:162516353-162683856;chr5:162683994-162852808 chr5:162683857-162683993 68;35 K intron_retention CUFF.438 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 42;24 K jcn_only_AA CUFF.438 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 12;14 K cassette CUFF.414 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 chr5:54442456-54442684;chr5:54468766-54469098 177;38 K alternative_last_exon CUFF.434 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194745-137194952 chr5:137219273-137219310 8;10 K alternative_last_exon CUFF.420 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902742-64902994 43;26 N jcn_only_AD chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 3;48 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 5;62 N alternative_first_exon CUFF.418 chr5 + chr5:56531860-56542126 chr5:56533000-56542126 chr5:56531793-56531859 chr5:56532872-56532999 28;18 N jcn_only_AD CUFF.420,CUFF.442 chr5 - chr5:64907709-64909924 chr5:64907709-64909553 chr5:64909554-64909924 chr5:64909924-64909925 62;14 N jcn_only_AA CUFF.419 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 61;3 K cassette CUFF.414 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 25;13 K alternative_acceptor CUFF.438 chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 17;1 K cassette CUFF.416 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 9;7 N alternative_acceptor chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 8;40 K intron_retention CUFF.450 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 32;34 K jcn_only_AA CUFF.442 chr5 - chr5:141041357-141044488 chr5:141041823-141044488 chr5:141041357-141041822 chr5:141041356-141041357 13;13 K cassette CUFF.415 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 86;73 N cassette CUFF.438 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 3;15 K cassette CUFF.418 chr5 + chr5:56510021-56526672 chr5:56510021-56517202;chr5:56517224-56526672 chr5:56517203-56517223 10;23 N alternative_donor CUFF.438 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 56;16 N jcn_only_AA CUFF.425 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 7;60 K intron_retention CUFF.399 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 5;2 N mutually_exclusive CUFF.429 chr5 - chr5:127302621-127412638,chr5:127412786-127417664 chr5:127302621-127396835,chr5:127396937-127417664 chr5:127412639-127412785 chr5:127396836-127396936 8;7 N jcn_only_AA CUFF.429 chr5 - chr5:127396337-127396835;chr5:127359991-127396835 chr5:127292614-127396835 13;31 K intron_retention CUFF.415 chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 57;40 K coord_cassette CUFF.447 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 23;160 N jcn_only_AA CUFF.429 chr5 - chr5:127292614-127396835;chr5:127359991-127396835 chr5:127396337-127396835 38;6 N jcn_only_AD CUFF.419 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 61;3 K alternative_first_exon CUFF.425 chr5 - chr5:82969369-82969951,chr5:82969369-82971106;chr5:82969369-82970344;chr5:82969369-83016607 chr5:82969369-82978143 chr5:82970345-82970701;chr5:83016608-83017432 chr5:82978144-82978425 36;9 N alternative_donor CUFF.419 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 71;0 K alternative_acceptor CUFF.406 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 29;13 N alternative_donor CUFF.429 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 41;1 N jcn_only_AA CUFF.411 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 15;9 N alternative_donor CUFF.430 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 2;7 N alternative_acceptor CUFF.407 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 47;3 N jcn_only_AA CUFF.420 chr5 - chr5:64907709-64909924 chr5:64909683-64909924 chr5:64907709-64909682 chr5:64907708-64907709 62;14 K intron_retention chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 19;26 K jcn_only_AA CUFF.416 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 22;9 K intron_retention chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 51;14 N jcn_only_AD CUFF.438 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 10;42 K jcn_only_AD CUFF.439 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 183;48 N alternative_acceptor CUFF.432 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 9;1 K alternative_first_exon CUFF.416,CUFF.445 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54579031-54579639 chr5:54578944-54578974 21;4 K jcn_only_AD CUFF.436 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 54;3 K jcn_only_AD CUFF.442 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 9;5 K alternative_first_exon CUFF.439 chr5 + chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055,chr5:140027593-140028055 chr5:140026643-140026894 chr5:140027345-140027509 14;158 N cassette CUFF.447 chr5 - chr5:149782189-149785821;chr5:149782189-149784242 chr5:149782189-149782683;chr5:149782876-149785821,chr5:149782876-149784242 chr5:149782684-149782875 47;58 N intron_retention chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 3;10 K intron_retention CUFF.440 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 35;12 K jcn_only_AA CUFF.397 chr5 - chr5:471939-472793 chr5:472081-472793 chr5:471939-472080 chr5:471938-471939 18;61 K cassette CUFF.450 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 851;34 K alternative_first_exon CUFF.445 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783862 chr5:148758768-148758929 10;21 K alternative_donor CUFF.442 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 9;3 K alternative_donor CUFF.436 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 54;4 N cassette CUFF.449 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 46;19 K cassette CUFF.419 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 13;52 N jcn_only_AA CUFF.409,CUFF.438 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 42;4 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 24;7 N alternative_acceptor chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 3;6 N alternative_acceptor CUFF.425 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 2;8 K cassette CUFF.429 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 55;18 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 12;7 K intron_retention CUFF.418 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 21;24 N coord_cassette CUFF.447 chr5 - chr5:149782189-149785821 chr5:149782189-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 21;38 K intron_retention CUFF.442 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 11;11 K alternative_donor CUFF.403,CUFF.425 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 3;19 N alternative_acceptor CUFF.411 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 10;0 K alternative_acceptor CUFF.439 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 80;76 N jcn_only_AD CUFF.420 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 42;2 N alternative_donor CUFF.420,CUFF.442 chr5 - chr5:64907709-64909924 chr5:64907709-64909553 chr5:64909554-64909924 chr5:64909924-64909925 62;4 N jcn_only_AA CUFF.450 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178032384-178032866 chr5:178032383-178032384 31;3 N alternative_first_exon CUFF.430 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795958-128796175 chr5:128796795-128797450 5;3 N alternative_first_exon CUFF.433 chr5 + chr5:134181428-134190587;chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181370-134181427;chr5:134181764-134181902 chr5:134182145-134182553 6;34 N alternative_donor CUFF.419 chr5 - chr5:60224787-60240758 chr5:60224787-60227933 chr5:60227934-60240758 chr5:60240758-60240759 61;0 K jcn_only_AA CUFF.438 chr5 + chr5:139866646-139884405 chr5:139866646-139876104 9;3 N jcn_only_AD chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 3;51 N jcn_only_AD CUFF.432 chr5 + chr5:131658049-131662969 chr5:131660336-131662969 chr5:131658049-131660335 chr5:131658048-131658049 9;15 K jcn_only_AA CUFF.414 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54436142-54436235 43;102 N jcn_only_AD CUFF.438 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 56;25 K alternative_last_exon CUFF.415,CUFF.432 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656666 10;60 K alternative_first_exon CUFF.436 chr5 + chr5:137514540-137515348 chr5:137514892-137515348,chr5:137515023-137515348 chr5:137514408-137514539 chr5:137514654-137514891 3;29 K alternative_last_exon CUFF.402,CUFF.438 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184143 chr5:36181920-36182184 22;96 K jcn_only_AA CUFF.438 chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 22;3 K jcn_only_AA CUFF.438 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 17;9 N jcn_only_AD chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 6;59 N intron_retention chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 2;33 K alternative_first_exon CUFF.432 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630136-131630702 chr5:131631031-131631314 8;81 N cassette CUFF.429 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 37;25 N alternative_acceptor CUFF.425 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 7;30 K intron_retention CUFF.450 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 12;18 N jcn_only_AA chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 23;7 K alternative_acceptor CUFF.416 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 22;6 N jcn_only_AA CUFF.406 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 3;77 K intron_retention CUFF.415 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 133;76 K jcn_only_AA CUFF.439 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 80;160 K alternative_last_exon CUFF.410 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 4;6 N cassette CUFF.447 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 16;161 K alternative_first_exon CUFF.409 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681954-50682460 15;121 K intron_retention CUFF.433 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 4;34 K intron_retention CUFF.439 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 12;15 K alternative_last_exon CUFF.448 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465067-162465479 12;13 K alternative_acceptor CUFF.438 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 9;9 K alternative_last_exon CUFF.397 chr5 - chr5:472709-472793;chr5:466642-472793 chr5:471939-472793,chr5:472081-472793 chr5:466239-466641 chr5:470605-471938 68;131 K intron_retention CUFF.436 chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 54;6 K intron_retention CUFF.450 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 37;40 N jcn_only_AA CUFF.418 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 22;103 K alternative_acceptor CUFF.438 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 10;8 N jcn_only_AD CUFF.419 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 8;19 N alternative_first_exon CUFF.433 chr5 + chr5:134182554-134190587;chr5:134181903-134190587 chr5:134181428-134190587 chr5:134182145-134182553;chr5:134181764-134181902 chr5:134181370-134181427 36;4 N jcn_only_AD CUFF.429 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 41;17 N alternative_donor CUFF.420,CUFF.442 chr5 - chr5:141041357-141044488 chr5:141041357-141041609 chr5:141041610-141044488 chr5:141044488-141044489 13;1 N alternative_acceptor CUFF.419 chr5 - chr5:60224787-60240758 chr5:60227976-60240758 chr5:60224787-60227975 chr5:60224786-60224787 61;0 N intron_retention CUFF.415 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 23;11 N jcn_only_AA CUFF.419 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 72;2 K intron_retention chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 7;11 N intron_retention chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 19;311 K intron_retention CUFF.436 chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 3;4 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 12;56 K intron_retention CUFF.447 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 91;3 N alternative_donor chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 3;25 N coord_cassette CUFF.429 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 29;7 K alternative_last_exon CUFF.402,CUFF.407 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983047 chr5:40980089-40980452 10;20 N intron_retention chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 3;14 N jcn_only_AA chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 3;7 N alternative_first_exon CUFF.433 chr5 + chr5:134182554-134190587;chr5:134181428-134190587 chr5:134181903-134190587 chr5:134182145-134182553;chr5:134181370-134181427 chr5:134181764-134181902 38;2 K jcn_only_AA CUFF.418,CUFF.427 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 34;59 K jcn_only_AD CUFF.403,CUFF.425 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 3;32 K intron_retention CUFF.447 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 198;23 K alternative_first_exon CUFF.430 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019813-129019966 chr5:129023702-129023907 3;110 K alternative_first_exon CUFF.419 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214512 69;37 N jcn_only_AD CUFF.449 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 6;14 N cassette CUFF.429 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 57;18 N alternative_acceptor CUFF.420 chr5 - chr5:64907709-64909924 chr5:64909683-64909924 chr5:64907709-64909682 chr5:64907708-64907709 62;1 K alternative_acceptor CUFF.442 chr5 - chr5:141041357-141044488 chr5:141041823-141044488 chr5:141041357-141041822 chr5:141041356-141041357 13;9 N alternative_donor chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 6;59 N jcn_only_AD CUFF.433 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 4;2 N alternative_donor CUFF.419 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 72;2 N alternative_donor CUFF.419 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 8;769 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195429 chr5:134182353-134182553 0;36 K intron_retention CUFF.420 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 66;19 N jcn_only_AA CUFF.411 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 10;6 N jcn_only_AD CUFF.420,CUFF.442 chr5 - chr5:141041357-141044488 chr5:141041357-141041609 chr5:141041610-141044488 chr5:141044488-141044489 13;7 N cassette CUFF.420 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 3;60 K alternative_first_exon CUFF.399 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2753066 chr5:2751279-2751776 43;18 N alternative_donor CUFF.433 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 4;33 K cassette CUFF.414 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 27;21 K cassette CUFF.402 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 66;19 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 8;15 N jcn_only_AD CUFF.430 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 2;10 K jcn_only_AA CUFF.403 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 10;43 N jcn_only_AD CUFF.419 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 71;2 K alternative_last_exon CUFF.448 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683037-162683276 5;11 K intron_retention CUFF.449 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 43;18 K alternative_first_exon CUFF.408 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44808933-44809665 chr5:44809919-44810094 26;11 N jcn_only_AA CUFF.429 chr5 - chr5:127396337-127396835;chr5:127292614-127396835 chr5:127359991-127396835 37;7 K mutually_exclusive CUFF.415 chr5 + chr5:54456072-54456947,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456948-54457083 chr5:54456158-54456224 78;96 N cassette CUFF.418 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 3;22 N alternative_last_exon chr5 + chr5:56531860-56542126 chr5:56531860-56532939 chr5:56542127-56542311 chr5:56532940-56533316 49;133 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 5;651 N cassette CUFF.447 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 23;120 N coord_cassette CUFF.418 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56517202;chr5:56517224-56526672 chr5:56509901-56510020;chr5:56517203-56517223 3;22 N alternative_last_exon chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 15;69 N intron_retention CUFF.442 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 7;3 N intron_retention chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 8;308 K alternative_acceptor CUFF.418,CUFF.427 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 34;39 N alternative_acceptor CUFF.418 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 22;75 K cassette CUFF.419 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 30;32 N jcn_only_AA CUFF.432 chr5 + chr5:131658049-131662969 chr5:131658049-131660153 chr5:131660154-131662969 chr5:131662969-131662970 9;7 N jcn_only_AA CUFF.407 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 10;49 N alternative_acceptor CUFF.406 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 3;27 K cassette CUFF.419 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 48;53 N alternative_acceptor chr5 + chr5:54456225-54456879 chr5:54456225-54456821 chr5:54456822-54456879 chr5:54456879-54456880 23;11 N alternative_acceptor CUFF.419 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 72;5 K intron_retention CUFF.447 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 47;41 N alternative_acceptor CUFF.411 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 15;0 K coord_cassette CUFF.447 chr5 - chr5:149782876-149785821 chr5:149782876-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 26;39 N intron_retention CUFF.438 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 4;21 N jcn_only_AD CUFF.419 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 72;6 K cassette CUFF.439 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 113;37 N alternative_acceptor CUFF.409,CUFF.438 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 42;10 K jcn_only_AA CUFF.372 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 12;7 N cassette CUFF.373 chr4 - chr4:83819216-83821229;chr4:83816928-83821229 chr4:83816928-83820865,chr4:83819216-83820865;chr4:83820891-83821229 chr4:83820866-83820890 32;783 N cassette CUFF.328 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 2;7 K jcn_only_AA CUFF.381 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 69;149 N jcn_only_AA chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130829789-130849722 chr4:130849722-130849723 6;23 N intron_retention chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 37;81 K jcn_only_AD CUFF.348,CUFF.366 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 14;3 N alternative_donor CUFF.382 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 82;0 N jcn_only_AA chr4 + chr4:120449945-120471533 chr4:120449945-120464907 9;22 N coord_cassette CUFF.334 chr4 - chr4:3945100-3954837 chr4:3945100-3948495;chr4:3948645-3949468;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948496-3948644;chr4:3949469-3949734;chr4:3949817-3949947 16;27 K cassette CUFF.335 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 7;35 N alternative_acceptor CUFF.382 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 87;0 K cassette CUFF.392 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 15;71 K intron_retention CUFF.334 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 14;20 K alternative_acceptor CUFF.377 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 2;32 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 32;27 K alternative_first_exon CUFF.335,CUFF.377 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202282 chr4:6196218-6196384 22;14 K cassette CUFF.349 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 3;24 N jcn_only_AD chr4 - chr4:6537105-6565286 chr4:6537105-6557260 6;10 N alternative_donor CUFF.339 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 8;0 K alternative_acceptor CUFF.332 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 5;137 N jcn_only_AD CUFF.339 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 8;46 N alternative_donor CUFF.336 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 47;587 K jcn_only_AA CUFF.387 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 5;4 N coord_cassette CUFF.377 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 6;44 K cassette CUFF.334 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 19;43 K alternative_first_exon CUFF.395 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131199-186131409 1;40 K cassette CUFF.328 chr4 + chr4:647109-647640 chr4:647109-647225;chr4:647497-647640 chr4:647226-647496 28;18 N jcn_only_AD CUFF.377 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 137;6 N intron_retention chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 14;11 K alternative_first_exon CUFF.368 chr4 - chr4:77987559-77996251;chr4:77987559-77996624 chr4:77987559-77995942 chr4:77996625-77997233 chr4:77995943-77996155 73;15 K alternative_first_exon CUFF.354 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502915 chr4:56502248-56502541 23;148 K cassette CUFF.345 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 137;18 N jcn_only_AA CUFF.334 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 148;26 K alternative_acceptor CUFF.329 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 37;2 K jcn_only_AD CUFF.395 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 8;37 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 47;112 K alternative_last_exon CUFF.365 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464357-74464435 chr4:74469788-74470304 3;125 K jcn_only_AA CUFF.377 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 2;64 N cassette CUFF.373 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83821229,chr4:83819216-83820865 chr4:83819142-83819215 7;612 N alternative_acceptor CUFF.377 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 117;3 N jcn_only_AA CUFF.377 chr4 - chr4:99405593-99407888;chr4:99403327-99407888 chr4:99405750-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 132;13 K jcn_only_AA CUFF.349 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 19;41 N jcn_only_AD chr4 + chr4:120449945-120471533 chr4:120465001-120471533 9;18 K intron_retention CUFF.332 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 97;151 N jcn_only_AA CUFF.395 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 32;28 N alternative_donor chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 3;18 N alternative_donor CUFF.377 chr4 - chr4:99403327-99407888;chr4:99403327-99405535 chr4:99403327-99405549 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 119;1 K intron_retention chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 98;39 K intron_retention CUFF.332 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 89;28 K intron_retention CUFF.349 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 70;9 N jcn_only_AD CUFF.336 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 47;1089 N alternative_donor CUFF.395 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 35;0 N cassette CUFF.336 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 8;142 N jcn_only_AD CUFF.387 chr4 - chr4:152065203-152069073 chr4:152065203-152065371 chr4:152065372-152069073 chr4:152069073-152069074 24;4 N alternative_acceptor CUFF.368 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 7;6 K cassette CUFF.381 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 139;31 K jcn_only_AD CUFF.382 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 27;52 K cassette CUFF.392 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 88;23 N jcn_only_AA CUFF.335 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 39;5 K cassette CUFF.364 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 14;9 K cassette CUFF.355 chr4 + chr4:57308027-57312860 chr4:57308027-57312522;chr4:57312544-57312860 chr4:57312523-57312543 26;13 K cassette CUFF.330 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 19;35 N alternative_donor CUFF.381 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 39;74 N cassette CUFF.354 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 27;77 K intron_retention CUFF.334 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 80;21 N jcn_only_AA CUFF.368 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 7;41 N coord_cassette CUFF.373 chr4 - chr4:83816928-83821229 chr4:83816928-83819141;chr4:83819216-83820865;chr4:83820891-83821229 chr4:83819142-83819215;chr4:83820866-83820890 5;649 K alternative_donor CUFF.336 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 44;45 K alternative_first_exon CUFF.330 chr4 - chr4:1705428-1713856 chr4:1705428-1713600 chr4:1713857-1714354 chr4:1713601-1713731 16;28 K intron_retention CUFF.361 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 2;20 N jcn_only_AD CUFF.387 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 70;3 K jcn_only_AA CUFF.330 chr4 - chr4:1701798-1705322 chr4:1701819-1705322 chr4:1701798-1701818 chr4:1701797-1701798 46;23 K jcn_only_AA CUFF.364 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 9;13 K jcn_only_AA CUFF.384 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 14;28 N cassette CUFF.328 chr4 + chr4:645878-647640 chr4:645878-646284;chr4:646343-647640 chr4:646285-646342 4;9 N cassette CUFF.387 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 2;12 K alternative_first_exon CUFF.334,CUFF.365 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3957051-3957241 chr4:3956687-3956865 97;46 K cassette CUFF.332 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 61;68 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 3;21 N jcn_only_AD CUFF.368 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 chr4:74464357-74481607 chr4:74481607-74481608 3;4 N jcn_only_AD CUFF.395 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 35;7 N alternative_acceptor CUFF.332 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 4;99 K alternative_first_exon CUFF.357 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57775017-57775205 chr4:57775332-57775753 37;17 N jcn_only_AD CUFF.381 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 39;151 N cassette CUFF.387 chr4 - chr4:152100550-152108574 chr4:152100550-152102840;chr4:152102882-152108574 chr4:152102841-152102881 22;43 N jcn_only_AD chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 3;17 K coord_cassette CUFF.370 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 7;24 N alternative_acceptor CUFF.347 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 82;0 N cassette CUFF.368 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 17;28 N alternative_donor CUFF.345 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 6;0 K intron_retention CUFF.332 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 61;178 K alternative_donor CUFF.382 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 27;26 N alternative_donor CUFF.387 chr4 - chr4:152065203-152069073 chr4:152065203-152065371 chr4:152065372-152069073 chr4:152069073-152069074 24;2 N alternative_acceptor CUFF.345 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 6;0 N jcn_only_AD CUFF.341 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 20;6 K intron_retention chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 85;24 N alternative_donor chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 3;1 N alternative_donor CUFF.345 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 10;15 N jcn_only_AA CUFF.377 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 31;114 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 7;6 N alternative_acceptor CUFF.392 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402322-162416632 chr4:162402321-162402322 102;0 K intron_retention CUFF.332 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 67;98 N alternative_acceptor CUFF.377 chr4 - chr4:99405593-99407888;chr4:99405750-99407888 chr4:99403327-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 6;114 K jcn_only_AD CUFF.336 chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 44;90 N alternative_acceptor CUFF.377 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 117;3 N jcn_only_AD CUFF.335 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 39;4 K alternative_acceptor CUFF.381 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 69;113 N jcn_only_AA CUFF.345 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 36;8 K cassette CUFF.334 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 11;92 N jcn_only_AD CUFF.345 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 10;3 N jcn_only_AA CUFF.382 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 87;5 K coord_cassette CUFF.334 chr4 - chr4:3945100-3949816 chr4:3945100-3948495;chr4:3948645-3949468;chr4:3949735-3949816 chr4:3948496-3948644;chr4:3949469-3949734 19;46 N jcn_only_AA CUFF.328 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 4;16 N alternative_acceptor chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130829789-130849722 chr4:130849722-130849723 6;0 K alternative_last_exon CUFF.348 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195200-36195269 chr4:36210995-36211036 2;5 N jcn_only_AD CUFF.395 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 3;53 N alternative_donor CUFF.339 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 62;0 N jcn_only_AD CUFF.345 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525801-20526795 chr4:20525800-20525801 6;3 K intron_retention CUFF.332 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 49;95 K alternative_last_exon CUFF.389 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143618-153143911 17;26 K intron_retention CUFF.377 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 114;8 N cassette CUFF.381 chr4 + chr4:120384135-120414487 chr4:120384135-120409799;chr4:120409873-120414487 chr4:120409800-120409872 7;92 N cassette CUFF.328 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 23;26 N jcn_only_AD CUFF.339 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 62;3 K alternative_last_exon CUFF.342 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932853 3;6 K intron_retention CUFF.355 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 3;82 N alternative_acceptor CUFF.328 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 4;8 N jcn_only_AA CUFF.345 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 6;4 N jcn_only_AA chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 37;13 K alternative_first_exon CUFF.366,CUFF.368 chr4 - chr4:77979789-77985865;chr4:77979789-77996624 chr4:77979789-77987401 chr4:77996625-77997233 chr4:77987402-77987558 64;54 N jcn_only_AD CUFF.387 chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 70;3 K cassette CUFF.370 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 39;17 N cassette CUFF.328 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661731-663834 chr4:661645-661730 23;46 N alternative_donor CUFF.387 chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 3;0 N jcn_only_AA CUFF.377 chr4 - chr4:99405750-99407888;chr4:99403327-99407888 chr4:99405593-99407888 chr4:99403327-99405592;chr4:99405593-99405749 chr4:99403326-99403327;chr4:99405592-99405593 127;18 N jcn_only_AA CUFF.381 chr4 + chr4:120434126-120449894 chr4:120434126-120440643 16;18 N jcn_only_AA chr4 - chr4:69057243-69078079 chr4:69071816-69078079 13;17 N alternative_acceptor CUFF.329 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186284539-186290903 chr4:186290903-186290904 3;15 K cassette CUFF.379 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 13;36 N alternative_acceptor chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 37;2 N cassette CUFF.365 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 4;6 N jcn_only_AA CUFF.367,CUFF.384 chr4 + chr4:77192922-77230296 chr4:77192922-77211054 chr4:77211055-77230296 chr4:77230296-77230297 43;4 N alternative_donor CUFF.335 chr4 - chr4:6055876-6058423 chr4:6055876-6056474 chr4:6056475-6058423 chr4:6058423-6058424 39;0 N coord_cassette CUFF.332 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 16;100 N alternative_donor CUFF.328 chr4 + chr4:661731-663834 chr4:661796-663834 chr4:661731-661795 chr4:661730-661731 61;10 K jcn_only_AA CUFF.329 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 37;4 N jcn_only_AA CUFF.345 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 10;2 N intron_retention CUFF.387 chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 4;21 N alternative_donor CUFF.355 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 3;5 K alternative_last_exon CUFF.386 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240596-142241054 chr4:142242479-142242535 7;16 N alternative_donor CUFF.392 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 3;0 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 18;9 K intron_retention CUFF.362 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 10;23 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 6;114 K cassette CUFF.354 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 64;69 K alternative_acceptor CUFF.372 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 12;5 K alternative_donor CUFF.395 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 8;22 N jcn_only_AA CUFF.332 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 4;186 N coord_cassette CUFF.367 chr4 + chr4:77184997-77230296 chr4:77184997-77189812;chr4:77189967-77192720;chr4:77192922-77230296 chr4:77189813-77189966;chr4:77192721-77192921 5;41 K alternative_acceptor CUFF.364 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 9;14 K jcn_only_AA CUFF.332 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 5;207 K intron_retention CUFF.386 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 29;16 N alternative_acceptor CUFF.332 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 2;87 N cassette CUFF.354 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 15;104 N jcn_only_AD CUFF.345 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20255618-20256698 chr4:20255617-20255618 2;8 K coord_cassette CUFF.354 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 64;76 K mutually_exclusive CUFF.354 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 11;20 N jcn_only_AA CUFF.362 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 3;24 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 1089;23 N alternative_donor CUFF.387 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 0;3 N jcn_only_AD CUFF.392 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 6;67 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 28;8 K alternative_acceptor CUFF.330 chr4 - chr4:1701798-1705322 chr4:1701819-1705322 chr4:1701798-1701818 chr4:1701797-1701798 46;11 K intron_retention CUFF.328 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 34;68 K alternative_first_exon CUFF.341 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430291 5;5 N jcn_only_AD chr4 + chr4:120434076-120449894 chr4:120434126-120449894 8;16 K cassette CUFF.366 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 10;6 K alternative_first_exon CUFF.367 chr4 + chr4:77172974-77184856 chr4:77177677-77184856 chr4:77172799-77172973 chr4:77177331-77177676 37;2 N jcn_only_AA CUFF.332 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 2;49 K cassette CUFF.364 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 37;15 K cassette CUFF.395 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 11;55 K alternative_first_exon CUFF.336,CUFF.392 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162680563-162680683 chr4:162585968-162586144 67;25 N jcn_only_AA CUFF.329 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186284539-186290903 chr4:186290903-186290904 3;79 N alternative_donor CUFF.341 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 20;0 N alternative_acceptor CUFF.334 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 148;3 N cassette CUFF.335 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 4;64 N jcn_only_AA CUFF.392 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402322-162416632 chr4:162402321-162402322 102;17 K intron_retention CUFF.332 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 44;244 N intron_retention chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 10;87 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 2;122 K intron_retention CUFF.379 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 55;4 N jcn_only_AA CUFF.387 chr4 - chr4:152065203-152069073 chr4:152065441-152069073 chr4:152065203-152065440 chr4:152065202-152065203 24;4 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 30;114 N alternative_acceptor CUFF.362 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 3;1 N alternative_acceptor CUFF.345 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 10;0 K alternative_first_exon CUFF.340 chr4 + chr4:6911679-6925099;chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910969-6911232 chr4:6912243-6912328 72;7 K cassette CUFF.334 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 72;74 N jcn_only_AD CUFF.382 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 82;3 N jcn_only_AA CUFF.347 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152667-36159172 chr4:36152666-36152667 82;9 N alternative_acceptor CUFF.367,CUFF.384 chr4 + chr4:77192922-77230296 chr4:77192922-77211054 chr4:77211055-77230296 chr4:77230296-77230297 43;0 N alternative_acceptor CUFF.395 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 32;32 K cassette CUFF.354 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 49;143 K coord_cassette CUFF.346 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 20;5 K alternative_first_exon CUFF.374 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419677 chr4:85417646-85418103 55;6 N coord_cassette CUFF.334 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3951174;chr4:3951320-3952865;chr4:3952947-3954837 chr4:3949817-3949947;chr4:3951175-3951319;chr4:3952866-3952946 16;51 K intron_retention CUFF.330 chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 3;29 N alternative_acceptor CUFF.387 chr4 - chr4:152065203-152069073 chr4:152065441-152069073 chr4:152065203-152065440 chr4:152065202-152065203 24;21 N cassette CUFF.334 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 16;29 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 7;33 K alternative_first_exon CUFF.342 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821685-13821895 4;4 N alternative_donor CUFF.368 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 chr4:74464357-74481607 chr4:74481607-74481608 3;4 K coord_cassette CUFF.349 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 15;21 N coord_cassette CUFF.354 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 4;60 K alternative_first_exon CUFF.370 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81104979-81105209 chr4:81106404-81106672 8;33 N jcn_only_AD CUFF.380 chr4 - chr4:83816001-83821229 chr4:83816001-83816844 28;7 K alternative_last_exon CUFF.368 chr4 - chr4:77979789-77996624 chr4:77987559-77996624 chr4:77979660-77979788 chr4:77987316-77987558 27;62 N alternative_donor CUFF.395 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 3;34 N alternative_acceptor CUFF.335 chr4 - chr4:6055876-6058423 chr4:6056531-6058423 chr4:6055876-6056530 chr4:6055875-6055876 39;1 K alternative_first_exon CUFF.336 chr4 - chr4:6382822-6473290,chr4:6382822-6473886,chr4:6382822-6525169,chr4:6382822-6536997;chr4:6382822-6415629 chr4:6382822-6383503 chr4:6415630-6415758 chr4:6383504-6386019 78;37 N intron_retention chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 16;87 N jcn_only_AD CUFF.328 chr4 + chr4:661731-663834 chr4:661796-663834 chr4:661731-661795 chr4:661730-661731 61;16 K cassette CUFF.349 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 9;37 N coord_cassette CUFF.334 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 16;28 K cassette CUFF.339 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 84;22 N alternative_acceptor CUFF.345 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 36;5 K alternative_first_exon CUFF.330,CUFF.380 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133883 chr4:120116866-120116996 10;16 K alternative_acceptor CUFF.387 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 5;2 N alternative_donor CUFF.345 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20255618-20256698 chr4:20255617-20255618 2;3 N alternative_donor CUFF.377 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 115;5 N jcn_only_AD CUFF.377 chr4 - chr4:99403327-99407888;chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549;chr4:99405550-99407888 chr4:99405549-99405550;chr4:99407888-99407889 120;23 N jcn_only_AD CUFF.355 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57302095-57302141 chr4:57302094-57302095 3;10 N alternative_acceptor CUFF.294 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 75;27 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 4;2 N jcn_only_AA CUFF.276 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107574077-107575926 chr3:107567966-107575926 145;13 K jcn_only_AA CUFF.255 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 25;9 N alternative_donor CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995 chr3:125787090-125802718 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 222;5 N alternative_acceptor CUFF.321 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 71;0 N jcn_only_AD CUFF.254,CUFF.315 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 187;3 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141772956 chr3:141724387-141747883 chr3:141724283-141724386 54;4 N jcn_only_AD CUFF.265 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 29;4 K alternative_first_exon CUFF.315 chr3 - chr3:156271571-156272745;chr3:156271571-156271781 chr3:156271571-156272525 chr3:156272746-156272973;chr3:156271782-156272001 chr3:156272526-156272721 59;20 K cassette CUFF.244 chr3 - chr3:33454320-33458249 chr3:33454320-33457497;chr3:33457593-33458249 chr3:33457498-33457592 13;106 N jcn_only_AA CUFF.276 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 34;10 N jcn_only_AA CUFF.231 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 184;10 K alternative_donor CUFF.295 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 23;9 N cassette CUFF.300 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 21;17 N jcn_only_AD CUFF.231 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 118;6 N alternative_acceptor CUFF.276 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 29;5 N intron_retention chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 57;10 N alternative_donor CUFF.280 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 34;6 N intron_retention chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 5;5 N jcn_only_AA chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 11;85 N alternative_donor CUFF.318 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 61;4 K intron_retention CUFF.256 chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 7;14 N jcn_only_AD chr3 + chr3:28283393-28304781 chr3:28295257-28304781 13;6 K alternative_donor CUFF.254,CUFF.277 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 8;11 N intron_retention chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 4;60 N mutually_exclusive CUFF.299 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 7;6 N alternative_first_exon CUFF.300 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911571-132911671 4;26 N jcn_only_AD CUFF.315 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 199;7 N alternative_acceptor CUFF.252 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 111;0 N jcn_only_AA CUFF.276 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 124;117 N alternative_donor CUFF.291,CUFF.299 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 chr3:125006947-125007072;chr3:125032152-125032500 10;0 N jcn_only_AA chr3 - chr3:33612185-33612218;chr3:33605459-33612218 chr3:33602464-33612218 19;5 N alternative_donor chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 chr3:124944378-124951498;chr3:124953144-124953173 12;37 N cassette CUFF.236 chr3 - chr3:27183074-27204191 chr3:27183074-27203951;chr3:27204093-27204191 chr3:27203952-27204092 30;26 N cassette CUFF.299 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 11;50 N mutually_exclusive CUFF.276 chr3 - chr3:107576050-107591814,chr3:107591874-107594976 chr3:107576050-107586157,chr3:107586273-107594976 chr3:107591815-107591873 chr3:107586158-107586272 97;62 K intron_retention CUFF.244 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 38;37 K alternative_last_exon CUFF.289 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 13;14 K alternative_first_exon CUFF.279 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021325-112021561 chr3:112025901-112026045 7;10 N alternative_donor CUFF.237 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 86;2 N jcn_only_AA chr3 - chr3:33592888-33600798 chr3:33600668-33600798 29;15 N alternative_acceptor CUFF.297 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 7;11 N jcn_only_AA CUFF.231 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 178;16 N alternative_donor CUFF.236 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 44;0 N jcn_only_AD chr3 - chr3:33602464-33612218;chr3:33602464-33612181 chr3:33602464-33605455 20;3 N alternative_acceptor CUFF.299 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 37;4 N cassette CUFF.281 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 26;21 N alternative_acceptor CUFF.309 chr3 - chr3:141688983-141692889 chr3:141688984-141692889 chr3:141688983-141688983 chr3:141688982-141688983 chr3:141692890-141693033;chr3:141688915-141688982 1;94 N intron_retention chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 6;5 K cassette CUFF.276 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 132;176 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141747883 chr3:141724387-141772956 chr3:141724283-141724386 12;45 N alternative_donor CUFF.291,CUFF.309 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 54;0 N jcn_only_AD CUFF.237 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 92;6 N mutually_exclusive CUFF.309 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 chr3:141697362-141697524 2;2 K cassette CUFF.300 chr3 + chr3:132948196-133098595 chr3:132948196-133022047;chr3:133022182-133098595 chr3:133022048-133022181 47;8 N jcn_only_AD CUFF.289 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 10;5 K intron_retention CUFF.282 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 33;30 N alternative_acceptor CUFF.231 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 102;0 N jcn_only_AA chr3 - chr3:33638227-33644443 chr3:33644082-33644443 9;88 K alternative_first_exon CUFF.244 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482417 chr3:33481228-33481947 49;11 N cassette CUFF.309 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 chr3:141724283-141724386;chr3:141868025-141868469 11;50 N jcn_only_AD CUFF.291,CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125789043 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 412;4 N alternative_donor CUFF.266 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 55;0 K alternative_first_exon CUFF.236,CUFF.265 chr3 - chr3:71777775-71778224;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71778445;chr3:71803366-71803610 chr3:71803795-71804019 50;21 N jcn_only_AA CUFF.276 chr3 - chr3:107575172-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107574273-107575926 136;22 N alternative_acceptor chr3 + chr3:119196296-119198754;chr3:119196296-119197180 chr3:119196296-119198897 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 48;7 N cassette CUFF.309 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 chr3:141697362-141697524;chr3:141724283-141724390 47;136 N alternative_acceptor CUFF.287 chr3 - chr3:120396877-120400943;chr3:120396839-120400943 chr3:120394711-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 0;163 N jcn_only_AD CUFF.234 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 3;30 N alternative_acceptor CUFF.321 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 54;4 N jcn_only_AD CUFF.254 chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 2;9 K alternative_first_exon CUFF.247,CUFF.315 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156271444-156271570 chr3:156269187-156269395 72;56 N jcn_only_AD CUFF.237 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 91;7 K alternative_first_exon CUFF.263 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 chr3:68055296-68055887 chr3:68299942-68300061 15;24 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 7;36 N alternative_acceptor CUFF.302 chr3 + chr3:133407209-133419725 chr3:133407209-133418748 chr3:133418749-133419725 chr3:133419725-133419726 94;14 N coord_cassette CUFF.321 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186756530-186756661;chr3:186759705-186759754;chr3:186760442-186761098 11;37 N jcn_only_AD CUFF.231 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 16;7 K cassette CUFF.244 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 27;21 N intron_retention chr3 - chr3:125787090-125802771 chr3:125787089-125787090;chr3:125802771-125802772 6;2 K cassette CUFF.272 chr3 - chr3:93646252-93692517 chr3:93646252-93647545;chr3:93647642-93692517 chr3:93647546-93647641 2;17 N mutually_exclusive CUFF.309 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 chr3:141697362-141697524 2;2 N alternative_donor CUFF.276 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 116;3 N jcn_only_AA CUFF.289 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 5;4 N jcn_only_AA CUFF.276 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 234;7 N alternative_donor CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802896 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 156;71 K alternative_last_exon CUFF.300,CUFF.302 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 12;75 K coord_cassette CUFF.281 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 26;7 N alternative_acceptor CUFF.236 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 174;0 N jcn_only_AA chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 10;104 N alternative_acceptor CUFF.276 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 9;19 N intron_retention chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 88;50 N jcn_only_AD chr3 - chr3:33614847-33617660 chr3:33614847-33615964 184;9 K intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 161;7 K cassette CUFF.236 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 3;8 N alternative_donor CUFF.289 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 0;5 N alternative_donor CUFF.321 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 71;0 K jcn_only_AA CUFF.236 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 110;6 N alternative_donor CUFF.302 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407209-133418467 chr3:133407208-133407209 94;0 K alternative_first_exon CUFF.252,CUFF.299 chr3 - chr3:127299007-127306912,chr3:127299007-127309725,chr3:127299007-127310732;chr3:127299007-127313642 chr3:127299007-127309252 chr3:127313643-127313776 chr3:127309253-127309668 64;67 N alternative_donor CUFF.280 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 21;19 N cassette CUFF.243 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 6;76 N alternative_acceptor CUFF.276 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 127;117 K cassette CUFF.313 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 13;29 K alternative_first_exon CUFF.234 chr3 - chr3:25657078-25659908;chr3:25657078-25660144 chr3:25657078-25657271 chr3:25660145-25660340 chr3:25657272-25657506 18;26 N jcn_only_AD CUFF.289 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 10;5 N alternative_acceptor chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 10;82 N jcn_only_AD CUFF.254 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 25;15 N jcn_only_AA chr3 - chr3:27394411-27410715 chr3:27409054-27410715 16;3 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 144;80 N jcn_only_AA CUFF.276 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 34;41 N jcn_only_AD CUFF.280 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 24;23 K cassette CUFF.300 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 16;65 N jcn_only_AA chr3 - chr3:33614847-33617660 chr3:33615989-33617660 184;10 N jcn_only_AA CUFF.231 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 187;7 N jcn_only_AD CUFF.321 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 71;7 N alternative_acceptor CUFF.231 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 18;84 N intron_retention chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 18;11 N jcn_only_AD CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125802718 chr3:125787090-125791995 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 414;2 N jcn_only_AD CUFF.300 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 69;4 N jcn_only_AD CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802896 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 269;147 N cassette CUFF.294 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 69;249 K intron_retention CUFF.256 chr3 + chr3:51747327-51747979 chr3:51747326-51747327;chr3:51747979-51747980 549;6 N alternative_donor CUFF.236,CUFF.299 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 43;1 K jcn_only_AD CUFF.279 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 8;16 K alternative_last_exon CUFF.297 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126142168-126142219 chr3:126139473-126139701 11;25 N jcn_only_AD CUFF.302 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407209-133418467 chr3:133407208-133407209 94;2 N cassette CUFF.262 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 39;64 K intron_retention CUFF.247 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 23;14 N jcn_only_AA CUFF.276 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 21;22 N alternative_donor CUFF.291 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 52;2 K cassette CUFF.254 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 38;27 N jcn_only_AD CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125797816 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 330;87 N jcn_only_AD chr3 - chr3:141724387-141747883;chr3:141724387-141772956 chr3:141724387-141809633 chr3:141724283-141724386 49;9 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 13;17 K alternative_first_exon CUFF.297 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126151912-126152047 chr3:126152142-126152317 15;10 N alternative_donor CUFF.277 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 chr3:124996570-124996653;chr3:125042232-125042288 11;1 K jcn_only_AD CUFF.280 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 12;14 N alternative_donor CUFF.234 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 3;22 N mutually_exclusive CUFF.294 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 4;5 N alternative_acceptor CUFF.287 chr3 - chr3:120394711-120400943;chr3:120396877-120400943 chr3:120396839-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 163;0 K intron_retention CUFF.311 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 11;24 K intron_retention CUFF.280 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 12;9 N alternative_donor CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125802718 chr3:125787090-125791995 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 227;0 K cassette CUFF.244 chr3 - chr3:33437773-33438536 chr3:33437773-33438236;chr3:33438371-33438536 chr3:33438237-33438370 13;42 N jcn_only_AD CUFF.236 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 49;12 K intron_retention CUFF.255 chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 9;11 K alternative_first_exon CUFF.282 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119499331-119501147 chr3:119501487-119501699 12;20 N coord_cassette CUFF.236 chr3 - chr3:27183074-27204191 chr3:27183074-27184935;chr3:27184966-27203951;chr3:27204093-27204191 chr3:27184936-27184965;chr3:27203952-27204092 30;18 N alternative_acceptor chr3 + chr3:28357915-28358243;chr3:28357915-28360222 chr3:28357915-28360999 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 4;85 N jcn_only_AD CUFF.291 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 96;2 N jcn_only_AA CUFF.252 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 111;6 N cassette CUFF.254 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 15;26 N alternative_acceptor CUFF.276 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 244;0 N jcn_only_AD CUFF.291,CUFF.299 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 chr3:125006947-125007072;chr3:125032152-125032500 10;22 N coord_cassette CUFF.256 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 6;69 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 chr3:141712380-141712427;chr3:141713862-141713983 144;61 N cassette CUFF.276 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 21;262 N cassette CUFF.309 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 chr3:141697362-141697524 16;165 N cassette CUFF.252 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 35;4 N alternative_donor CUFF.262 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 23;19 K alternative_first_exon CUFF.266 chr3 - chr3:73453547-73482789,chr3:73453547-73610601,chr3:73453547-73618301;chr3:73453547-73605850 chr3:73453547-73523605 chr3:73605851-73606171 chr3:73523606-73523850 26;15 K intron_retention chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 chr3:124944378-124951498;chr3:124951953-124952783 19;44 K cassette CUFF.276 chr3 - chr3:107576050-107586157 chr3:107576050-107585498;chr3:107585601-107586157 chr3:107585499-107585600 131;35 N alternative_acceptor CUFF.262 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 20;47 K cassette CUFF.316 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 chr3:165503933-165504099;chr3:165555102-165555260 82;24 N cassette CUFF.309 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 chr3:141724283-141724386;chr3:141820577-141820683 3;57 N jcn_only_AA chr3 - chr3:33673864-33686248 chr3:33673867-33686248 255;6 K alternative_first_exon CUFF.315 chr3 - chr3:156271571-156272745;chr3:156271571-156272525 chr3:156271571-156271781 chr3:156272746-156272973;chr3:156272526-156272721 chr3:156271782-156272001 50;29 K jcn_only_AD CUFF.254,CUFF.277 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475667-108475905 chr3:108475905-108475906 8;12 N jcn_only_AA chr3 - chr3:124996654-125042231 chr3:125032501-125042231 chr3:125042232-125042288 11;2 N jcn_only_AD CUFF.243 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 62;6 N alternative_donor CUFF.309 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 chr3:141820577-141820683;chr3:141868025-141868469 118;0 N jcn_only_AD CUFF.236,CUFF.316 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 chr3:165490692-165491294;chr3:165503933-165504099 101;5 N jcn_only_AD chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 10;11 K intron_retention CUFF.256 chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 9;39 N alternative_donor CUFF.294 chr3 - chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802771 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 225;2 N jcn_only_AA CUFF.276 chr3 - chr3:107574273-107575926;chr3:107574077-107575926;chr3:107567966-107575926 chr3:107575172-107575926 146;12 N jcn_only_AA CUFF.276 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 47;28 N jcn_only_AD chr3 - chr3:33602464-33612218;chr3:33602464-33605455 chr3:33602464-33612181 9;15 N jcn_only_AA CUFF.234 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 8;7 N jcn_only_AD CUFF.276 chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 36;13 K cassette CUFF.317 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 48;4 K intron_retention CUFF.256 chr3 + chr3:51747327-51749077 chr3:51747326-51747327;chr3:51749077-51749078 18;12 K alternative_acceptor CUFF.305 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 43;11 N alternative_donor CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125797816 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 223;4 N jcn_only_AD CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995 chr3:125787090-125802718 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 391;25 N jcn_only_AA CUFF.300 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 30;4 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 7;57 N alternative_acceptor CUFF.276 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 24;3 N jcn_only_AD CUFF.315 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 15;25 N cassette CUFF.297 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 7;36 N jcn_only_AD CUFF.252 chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 73;29 N alternative_acceptor CUFF.287 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 2;32 N alternative_donor CUFF.254 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 25;3 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 22;86 K alternative_last_exon CUFF.277 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474484-108474752 10;7 N alternative_donor CUFF.300 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 69;0 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 152;73 N alternative_donor CUFF.252 chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47020964-47023421 chr3:47023421-47023422 73;3 K jcn_only_AA CUFF.325 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 18;14 K alternative_last_exon CUFF.271 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501809 60;10 K alternative_donor CUFF.280 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 12;11 N alternative_acceptor CUFF.291 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 chr3:125042153-125042288;chr3:125032152-125032500 92;0 K intron_retention CUFF.252 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 48;7 N jcn_only_AD chr3 - chr3:27394411-27410521;chr3:27394411-27409013 chr3:27394411-27410715 6;16 K intron_retention chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 145;9 N jcn_only_AA CUFF.276 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 70;6 K cassette CUFF.256 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 18;215 K intron_retention CUFF.252 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 184;11 N jcn_only_AA CUFF.276 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 32;11 N jcn_only_AA chr3 + chr3:119196296-119198754;chr3:119196296-119197180 chr3:119196296-119198897 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 18;7 K intron_retention CUFF.321 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 71;11 N alternative_donor CUFF.315 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 185;4 K cassette CUFF.262 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 17;42 N coord_cassette CUFF.287 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 3;42 K intron_retention CUFF.247 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 34;8 N cassette CUFF.295 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 3;22 N alternative_donor chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 7;9 K alternative_first_exon CUFF.273 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634454-97634580 chr3:97642964-97643255 8;38 K alternative_acceptor CUFF.325 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 18;7 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 8;182 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 34;111 N jcn_only_AA CUFF.321 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 71;9 K alternative_first_exon CUFF.294,CUFF.315 chr3 - chr3:156271571-156272525;chr3:156271571-156271781 chr3:156271571-156272745 chr3:156272526-156272721;chr3:156271782-156272001 chr3:156272746-156272973 49;30 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 8;111 N alternative_acceptor CUFF.234 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 8;3 K alternative_first_exon CUFF.265 chr3 - chr3:71777775-71778224;chr3:71777775-71803794 chr3:71777775-71803365 chr3:71778225-71778445;chr3:71803795-71804019 chr3:71803366-71803610 60;11 K intron_retention CUFF.247 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 24;9 N alternative_donor CUFF.289 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 5;0 K alternative_first_exon CUFF.250,CUFF.296 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730713 chr3:45729868-45730374 9;43 K alternative_acceptor CUFF.244 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 4;100 K intron_retention CUFF.244 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 51;12 N alternative_acceptor CUFF.279,CUFF.280 chr3 + chr3:119196296-119198897;chr3:119196296-119198754 chr3:119196296-119197180 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 14;41 N coord_cassette CUFF.287 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 3;36 N jcn_only_AD CUFF.287,CUFF.315 chr3 - chr3:120394711-120400943 chr3:120394711-120396750 chr3:120396751-120400943 chr3:120400943-120400944 163;15 N jcn_only_AD chr3 - chr3:27394411-27410521;chr3:27394411-27410715 chr3:27394411-27409013 19;4 N alternative_donor CUFF.243 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 62;1 N alternative_acceptor CUFF.309 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 chr3:141712380-141712427;chr3:141697362-141697524 160;1 K alternative_first_exon CUFF.289 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122785909-122786053 chr3:122786102-122786422 2;35 N cassette CUFF.281 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 10;4 K intron_retention CUFF.273 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 3;14 K alternative_first_exon CUFF.256 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741086-51741183 chr3:51741364-51741670 8;45 N jcn_only_AD chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802935 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 272;145 N jcn_only_AA CUFF.287 chr3 - chr3:120396877-120400943;chr3:120396839-120400943 chr3:120394711-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 9;163 K intron_retention CUFF.266 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 7;55 N cassette CUFF.299 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 10;49 N alternative_acceptor CUFF.237 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 86;3 N alternative_donor CUFF.315 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 199;10 N alternative_acceptor CUFF.299 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 59;0 N jcn_only_AA CUFF.276 chr3 - chr3:107574273-107575926;chr3:107575172-107575926;chr3:107567966-107575926 chr3:107574077-107575926 47;111 N jcn_only_AA chr3 - chr3:33602464-33612218;chr3:33605459-33612218 chr3:33612185-33612218 8;16 N jcn_only_AA CUFF.291 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 chr3:125042153-125042288;chr3:125032152-125032500 92;2 N alternative_acceptor CUFF.289 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 10;11 N cassette CUFF.254 chr3 - chr3:49348171-49362134 chr3:49348171-49348946;chr3:49349088-49362134 chr3:49348947-49349087 4;60 N alternative_donor chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 41;4 N jcn_only_AD CUFF.318 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 61;15 K intron_retention CUFF.244 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 47;26 N jcn_only_AA CUFF.287 chr3 - chr3:120394711-120400943;chr3:120396877-120400943 chr3:120396839-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 168;4 N alternative_first_exon CUFF.280 chr3 + chr3:119196296-119198754 chr3:119197322-119198754 chr3:119196160-119196295 chr3:119196881-119197321 6;900 N cassette CUFF.295 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 2;32 N jcn_only_AD CUFF.315 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 185;5 N alternative_donor CUFF.276 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 114;5 N jcn_only_AA CUFF.262 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 82;5 N jcn_only_AA CUFF.289 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 10;21 N jcn_only_AD CUFF.280 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 41;6 N jcn_only_AD CUFF.276 chr3 - chr3:107574077-107575926;chr3:107574077-107574854 chr3:107574077-107574159 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 121;24 N jcn_only_AA chr3 - chr3:33602464-33612218;chr3:33612185-33612218 chr3:33605459-33612218 21;3 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 209;16 N alternative_donor CUFF.289 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 5;0 N cassette CUFF.294 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 7;343 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 7;182 N alternative_donor CUFF.252 chr3 - chr3:46982556-47007473;chr3:46982556-47017842 chr3:46982556-47018126 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 139;126 N alternative_donor chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802935 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 82;145 N jcn_only_AD chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 4;75 N jcn_only_AD CUFF.276 chr3 - chr3:107574077-107575926;chr3:107574077-107574159 chr3:107574077-107574854 chr3:107574160-107574854;chr3:107574855-107575926 chr3:107574854-107574855;chr3:107575926-107575927 135;10 N alternative_acceptor CUFF.262 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 64;3 N coord_cassette CUFF.262 chr3 - chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110;chr3:57570192-57582800 chr3:57569625-57569734;chr3:57570111-57570191 21;35 N alternative_donor CUFF.237 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 87;1 K alternative_donor CUFF.279 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 8;8 N cassette CUFF.276 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 122;170 N jcn_only_AA CUFF.237 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 87;9 N alternative_acceptor CUFF.276 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 28;6 N jcn_only_AA CUFF.262 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 41;47 N jcn_only_AA chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 30;7 N cassette CUFF.287 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 66;55 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 chr3:141697362-141697524;chr3:141713862-141713983 25;72 N intron_retention chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 37;146 N mutually_exclusive CUFF.262 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 13;15 N jcn_only_AA CUFF.309 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 chr3:141712380-141712427;chr3:141697362-141697524 160;18 N alternative_acceptor CUFF.316 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 chr3:165547305-165548829;chr3:165503933-165504099 19;0 K intron_retention CUFF.305 chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 20;17 N jcn_only_AA CUFF.299 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 37;4 K jcn_only_AA CUFF.326 chr3 - chr3:196214450-196229743 chr3:196215555-196229743 6;1 N cassette CUFF.321 chr3 + chr3:186739793-186756529 chr3:186739793-186756179;chr3:186756280-186756529 chr3:186756180-186756279 6;138 K alternative_first_exon CUFF.247 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38061679-38061843 chr3:38060461-38060589 15;11 N alternative_first_exon chr3 - chr3:49349088-49355741;chr3:49349088-49362134 chr3:49349088-49351303 chr3:49362135-49362198 chr3:49351304-49351564 12;75 N jcn_only_AA CUFF.276 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 124;117 N jcn_only_AD CUFF.291,CUFF.309 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 94;4 N jcn_only_AD CUFF.236,CUFF.294 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 110;56 K cassette CUFF.313 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 27;21 N jcn_only_AD chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 chr3:124944378-124951498;chr3:124953144-124953173 12;19 N alternative_donor CUFF.237 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 3;85 K intron_retention CUFF.252 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 40;28 K alternative_first_exon CUFF.321 chr3 + chr3:186660216-186681572,chr3:186649184-186681572;chr3:186648624-186681572 chr3:186648928-186681572 chr3:186648274-186648623 chr3:186648850-186648927 88;53 N jcn_only_AD CUFF.266 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 55;7 K alternative_first_exon CUFF.236 chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27257966 2;12 K cassette CUFF.297 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 41;20 K intron_retention CUFF.289 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 8;3 K intron_retention CUFF.247 chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 31;5 K alternative_acceptor CUFF.309 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 chr3:141697362-141697524;chr3:141692890-141693033 94;44 K intron_retention CUFF.247 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 15;14 K cassette CUFF.276 chr3 - chr3:107595034-107596159 chr3:107595034-107595281;chr3:107595379-107596159 chr3:107595282-107595378 102;77 K cassette CUFF.305 chr3 - chr3:133894884-133901845 chr3:133894884-133896784;chr3:133896918-133901845 chr3:133896785-133896917 96;33 N jcn_only_AD chr3 - chr3:33602464-33612181;chr3:33602464-33605455 chr3:33602464-33612218 18;5 N cassette CUFF.254 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 6;31 N jcn_only_AD chr3 - chr3:27233734-27236027;chr3:27233734-27235551 chr3:27233734-27243000 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 19;43 K coord_cassette CUFF.276 chr3 - chr3:107595034-107596748 chr3:107595034-107595281;chr3:107595379-107596159;chr3:107596345-107596748 chr3:107595282-107595378;chr3:107596160-107596344 132;88 K alternative_first_exon CUFF.296 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073222 4;46 N alternative_acceptor CUFF.280 chr3 + chr3:119196296-119198897;chr3:119196296-119197180 chr3:119196296-119198754 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 48;7 N cassette CUFF.321 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 24;66 N coord_cassette CUFF.309 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 chr3:141724283-141724386;chr3:141868025-141868469 11;65 N jcn_only_AA CUFF.297 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 35;3 N jcn_only_AA CUFF.302 chr3 + chr3:133407209-133419725 chr3:133407209-133418748 chr3:133418749-133419725 chr3:133419725-133419726 94;23 N cassette CUFF.236 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 29;14 N alternative_donor CUFF.231 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 118;12 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 5;4 N jcn_only_AA CUFF.237 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 94;2 K alternative_first_exon CUFF.265 chr3 - chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71803795-71804019;chr3:71803366-71803610 chr3:71778225-71778445 32;39 N jcn_only_AA chr3 - chr3:33617768-33623312 chr3:33618757-33623312 18;5 N alternative_donor CUFF.280 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 25;15 N cassette CUFF.255 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 3;43 N alternative_donor CUFF.254 chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49355742-49362134 chr3:49362134-49362135 2;2 K jcn_only_AA CUFF.305 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 43;18 K alternative_acceptor CUFF.255 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 25;9 K intron_retention CUFF.255 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 25;15 N cassette CUFF.287 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 19;110 N jcn_only_AA CUFF.276 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 9;13 N jcn_only_AA CUFF.316 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 chr3:165547305-165548829;chr3:165503933-165504099 19;4 N alternative_acceptor CUFF.262 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 50;17 N jcn_only_AD chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 6;92 N jcn_only_AD CUFF.252 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 145;111 N jcn_only_AA CUFF.255 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 5;34 K intron_retention CUFF.252 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 277;19 N coord_cassette CUFF.237 chr3 + chr3:28333446-28357823 chr3:28333446-28334226;chr3:28334456-28335924;chr3:28336018-28357823 chr3:28334227-28334455;chr3:28335925-28336017 3;124 N alternative_last_exon CUFF.287 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120351994-120352175 chr3:120352178-120352437 57;9 N jcn_only_AD CUFF.276 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 36;14 N alternative_donor CUFF.291,CUFF.294 chr3 - chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125789043 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 227;0 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 4;22 K intron_retention CUFF.280 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 20;6 K jcn_only_AD CUFF.248 chr3 + chr3:38315867-38316479 chr3:38316250-38316479 11;2 K alternative_first_exon CUFF.247 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071331 chr3:38065647-38066316 14;17 N jcn_only_AA CUFF.299 chr3 - chr3:127299007-127309252 chr3:127307004-127309252 chr3:127299007-127307003 chr3:127299006-127299007 59;14 N jcn_only_AA CUFF.254 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 22;100 N coord_cassette CUFF.309 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 chr3:141868025-141868469 18;60 N coord_cassette CUFF.276 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814 chr3:107585499-107585600;chr3:107586158-107586272 122;37 N jcn_only_AA CUFF.231 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 33;161 K intron_retention CUFF.244 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 13;26 N jcn_only_AA CUFF.294 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741776-125743748 chr3:125741775-125741776 75;57 N jcn_only_AD chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 220;4 N alternative_acceptor CUFF.276 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 11;23 N intron_retention CUFF.262 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 15;94 N alternative_donor CUFF.236,CUFF.316 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 chr3:165490692-165491294;chr3:165503933-165504099 101;2 N alternative_acceptor CUFF.289 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 5;0 N jcn_only_AA CUFF.297 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 10;28 N coord_cassette CUFF.276 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814 chr3:107585499-107585600;chr3:107586158-107586424 122;41 K intron_retention chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 75;13 N alternative_donor CUFF.315 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 15;20 K jcn_only_AD CUFF.295 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635563-125635660 chr3:125635562-125635563 23;10 K intron_retention CUFF.230 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 65;3 N alternative_donor CUFF.252 chr3 - chr3:46982556-47017842;chr3:46982556-47018126 chr3:46982556-47007473 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 260;5 N jcn_only_AA chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 17;6 N coord_cassette CUFF.299 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 3;41 N jcn_only_AD chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 41;18 N jcn_only_AD CUFF.252 chr3 - chr3:46982556-47017842;chr3:46982556-47018126 chr3:46982556-47007473 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 237;19 N jcn_only_AD CUFF.262 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 23;15 N alternative_acceptor CUFF.297 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 15;3 N alternative_acceptor chr3 + chr3:126135352-126137300;chr3:126135352-126135614 chr3:126135352-126137297 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 14;4 N jcn_only_AA CUFF.262 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 52;36 N jcn_only_AA CUFF.280 chr3 + chr3:119196296-119198897;chr3:119196296-119197180 chr3:119196296-119198754 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 18;7 N jcn_only_AD CUFF.309 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 chr3:141820577-141820683;chr3:141868025-141868469 118;8 N intron_retention chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 chr3:124944378-124951498;chr3:124953144-124953173 12;29 K cassette CUFF.291 chr3 - chr3:125050083-125093945 chr3:125050083-125057665;chr3:125057756-125093945 chr3:125057666-125057755 chr3:125050002-125050082;chr3:125093946-125094209 11;30 N jcn_only_AA CUFF.287 chr3 - chr3:120394711-120400943;chr3:120396839-120400943 chr3:120396877-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 166;5 K jcn_only_AD CUFF.295 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 30;12 N jcn_only_AA CUFF.236 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 174;4 K alternative_last_exon CUFF.316 chr3 - chr3:165495584-165503932;chr3:165491295-165503932 chr3:165496527-165503932 chr3:165490649-165491294 chr3:165496077-165496526 chr3:165503933-165504099 104;35 N alternative_donor CUFF.236,CUFF.294 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 110;18 N jcn_only_AA CUFF.321 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 54;2 N jcn_only_AD CUFF.289 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 10;5 N jcn_only_AD CUFF.277 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 chr3:124996570-124996653;chr3:125042232-125042288 11;28 N alternative_donor chr3 - chr3:27233734-27236027;chr3:27233734-27235551 chr3:27233734-27243000 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 1;43 N jcn_only_AD chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 173;51 K jcn_only_AA CUFF.309 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 chr3:141697362-141697524;chr3:141692890-141693033 94;88 K alternative_last_exon CUFF.279 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049171 11;6 N cassette CUFF.276 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 122;119 K intron_retention CUFF.297 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 14;32 N cassette CUFF.276 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 78;231 N jcn_only_AA CUFF.309 chr3 - chr3:141688983-141692889 chr3:141688984-141692889 chr3:141688983-141688983 chr3:141688982-141688983 chr3:141692890-141693033;chr3:141688915-141688982 1;188 N jcn_only_AD CUFF.280 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 30;18 N alternative_donor CUFF.231 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 16;0 N cassette CUFF.262 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 38;53 N jcn_only_AA CUFF.305 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 7;77 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838352 3;37 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 16;16 N coord_cassette CUFF.265 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 6;98 N jcn_only_AD CUFF.236,CUFF.299 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 55;6 N alternative_acceptor CUFF.300 chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 30;8 N mutually_exclusive CUFF.309 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 chr3:141712380-141712427 2;2 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 4;7 N alternative_donor CUFF.287,CUFF.315 chr3 - chr3:120394711-120400943 chr3:120394711-120396750 chr3:120396751-120400943 chr3:120400943-120400944 163;1 N jcn_only_AA CUFF.279,CUFF.280 chr3 + chr3:119196296-119198897;chr3:119196296-119198754 chr3:119196296-119197180 chr3:119197181-119198754;chr3:119198755-119198897 chr3:119198754-119198755;chr3:119198897-119198898 14;11 K intron_retention CUFF.294 chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 177;49 N alternative_donor chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 10;1 N jcn_only_AD CUFF.254 chr3 - chr3:33617768-33623312 chr3:33617768-33618693 18;8 N alternative_acceptor CUFF.255 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 5;19 N jcn_only_AD chr3 - chr3:27394411-27410715;chr3:27394411-27409013 chr3:27394411-27410521 20;3 N alternative_acceptor CUFF.231 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 95;7 N alternative_donor chr3 - chr3:125032501-125033780;chr3:125032501-125042231 chr3:125032501-125042152 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 chr3:125032152-125032500;chr3:125042232-125042288 2;52 N cassette CUFF.294 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 12;73 N jcn_only_AD CUFF.237 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 13;85 N alternative_acceptor CUFF.237 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 88;1 K coord_cassette CUFF.313 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 27;25 N alternative_acceptor chr3 - chr3:127299007-127309725 chr3:127309436-127309725 chr3:127299007-127309435 chr3:127299006-127299007 17;2 N jcn_only_AD CUFF.294 chr3 - chr3:125787090-125802896;chr3:125787090-125789043;chr3:125787090-125802935;chr3:125787090-125797816;chr3:125787090-125791995;chr3:125787090-125802718 chr3:125787090-125802771 chr3:125789044-125791995;chr3:125791996-125797816;chr3:125797817-125802718;chr3:125802719-125802771;chr3:125802772-125802896;chr3:125802897-125802935 chr3:125791995-125791996;chr3:125797816-125797817;chr3:125802718-125802719;chr3:125802771-125802772;chr3:125802896-125802897;chr3:125802935-125802936 410;6 K intron_retention CUFF.255 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 20;7 N alternative_acceptor CUFF.231 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 91;11 N alternative_acceptor CUFF.276 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 117;127 N jcn_only_AD CUFF.252 chr3 - chr3:46982556-47007473;chr3:46982556-47017842 chr3:46982556-47018126 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 129;126 K jcn_only_AA CUFF.244 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 4;186 N alternative_donor CUFF.252 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47007474-47017842;chr3:47017843-47018126 chr3:47017842-47017843;chr3:47018126-47018127 131;134 N jcn_only_AA CUFF.287 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 2;65 N jcn_only_AD chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 27;22 N alternative_donor CUFF.254,CUFF.315 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 186;3 N cassette CUFF.313 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 5;57 N alternative_acceptor CUFF.287 chr3 - chr3:120394711-120400943;chr3:120396839-120400943 chr3:120396877-120400943 chr3:120394711-120396838;chr3:120396839-120396876 chr3:120394710-120394711;chr3:120396838-120396839 163;0 N alternative_acceptor CUFF.276 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 5;22 N alternative_donor chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 4;78 N alternative_acceptor CUFF.276 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 25;2 K cassette CUFF.321 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 464;54 N cassette CUFF.192 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 12;81 N alternative_donor CUFF.227 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 159;33 N intron_retention chr2 - chr2:263369-264781 chr2:263368-263369;chr2:264781-264782 10;3 N alternative_donor CUFF.111 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 14;2 N alternative_donor CUFF.227 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 442;1 K alternative_first_exon CUFF.188 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174136239-174136404 chr2:174074375-174074673 44;20 K alternative_acceptor CUFF.107 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 274;9 N jcn_only_AD CUFF.208 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 53;2 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 47;14 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 7;137 K alternative_acceptor CUFF.135,CUFF.171 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 3;129 N jcn_only_AA CUFF.183 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 3;3 K alternative_first_exon CUFF.221 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476377-237476484 chr2:237478230-237478567 11;18 K intron_retention CUFF.224 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 32;15 N jcn_only_AA CUFF.113,CUFF.217 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 192;12 K alternative_donor CUFF.151 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 20;27 N alternative_donor CUFF.126 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 39;0 N alternative_acceptor chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 3;66 N alternative_acceptor CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134 chr2:4020693-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 51;1 N jcn_only_AA CUFF.223 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 145;6 N jcn_only_AA CUFF.217 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 38;21 N alternative_donor CUFF.148 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 28;0 N intron_retention chr2 - chr2:262787-264781 chr2:262786-262787;chr2:264781-264782 12;2 N alternative_donor CUFF.227 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 4;439 N alternative_donor chr2 - chr2:262787-263210;chr2:262787-264702 chr2:262787-264781 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 10;12 N jcn_only_AA CUFF.109 chr2 + chr2:33477912-33482434 chr2:33477912-33482350 chr2:33482351-33482434 chr2:33482434-33482435 16;138 N alternative_last_exon CUFF.118 chr2 - chr2:11597360-11605897;chr2:11593925-11605897 chr2:11598478-11605897 chr2:11597305-11597359;chr2:11593708-11593924 chr2:11598411-11598477 132;18 K alternative_last_exon CUFF.191 chr2 - chr2:175234743-175243650;chr2:175216454-175243650 chr2:175223265-175243650 chr2:175216347-175216453 chr2:175222901-175223264 13;10 N alternative_acceptor chr2 - chr2:253116-264083 chr2:263373-264083 chr2:253116-263372 chr2:253115-253116 2;24 K alternative_acceptor CUFF.161 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 17;43 K cassette CUFF.180 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 98;89 N alternative_acceptor CUFF.213 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 48;26 N jcn_only_AA CUFF.149 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 15;4 N alternative_acceptor CUFF.171 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 20;0 N alternative_donor CUFF.207 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 26;2 N jcn_only_AA CUFF.156 chr2 - chr2:73228704-73247367 chr2:73228708-73247367 chr2:73228704-73228707 chr2:73228703-73228704 6;174 K jcn_only_AA CUFF.188 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 54;12 N cassette CUFF.156 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 14;29 K alternative_donor CUFF.151,CUFF.163 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 34;13 N alternative_donor CUFF.227 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 55;137 N jcn_only_AD CUFF.214 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 122;9 N jcn_only_AD CUFF.207 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 43;3 N alternative_donor CUFF.148 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 28;0 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 84;26 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 10;24 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 19;1 K intron_retention CUFF.227 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 7;50 N alternative_donor CUFF.214 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 134;12 K alternative_first_exon CUFF.208 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031718-208032062 chr2:208030637-208030989 28;62 N alternative_donor CUFF.143 chr2 + chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568 chr2:38150510-38150511 6;0 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 2;9 N jcn_only_AA CUFF.227 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 439;7 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 20;0 K intron_retention CUFF.192 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 61;7 N jcn_only_AA chr2 - chr2:260703-263210;chr2:262787-263210;chr2:253116-263210 chr2:262751-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 41;28 N alternative_donor chr2 - chr2:262787-264781;chr2:262787-264702 chr2:262787-263210 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 17;5 N jcn_only_AD CUFF.214 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 127;4 K intron_retention CUFF.171 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 5;13 N intron_retention CUFF.110 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 24;35 K intron_retention CUFF.223 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 138;17 N mutually_exclusive CUFF.224 chr2 - chr2:242440212-242447420,chr2:242447551-242447857 chr2:242440212-242440892,chr2:242441124-242447857 chr2:242447421-242447550 chr2:242440893-242441123 22;6 N alternative_donor CUFF.148 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 0;28 N alternative_donor chr2 - chr2:675631-675757;chr2:675631-676573 chr2:675631-677288 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 42;72 K intron_retention CUFF.207 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 94;4 N jcn_only_AD CUFF.148 chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 12;28 N alternative_acceptor chr2 - chr2:260703-263210;chr2:262787-263210;chr2:253116-263210 chr2:262751-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 22;13 N alternative_acceptor chr2 - chr2:675631-676573 chr2:676239-676573 chr2:675631-676238 chr2:675630-675631 4;65 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 20;23 K intron_retention CUFF.213 chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 16;3 K intron_retention CUFF.224 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 110;12 N jcn_only_AD CUFF.113 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 184;12 K cassette CUFF.195 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 14;8 N alternative_donor CUFF.224 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 115;14 K alternative_first_exon CUFF.126,CUFF.147 chr2 - chr2:27676381-27676848 chr2:27676381-27676496 chr2:27676849-27677029 chr2:27676497-27676706 77;21 K cassette CUFF.119 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 4;7 N cassette CUFF.224 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 16;192 N jcn_only_AA CUFF.113 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 144;9 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 2;3 N alternative_donor CUFF.111 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 36;0 N jcn_only_AD CUFF.113 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 42;21 N cassette CUFF.182 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 12;83 N alternative_donor CUFF.180 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 39;5 N jcn_only_AD CUFF.148 chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 35;5 N alternative_donor CUFF.171 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 20;0 N jcn_only_AA chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 27;3 K intron_retention CUFF.224 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 203;80 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 4;15 K intron_retention CUFF.167 chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 8;7 K intron_retention CUFF.214 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 25;20 N cassette CUFF.194 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 4;28 K alternative_last_exon CUFF.148 chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003656 chr2:48906474-48906742 40;45 N alternative_acceptor CUFF.205 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 11;140 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 106;4 K alternative_donor CUFF.151 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 40;7 N intron_retention chr2 - chr2:263373-264781 chr2:263372-263373;chr2:264781-264782 14;2 N cassette CUFF.181 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 3;9 N cassette CUFF.224 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 9;100 N jcn_only_AD CUFF.110 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 76;24 N jcn_only_AA chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 3;2 K alternative_last_exon CUFF.178 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328645 17;12 K coord_cassette CUFF.169 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 2;27 N jcn_only_AA CUFF.105 chr2 - chr2:263763-264781;chr2:262787-264781;chr2:253116-264781;chr2:263373-264781 chr2:263369-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 103;10 K alternative_first_exon CUFF.163 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893682 12;36 N alternative_donor CUFF.128 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31440322-31449393 chr2:31449393-31449394 21;0 N intron_retention chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 23;22 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 1;11 K alternative_first_exon CUFF.105 chr2 - chr2:253116-256206,chr2:253116-260084,chr2:253116-262630,chr2:253116-263210,chr2:253116-263983,chr2:253116-264083;chr2:253116-264781 chr2:253116-264541 chr2:264782-264913 chr2:264542-264664 120;22 N alternative_donor CUFF.135 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505226-33516854 chr2:33505225-33505226 259;0 K intron_retention CUFF.214 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 36;17 N jcn_only_AD chr2 - chr2:260703-263210 chr2:260703-262630 26;2 K alternative_acceptor CUFF.217 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 148;15 N coord_cassette CUFF.227 chr2 + chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522;chr2:242598603-242606059 chr2:242594686-242594758;chr2:242598523-242598602 9;143 K intron_retention CUFF.207 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 71;18 N cassette CUFF.205 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 38;45 N intron_retention CUFF.105 chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 2;3 N jcn_only_AA CUFF.173 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 6;9 N jcn_only_AD CUFF.200 chr2 - chr2:197298183-197458231 chr2:197298183-197357967 chr2:197357968-197458231 chr2:197458231-197458232 20;5 N alternative_donor CUFF.169 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 199;9 N alternative_acceptor CUFF.109 chr2 + chr2:33477912-33482434 chr2:33477912-33482350 chr2:33482351-33482434 chr2:33482434-33482435 16;111 K intron_retention CUFF.173 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 41;10 K intron_retention CUFF.173 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 86;10 K jcn_only_AA CUFF.107 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 274;19 N jcn_only_AD CUFF.227 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 12;137 K alternative_last_exon CUFF.192 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689162-175689246 chr2:175701839-175702064 127;78 N alternative_donor CUFF.207 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 7;21 N alternative_acceptor CUFF.173 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 71;1 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 19;110 N alternative_donor CUFF.105 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 196;44 N coord_cassette CUFF.214 chr2 + chr2:220094623-220097211 chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211 chr2:220096650-220096762;chr2:220096982-220097084 29;65 N jcn_only_AD CUFF.156,CUFF.173 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 24;19 K intron_retention CUFF.147 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 54;102 N jcn_only_AA CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134 chr2:4020693-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 156;22 N intron_retention CUFF.194 chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 6;13 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 82;28 N alternative_donor CUFF.214 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 28;118 K intron_retention CUFF.227 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 190;9 K intron_retention CUFF.212 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 21;18 N jcn_only_AA CUFF.227 chr2 + chr2:242590751-242591298;chr2:242590751-242592926 chr2:242590751-242592721 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 382;77 N alternative_donor CUFF.113 chr2 + chr2:3453249-3461391;chr2:3461001-3461391 chr2:3447663-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 3;144 K coord_cassette CUFF.105 chr2 - chr2:234273-247537 chr2:234273-242797;chr2:242872-243502;chr2:243563-247537 chr2:242798-242871;chr2:243503-243562 154;21 N alternative_acceptor CUFF.149 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 15;92 K intron_retention CUFF.149 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 106;8 K alternative_first_exon CUFF.205 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204399834-204400152 chr2:204398088-204398248 87;114 K intron_retention CUFF.227 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 124;19 N intron_retention CUFF.224 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 3;11 K cassette CUFF.201 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 9;54 K alternative_first_exon CUFF.199 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191307217-191307731 chr2:191334168-191334375 33;63 N alternative_donor CUFF.135 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 156;8 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 14;14 N alternative_donor CUFF.216 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 1;6 N coord_cassette CUFF.118 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 61;50 N cassette CUFF.214 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981 chr2:220096650-220096762 87;82 N alternative_donor CUFF.224 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 124;5 N jcn_only_AD CUFF.207 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 40;5 N alternative_donor CUFF.111 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 0;36 N jcn_only_AA CUFF.173 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 71;5 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 13;12 K coord_cassette CUFF.115 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 3;99 N mutually_exclusive CUFF.105 chr2 - chr2:234273-243502,chr2:243563-247537 chr2:234273-242797,chr2:242872-247537 chr2:243503-243562 chr2:242798-242871 13;26 N jcn_only_AD CUFF.149 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 210;14 K alternative_first_exon CUFF.111 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320037-1320147 chr2:1357409-1357636 18;30 N alternative_acceptor CUFF.113 chr2 + chr2:3447663-3461391 chr2:3447663-3460920 chr2:3460921-3461391 chr2:3461391-3461392 144;2 N coord_cassette CUFF.180 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 3;3 K intron_retention CUFF.218 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 20;23 N coord_cassette CUFF.111 chr2 + chr2:1168870-1215567 chr2:1168870-1204788;chr2:1204917-1206142;chr2:1206366-1215567 chr2:1204789-1204916;chr2:1206143-1206365 8;38 N alternative_donor CUFF.173 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 6;1 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 64;16 N jcn_only_AA CUFF.113 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 195;9 N alternative_donor CUFF.205 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:676574-677288 chr2:677288-677289 5;17 N jcn_only_AA CUFF.115 chr2 - chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4020665-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 138;39 K intron_retention CUFF.126 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 247;15 N jcn_only_AA CUFF.213 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 51;50 N jcn_only_AD CUFF.227 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 446;7 N jcn_only_AD CUFF.135 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 156;16 N alternative_acceptor CUFF.105 chr2 - chr2:263369-264781;chr2:262787-264781;chr2:253116-264781;chr2:263373-264781 chr2:263763-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 77;9 N alternative_donor CUFF.111 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 36;0 K alternative_last_exon CUFF.205 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204259068-204259812 chr2:204306758-204306803 25;46 N alternative_donor CUFF.208 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 45;32 N jcn_only_AA chr2 - chr2:262787-263210;chr2:253116-263210;chr2:262751-263210 chr2:260703-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 43;26 N alternative_donor chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 18;2 N jcn_only_AD CUFF.194 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 46;14 N jcn_only_AD CUFF.227 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 447;7 N cassette CUFF.205 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 52;32 N alternative_donor CUFF.124 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 580;16 N cassette CUFF.227 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 14;185 K intron_retention CUFF.214 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 39;37 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 3;4 N alternative_acceptor CUFF.212 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 6;5 N cassette CUFF.180 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 117;12 K cassette CUFF.121 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 3;36 K alternative_first_exon CUFF.210 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089649 11;48 N jcn_only_AA CUFF.126 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 8;28 K intron_retention CUFF.126 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 46;9 N jcn_only_AD CUFF.169 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 10;6 K intron_retention CUFF.214 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 136;29 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 316;24 N jcn_only_AD CUFF.113 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 2;12 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 10;4 N alternative_donor CUFF.214 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 130;16 K alternative_last_exon CUFF.185 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171300477-171300560 chr2:171268211-171268938 26;45 N jcn_only_AD CUFF.111 chr2 + chr2:1158976-1161233;chr2:1133496-1161233 chr2:1159412-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 40;3 K intron_retention CUFF.126 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 24;13 N alternative_acceptor CUFF.111,CUFF.143 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 26;2 N alternative_acceptor CUFF.227 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 439;0 K cassette CUFF.135 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 15;228 K jcn_only_AA CUFF.161 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 17;82 N intron_retention CUFF.105 chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 10;3 N jcn_only_AD CUFF.207 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 43;2 N jcn_only_AD CUFF.207 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 10;35 N alternative_acceptor CUFF.127 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 28;0 N jcn_only_AD CUFF.205 chr2 - chr2:676239-677288 chr2:676239-676573 chr2:676574-677288 chr2:677288-677289 5;21 K cassette CUFF.179 chr2 + chr2:153497429-153504309 chr2:153497429-153499932;chr2:153500059-153504309 chr2:153499933-153500058 4;2 K jcn_only_AD CUFF.151,CUFF.163 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 41;11 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 14;24 K jcn_only_AA CUFF.162 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 18;22 K cassette CUFF.169 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 49;22 K jcn_only_AA CUFF.160 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 45;56 K cassette CUFF.192 chr2 - chr2:175711686-175742567 chr2:175711686-175740515;chr2:175740594-175742567 chr2:175740516-175740593 10;50 N alternative_donor CUFF.113 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 184;2 N alternative_acceptor CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4020693-4021134 chr2:4009485-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 18;34 N jcn_only_AD CUFF.171 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 245;19 N alternative_acceptor CUFF.115 chr2 - chr2:4009394-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4020665-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 49;3 N jcn_only_AD CUFF.171 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 16;43 K intron_retention CUFF.149 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 21;12 N jcn_only_AD CUFF.227 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 14;439 N alternative_acceptor CUFF.227 chr2 + chr2:242590751-242592721;chr2:242590751-242592926 chr2:242590751-242591298 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 232;17 K intron_retention CUFF.160 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 86;45 N alternative_last_exon CUFF.149 chr2 - chr2:61727030-61749745 chr2:61729446-61749745 chr2:61726848-61727029 chr2:61729281-61729445 6;48 N cassette CUFF.214 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 34;92 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 1;184 N jcn_only_AD chr2 - chr2:46839484-46842075 chr2:46839484-46840832 chr2:46840833-46842075 chr2:46842075-46842076 36;157 N intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 25;2 N alternative_acceptor CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:253116-264781;chr2:263373-264781 chr2:262787-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 80;6 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 15;110 K intron_retention CUFF.161 chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 2;5 K cassette CUFF.135 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 324;47 N alternative_acceptor CUFF.183 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 chr2:169828357-169828560;chr2:169826555-169826725 3;8 N intron_retention CUFF.105 chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 37;7 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 13;7 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 10;1 K cassette CUFF.161 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398469-86400772 chr2:86398331-86398468 2;23 N jcn_only_AD CUFF.124 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 599;46 N jcn_only_AA chr2 - chr2:253116-262630;chr2:260703-262630 chr2:260898-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 38;15 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 7;68 K intron_retention CUFF.214 chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 74;33 N jcn_only_AD CUFF.153,CUFF.173 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 41;2 K cassette CUFF.121 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 4;26 N alternative_acceptor CUFF.110 chr2 - chr2:675631-677288 chr2:676239-677288 chr2:675631-676238 chr2:675630-675631 72;62 N cassette CUFF.217 chr2 + chr2:232026224-232029913 chr2:232026224-232028348;chr2:232028442-232029913 chr2:232028349-232028441 9;21 N alternative_acceptor chr2 - chr2:260898-262630;chr2:253116-262630 chr2:260703-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 64;4 K cassette CUFF.105 chr2 - chr2:219002-229965 chr2:219002-224863;chr2:224921-229965 chr2:224864-224920 82;109 K intron_retention CUFF.167 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 3;14 N jcn_only_AA CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:262787-264781;chr2:253116-264781 chr2:263373-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 98;14 K intron_retention CUFF.107 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 175;6 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 4;19 N jcn_only_AA chr2 - chr2:242440263-242440892;chr2:242440493-242440892 chr2:242440335-242440892 48;3 N jcn_only_AD CUFF.161 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 9;2 N jcn_only_AA CUFF.127 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27732394-27741654 chr2:27741654-27741655 28;9 N alternative_donor CUFF.124 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 570;26 K intron_retention CUFF.212 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 3;9 N alternative_acceptor CUFF.126 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 8;25 K intron_retention CUFF.143 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 97;7 N alternative_acceptor chr2 - chr2:262787-263210;chr2:253116-263210;chr2:262751-263210 chr2:260703-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 22;13 N coord_cassette CUFF.212 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 6;4 N intron_retention chr2 - chr2:263763-264781 chr2:263762-263763;chr2:264781-264782 18;2 N jcn_only_AA chr2 + chr2:1243549-1251098 chr2:1243549-1246509 14;3 N mutually_exclusive CUFF.161 chr2 - chr2:86393768-86398330,chr2:86398469-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398468 chr2:86397872-86397964 1;7 N alternative_acceptor CUFF.213 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 59;15 N jcn_only_AD CUFF.128 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31440322-31449393 chr2:31449393-31449394 21;3 N jcn_only_AA CUFF.192 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 10;61 N alternative_donor CUFF.227 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 440;3 N alternative_last_exon CUFF.118 chr2 - chr2:11597360-11605897;chr2:11598478-11605897 chr2:11593925-11605897 chr2:11597305-11597359;chr2:11598411-11598477 chr2:11593708-11593924 106;44 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 3;17 N alternative_first_exon CUFF.156 chr2 - chr2:73285726-73286222,chr2:73285726-73298168,chr2:73285726-73302708;chr2:73285726-73286136;chr2:73285726-73298732 chr2:73285726-73297588 chr2:73286137-73286301;chr2:73298733-73298984 chr2:73297589-73298520 244;186 N jcn_only_AD CUFF.227 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 144;5 N cassette CUFF.161 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 3;80 N cassette CUFF.171 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 4;10 N alternative_donor CUFF.210 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 10;57 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 8;13 N jcn_only_AA CUFF.113,CUFF.218 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 42;15 N jcn_only_AD CUFF.192 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 27;18 N alternative_acceptor CUFF.192 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 191;1 N cassette CUFF.224 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 29;312 N jcn_only_AA CUFF.171 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 20;4 N alternative_acceptor CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:262787-264781;chr2:253116-264781 chr2:263373-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 79;7 N alternative_donor CUFF.182 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 186;8 N alternative_donor CUFF.149 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 210;25 N intron_retention CUFF.173 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 1;3 N jcn_only_AD CUFF.124 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 600;45 K coord_cassette CUFF.148 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 3;34 K coord_cassette CUFF.198 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 6;10 N alternative_acceptor chr2 + chr2:242590751-242592721;chr2:242590751-242591298 chr2:242590751-242592926 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 43;206 N alternative_donor CUFF.169 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 102;15 N jcn_only_AA chr2 - chr2:675631-676573 chr2:676239-676573 chr2:675631-676238 chr2:675630-675631 4;21 K intron_retention CUFF.227 chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 137;49 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 22;3 N jcn_only_AD CUFF.135 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505226-33516854 chr2:33505225-33505226 259;9 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 5;50 N jcn_only_AD chr2 - chr2:177042550-177042742 chr2:177042550-177042730 chr2:177042731-177042742 chr2:177042742-177042743 4;4 K jcn_only_AD CUFF.147 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 54;76 K coord_cassette CUFF.192 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 6;30 K intron_retention CUFF.115 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 89;87 N jcn_only_AD CUFF.224 chr2 - chr2:61727030-61749745 chr2:61727030-61729130 7;64 K intron_retention chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 123;27 K cassette CUFF.105 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 75;139 N cassette CUFF.156 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 15;210 N alternative_donor CUFF.207 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 26;2 K intron_retention CUFF.126 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 13;2 K intron_retention CUFF.214 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 46;20 N jcn_only_AD CUFF.113 chr2 + chr2:3447663-3461391;chr2:3461001-3461391 chr2:3453249-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 167;35 N alternative_donor chr2 - chr2:177042550-177042742 chr2:177042550-177042730 chr2:177042731-177042742 chr2:177042742-177042743 4;9 N jcn_only_AD CUFF.214 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 13;118 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 39;22 N alternative_acceptor CUFF.173 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 41;10 K coord_cassette CUFF.192 chr2 - chr2:175711686-175779785 chr2:175711686-175740515;chr2:175740594-175742567;chr2:175742857-175779785 chr2:175740516-175740593;chr2:175742568-175742856 66;48 N intron_retention chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 7;13 K alternative_first_exon CUFF.107 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:287583-287892 chr2:287163-287385 171;29 K jcn_only_AD CUFF.151 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 45;7 K alternative_first_exon CUFF.153 chr2 - chr2:69870407-69901154;chr2:69870407-69870923,chr2:69870407-69870874 chr2:69870407-69870706 chr2:69870924-69871176 chr2:69870707-69870786 53;15 N alternative_acceptor CUFF.200 chr2 - chr2:197298183-197458231 chr2:197358100-197458231 chr2:197298183-197358099 chr2:197298182-197298183 20;0 N alternative_donor CUFF.110 chr2 - chr2:675631-677288;chr2:675631-675757 chr2:675631-676573 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 111;3 N alternative_acceptor chr2 - chr2:260898-262630;chr2:260703-262630 chr2:253116-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 31;37 N intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 21;26 N jcn_only_AA CUFF.227 chr2 + chr2:242590751-242592721;chr2:242590751-242592926 chr2:242590751-242591298 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 284;176 N jcn_only_AA CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4015879-4021134;chr2:4020693-4021134 chr2:4009485-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 108;70 N cassette CUFF.167 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 5;35 K alternative_donor CUFF.147 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46843726-46844108 chr2:46844108-46844109 54;152 N jcn_only_AA CUFF.135 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 8;7 K jcn_only_AD CUFF.176 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 3;9 K cassette CUFF.124 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 72;349 N jcn_only_AD CUFF.113 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3392442-3393550 chr2:3392441-3392442 36;33 N alternative_acceptor chr2 + chr2:242591390-242592926 chr2:242591390-242592721 chr2:242592722-242592926 chr2:242592926-242592927 127;10 K intron_retention CUFF.156 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 135;4 N alternative_donor CUFF.180 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 225;0 N jcn_only_AD CUFF.148 chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 33;7 N alternative_acceptor chr2 - chr2:260703-263210;chr2:262787-263210;chr2:262751-263210 chr2:253116-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 31;4 K mutually_exclusive CUFF.180 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 106;77 K intron_retention CUFF.224 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 98;24 K cassette CUFF.213 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 26;30 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 8;104 N alternative_donor CUFF.111 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 24;1 N jcn_only_AD CUFF.224 chr2 - chr2:242435950-242436596;chr2:242435950-242437030 chr2:242435950-242436714 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 122;3 N cassette CUFF.227 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 4;219 N jcn_only_AA chr2 - chr2:260898-262630;chr2:260703-262630 chr2:253116-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 17;37 N cassette CUFF.224 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 41;108 N alternative_acceptor CUFF.105 chr2 - chr2:263763-264781;chr2:262787-264781;chr2:253116-264781;chr2:263373-264781 chr2:263369-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 81;5 N jcn_only_AD CUFF.126 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 39;3 N jcn_only_AD CUFF.118 chr2 - chr2:11597360-11605897 chr2:11597360-11598406 chr2:11598407-11605897 chr2:11605897-11605898 113;19 N intron_retention CUFF.173 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 2;5 N jcn_only_AA chr2 - chr2:260703-263210;chr2:253116-263210;chr2:262751-263210 chr2:262787-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 57;11 N jcn_only_AD CUFF.143 chr2 + chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568 chr2:38150510-38150511 6;6 N alternative_donor CUFF.153,CUFF.173 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 41;21 K intron_retention CUFF.149 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 23;12 N coord_cassette CUFF.205 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 17;15 K cassette CUFF.192 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 6;32 K alternative_last_exon CUFF.188 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057669-174057784 chr2:174062440-174063552 54;35 N mutually_exclusive CUFF.156 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 11;43 N alternative_last_exon CUFF.118 chr2 - chr2:11593925-11605897;chr2:11598478-11605897 chr2:11597360-11605897 chr2:11593708-11593924;chr2:11598411-11598477 chr2:11597305-11597359 62;88 K alternative_acceptor CUFF.162 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 18;32 N intron_retention chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 35;6 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 107;3 N jcn_only_AD CUFF.227 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 142;7 N jcn_only_AA CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:262787-264781;chr2:263373-264781 chr2:253116-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 54;59 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 17;3 K cassette CUFF.216 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 51;3 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 4;56 N jcn_only_AD CUFF.208 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 15;40 N jcn_only_AD CUFF.179 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 5;1 N alternative_donor CUFF.169 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 10;2 N jcn_only_AD CUFF.147,CUFF.173 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 71;4 K intron_retention CUFF.147 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 76;59 N jcn_only_AD CUFF.143 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 186;12 N alternative_donor CUFF.113 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3392442-3393550 chr2:3392441-3392442 36;8 N intron_retention chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 62;45 N jcn_only_AD CUFF.180 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 39;11 K intron_retention CUFF.161 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 39;22 N jcn_only_AD CUFF.115 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 70;34 K cassette CUFF.182 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 130;15 N jcn_only_AA chr2 - chr2:253116-264083 chr2:263373-264083 chr2:253116-263372 chr2:253115-253116 2;22 N alternative_donor CUFF.171 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 245;9 N alternative_donor CUFF.126 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 5;30 N alternative_donor CUFF.115 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 70;7 N cassette CUFF.185 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 4;35 N alternative_donor CUFF.110,CUFF.191 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 9;0 N jcn_only_AD CUFF.113 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 134;3 N jcn_only_AD CUFF.196 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 8;6 N alternative_donor CUFF.227 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 170;22 N alternative_donor CUFF.200 chr2 - chr2:197298183-197458231 chr2:197298183-197357967 chr2:197357968-197458231 chr2:197458231-197458232 20;0 N jcn_only_AA CUFF.171 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 16;4 K intron_retention CUFF.113 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 139;8 N jcn_only_AA CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:253116-264781;chr2:263373-264781 chr2:262787-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 101;12 N alternative_donor CUFF.124,CUFF.192 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 191;2 K jcn_only_AA CUFF.169 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 10;20 K alternative_acceptor CUFF.167 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 34;16 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 4;65 K jcn_only_AD CUFF.153 chr2 - chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870875-69870923 chr2:69870923-69870924 7;13 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 5;15 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 26;70 N cassette CUFF.118 chr2 - chr2:11587901-11593707 chr2:11587901-11591327;chr2:11591933-11593707 chr2:11591328-11591932 61;60 N alternative_donor CUFF.147,CUFF.173 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 71;0 K cassette CUFF.208 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 78;27 K cassette CUFF.199 chr2 + chr2:191362446-191364740 chr2:191362446-191364557;chr2:191364583-191364740 chr2:191364558-191364582 43;6 K cassette CUFF.182 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 161;5 N alternative_acceptor CUFF.105 chr2 - chr2:263369-264781;chr2:263763-264781;chr2:262787-264781;chr2:263373-264781 chr2:253116-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 27;59 N jcn_only_AA CUFF.110 chr2 - chr2:675631-677288 chr2:676239-677288 chr2:675631-676238 chr2:675630-675631 72;5 N intron_retention CUFF.214 chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 26;37 K alternative_first_exon CUFF.223 chr2 + chr2:241381924-241398446,chr2:241396887-241398446,chr2:241394438-241398446;chr2:241392512-241398446 chr2:241397535-241398446 chr2:241392147-241392511 chr2:241397314-241397534 74;61 N mutually_exclusive CUFF.161 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 1;7 N jcn_only_AA CUFF.113 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 134;22 N jcn_only_AA CUFF.111,CUFF.143 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 26;9 N intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 4;16 N coord_cassette CUFF.185 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;22 N alternative_acceptor chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 27;18 N jcn_only_AD chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 91;554 K cassette CUFF.118 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 78;30 N alternative_donor CUFF.171 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 16;14 K alternative_donor CUFF.176 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 3;4 N alternative_first_exon CUFF.156 chr2 - chr2:73285726-73286222,chr2:73285726-73298168,chr2:73285726-73302708;chr2:73285726-73297588;chr2:73285726-73298732 chr2:73285726-73286136 chr2:73297589-73298520;chr2:73298733-73298984 chr2:73286137-73286301 390;40 N cassette CUFF.111 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 5;26 K cassette CUFF.162 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 9;21 N intron_retention chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 10;96 K alternative_acceptor CUFF.135 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 3;190 N alternative_acceptor CUFF.126 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 187;4 N jcn_only_AD chr2 - chr2:262787-263210;chr2:262787-264702 chr2:262787-264781 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 23;12 N jcn_only_AA CUFF.192 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 191;27 N intron_retention chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 127;10 N jcn_only_AD CUFF.124,CUFF.192 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 191;32 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 18;5 K cassette CUFF.213 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 129;38 N alternative_donor chr2 - chr2:46839484-46842075 chr2:46839484-46840832 chr2:46840833-46842075 chr2:46842075-46842076 36;189 N alternative_acceptor CUFF.156 chr2 - chr2:73228704-73247367 chr2:73228708-73247367 chr2:73228704-73228707 chr2:73228703-73228704 6;86 K intron_retention CUFF.210 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 3;24 N alternative_donor CUFF.156,CUFF.173 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 24;1 N alternative_donor CUFF.110 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 75;39 N jcn_only_AD CUFF.111 chr2 + chr2:1133496-1161233;chr2:1159412-1161233 chr2:1158976-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 39;4 K intron_retention CUFF.161 chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 17;10 N alternative_acceptor CUFF.127 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 25;1 N jcn_only_AD CUFF.105 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 196;12 N jcn_only_AD CUFF.126 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 5;11 N cassette CUFF.126 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 47;97 K cassette CUFF.192 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 66;46 N alternative_donor CUFF.207 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 25;3 N alternative_acceptor CUFF.227 chr2 + chr2:242590751-242591298;chr2:242590751-242592926 chr2:242590751-242592721 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 223;26 N jcn_only_AA CUFF.182 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 186;18 N jcn_only_AD CUFF.113 chr2 + chr2:3453249-3461391;chr2:3447663-3461391 chr2:3461001-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 179;23 N jcn_only_AA CUFF.213 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 75;26 N alternative_donor CUFF.194 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177052793-177053146 chr2:177053146-177053147 46;12 N jcn_only_AD CUFF.110 chr2 - chr2:675631-677288;chr2:675631-675757 chr2:675631-676573 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 96;4 N cassette CUFF.113 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 20;98 K intron_retention CUFF.160 chr2 - chr2:79364464-79365092 chr2:79364463-79364464;chr2:79365092-79365093 45;3 K cassette CUFF.147 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 27;30 K cassette CUFF.124 chr2 - chr2:25174424-25179911 chr2:25174424-25176418;chr2:25176505-25179911 chr2:25176419-25176504 32;385 K intron_retention CUFF.110 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 72;16 K alternative_donor CUFF.153 chr2 - chr2:69870407-69870923 chr2:69870407-69870874 chr2:69870875-69870923 chr2:69870923-69870924 7;12 N alternative_first_exon CUFF.156 chr2 - chr2:73285726-73286222,chr2:73285726-73298168,chr2:73285726-73302708;chr2:73285726-73286136;chr2:73285726-73297588 chr2:73285726-73298732 chr2:73286137-73286301;chr2:73297589-73298520 chr2:73298733-73298984 336;94 N cassette CUFF.156 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 52;15 K intron_retention CUFF.218 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 21;14 N alternative_acceptor CUFF.173 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 6;6 N jcn_only_AD CUFF.111 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 14;19 N alternative_acceptor CUFF.213 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 41;33 N cassette CUFF.194 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 13;105 K intron_retention CUFF.175 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 5;2 K alternative_first_exon CUFF.119 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535455-16535568 chr2:16536374-16536535 2;9 N intron_retention chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 18;10 N cassette CUFF.105 chr2 - chr2:234273-247537;chr2:234273-243502 chr2:234273-242797;chr2:242872-243502,chr2:242872-247537 chr2:242798-242871 170;52 K intron_retention CUFF.127 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 32;4 K intron_retention CUFF.214 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 55;85 N alternative_acceptor CUFF.173 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 72;2 K alternative_last_exon CUFF.151 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68357085-68358577 chr2:68358888-68359137 9;14 K cassette CUFF.115 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 3;103 N alternative_donor CUFF.118 chr2 - chr2:11597360-11605897 chr2:11597360-11598406 chr2:11598407-11605897 chr2:11605897-11605898 113;0 N alternative_acceptor CUFF.182 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 186;8 N jcn_only_AA chr2 - chr2:242440263-242440892;chr2:242440335-242440892 chr2:242440493-242440892 24;27 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 9;54 N intron_retention CUFF.212 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 7;8 N jcn_only_AD CUFF.173 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 6;1 K alternative_last_exon CUFF.111,CUFF.113 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 25;6 N jcn_only_AA CUFF.205 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 11;282 N alternative_acceptor CUFF.217 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 38;1 K intron_retention CUFF.212 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 6;9 N alternative_acceptor CUFF.115 chr2 - chr2:4020665-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4009394-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 39;13 K cassette CUFF.115 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 40;97 N alternative_donor CUFF.208 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 37;40 K jcn_only_AA CUFF.126 chr2 - chr2:27676381-27676848 chr2:27676607-27676848 57;22 K intron_retention CUFF.214 chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 118;45 N jcn_only_AD chr2 - chr2:675631-675757;chr2:675631-676573 chr2:675631-677288 chr2:675758-676573;chr2:676574-677288 chr2:676573-676574;chr2:677288-677289 28;72 N alternative_acceptor chr2 - chr2:260703-263210;chr2:253116-263210;chr2:262751-263210 chr2:262787-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 30;5 N jcn_only_AA CUFF.224 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 110;18 N alternative_acceptor CUFF.173 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 1;3 K mutually_exclusive CUFF.205 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 16;29 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 20;184 N alternative_acceptor CUFF.113 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 134;19 K alternative_first_exon CUFF.143 chr2 + chr2:38179345-38201182;chr2:38156873-38201182 chr2:38177739-38201182 chr2:38156405-38156872 chr2:38177532-38177738 30;35 N alternative_acceptor chr2 - chr2:253116-262630;chr2:260703-262630 chr2:260898-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 41;27 N intron_retention chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 11;5 N jcn_only_AA CUFF.115 chr2 - chr2:4020665-4021134;chr2:4015879-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4009394-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 165;13 K intron_retention CUFF.191 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 9;16 K jcn_only_AA CUFF.218,CUFF.227 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 20;21 N jcn_only_AD chr2 - chr2:262787-263210;chr2:262787-264781 chr2:262787-264702 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 23;12 K intron_retention CUFF.213 chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 26;32 N intron_retention chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 21;25 N jcn_only_AA chr2 - chr2:260898-262630;chr2:253116-262630 chr2:260703-262630 chr2:253116-260702;chr2:260703-260897 chr2:253115-253116;chr2:260702-260703 52;2 N alternative_donor CUFF.179 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 5;0 N jcn_only_AA CUFF.173 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 41;2 K cassette CUFF.185 chr2 + chr2:171376051-171399415 chr2:171376051-171381014;chr2:171381137-171399415 chr2:171381015-171381136 20;9 N jcn_only_AA CUFF.212 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 6;7 K jcn_only_AA CUFF.135,CUFF.171 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 3;164 N jcn_only_AD CUFF.216 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 1;17 N alternative_acceptor CUFF.113 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 184;1 N alternative_donor CUFF.143 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 186;2 N alternative_donor CUFF.156 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 135;12 N cassette CUFF.161 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 3;55 K alternative_first_exon CUFF.107 chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288553-288926 chr2:288013-288386 22;11 N jcn_only_AA chr2 - chr2:242440493-242440892;chr2:242440335-242440892 chr2:242440263-242440892 30;21 K intron_retention CUFF.214 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 60;11 K intron_retention CUFF.126 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 3;13 N alternative_donor chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194285-25194424;chr2:25194425-25194686 chr2:25194424-25194425;chr2:25194686-25194687 42;554 K intron_retention CUFF.105 chr2 - chr2:253116-264781 chr2:253115-253116;chr2:264781-264782 59;3 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 7;11 N cassette CUFF.156 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 21;39 N jcn_only_AD CUFF.208 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 41;13 K jcn_only_AA CUFF.217 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 148;20 N jcn_only_AA CUFF.213 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 76;25 K intron_retention CUFF.194 chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 46;11 N alternative_donor CUFF.161 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 9;2 N intron_retention chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 2;19 K jcn_only_AA CUFF.126 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 22;134 N alternative_donor CUFF.113 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 134;13 N jcn_only_AA CUFF.200 chr2 - chr2:197298183-197458231 chr2:197358100-197458231 chr2:197298183-197358099 chr2:197298182-197298183 20;11 K mutually_exclusive CUFF.192 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 32;8 K cassette CUFF.180 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 33;26 K cassette CUFF.161 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 2;24 N jcn_only_AD CUFF.169 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 199;62 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 15;10 N intron_retention CUFF.192 chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 78;11 K cassette CUFF.143 chr2 + chr2:38231360-38244328 chr2:38231360-38239745;chr2:38239793-38244328 chr2:38239746-38239792 109;6 K alternative_first_exon CUFF.161 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422991 chr2:86422045-86422125 40;4 K intron_retention CUFF.105 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 143;13 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 37;64 N jcn_only_AA CUFF.126 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 187;6 N alternative_acceptor CUFF.223 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 145;3 N mutually_exclusive CUFF.227 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 5;7 K cassette CUFF.128 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 26;5 N alternative_donor CUFF.105 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 20;8 K intron_retention CUFF.149 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 14;12 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 276;20 K jcn_only_AD CUFF.151 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 19;34 N alternative_acceptor CUFF.224 chr2 - chr2:242435950-242437030 chr2:242436794-242437030 chr2:242435950-242436793 chr2:242435949-242435950 110;7 N cassette CUFF.227 chr2 + chr2:242594063-242606059;chr2:242594759-242606059 chr2:242594759-242598522,chr2:242594063-242598522;chr2:242598603-242606059 chr2:242598523-242598602 16;138 N cassette CUFF.105 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 181;37 N jcn_only_AA CUFF.173 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 1;2 N jcn_only_AD CUFF.156 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 135;4 K alternative_first_exon CUFF.113 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469368-3469466 chr2:3476174-3476373 66;29 N intron_retention CUFF.110 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 4;28 N cassette CUFF.156 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 5;138 K alternative_acceptor CUFF.160 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 45;29 N alternative_donor CUFF.113 chr2 + chr2:3453249-3461391;chr2:3447663-3461391 chr2:3461001-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 146;1 N jcn_only_AA chr2 + chr2:242591390-242592926 chr2:242591390-242592721 chr2:242592722-242592926 chr2:242592926-242592927 127;22 K cassette CUFF.213 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 78;58 K cassette CUFF.201 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 5;16 N jcn_only_AA CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4015879-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 144;34 N jcn_only_AA CUFF.127 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27724557-27726380 chr2:27726380-27726381 25;9 N jcn_only_AD CUFF.182 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 186;13 N jcn_only_AA CUFF.105 chr2 - chr2:263369-264781;chr2:262787-264781;chr2:253116-264781;chr2:263373-264781 chr2:263763-264781 chr2:253116-262786;chr2:262787-263368;chr2:263369-263372;chr2:263373-263762 chr2:253115-253116;chr2:262786-262787;chr2:263368-263369;chr2:263372-263373 95;18 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 101;24 N jcn_only_AD CUFF.224 chr2 - chr2:242435950-242436714;chr2:242435950-242437030 chr2:242435950-242436596 chr2:242436597-242436714;chr2:242436715-242437030 chr2:242436714-242436715;chr2:242437030-242437031 113;12 N alternative_acceptor CUFF.113,CUFF.217 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 185;0 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 16;4 K jcn_only_AA CUFF.167 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 34;30 K intron_retention CUFF.117 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 20;9 N alternative_acceptor CUFF.171 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 16;2 N jcn_only_AD chr2 - chr2:262787-264781;chr2:262787-264702 chr2:262787-263210 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 24;11 N mutually_exclusive CUFF.182 chr2 + chr2:169659184-169681143,chr2:169681228-169684667 chr2:169659184-169668076,chr2:169668163-169684667 chr2:169681144-169681227 chr2:169668077-169668162 8;120 K alternative_acceptor CUFF.218,CUFF.227 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 20;25 N coord_cassette CUFF.156 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 52;18 K cassette CUFF.127 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 9;32 N jcn_only_AD CUFF.171 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 20;8 K intron_retention CUFF.160 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 12;9 N mutually_exclusive CUFF.194 chr2 - chr2:177041421-177042438,chr2:177042555-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042554 chr2:177042060-177042222 7;19 K intron_retention CUFF.147 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 27;107 K coord_cassette CUFF.192 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 40;33 K alternative_acceptor CUFF.169 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 10;24 N alternative_donor CUFF.113 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 2;8 N cassette CUFF.217 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 10;13 K alternative_last_exon CUFF.156 chr2 - chr2:73280681-73285656,chr2:73269715-73285656,chr2:73268791-73285656;chr2:73268061-73285656 chr2:73277029-73285656 chr2:73267983-73268060 chr2:73276213-73277028 154;203 K intron_retention CUFF.227 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 207;3 N jcn_only_AD CUFF.111 chr2 + chr2:1158976-1161233;chr2:1159412-1161233 chr2:1133496-1161233 chr2:1133496-1158975;chr2:1158976-1159411 chr2:1133495-1133496;chr2:1158975-1158976 7;36 N alternative_donor CUFF.113 chr2 + chr2:3447663-3461391;chr2:3461001-3461391 chr2:3453249-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 145;2 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 102;8 N alternative_donor chr2 - chr2:262787-263210;chr2:262787-264781 chr2:262787-264702 chr2:263211-264702;chr2:264703-264781 chr2:264702-264703;chr2:264781-264782 17;5 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 3;26 N jcn_only_AD CUFF.210 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 10;107 N jcn_only_AD chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764696 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 95;15 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 22;6 N alternative_acceptor CUFF.126 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 134;1 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 9;70 N jcn_only_AA CUFF.147 chr2 - chr2:46839484-46842075 chr2:46840925-46842075 36;27 N jcn_only_AD CUFF.111 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 24;3 N jcn_only_AD CUFF.169 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 102;30 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 5;10 K jcn_only_AA CUFF.135 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 3;377 N alternative_acceptor CUFF.113,CUFF.218 chr2 + chr2:3405665-3425651 chr2:3405665-3425470 chr2:3425471-3425651 chr2:3425651-3425652 42;8 N jcn_only_AA CUFF.173 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 72;3 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 26;102 N alternative_donor CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 17;3 N alternative_donor CUFF.113 chr2 + chr2:3405665-3425651 chr2:3425558-3425651 chr2:3405665-3425557 chr2:3405664-3405665 42;0 N jcn_only_AD CUFF.180 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 225;4 N alternative_donor CUFF.208 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 72;5 N jcn_only_AD CUFF.113 chr2 + chr2:3453249-3461391;chr2:3461001-3461391 chr2:3447663-3461391 chr2:3447663-3453248;chr2:3453249-3461000 chr2:3447662-3447663;chr2:3453248-3453249 59;144 N alternative_donor CUFF.161 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 96;21 K jcn_only_AD CUFF.169 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 99;9 N intron_retention CUFF.105 chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 4;24 N jcn_only_AA chr2 - chr2:260703-263210;chr2:262787-263210;chr2:262751-263210 chr2:253116-263210 chr2:253116-260702;chr2:260703-262750;chr2:262751-262786 chr2:253115-253116;chr2:260702-260703;chr2:262750-262751 64;4 N alternative_acceptor CUFF.115 chr2 - chr2:4020665-4021134;chr2:4009394-4021134;chr2:4009485-4021134;chr2:4020693-4021134 chr2:4015879-4021134 chr2:4009394-4009484;chr2:4009485-4015878;chr2:4015879-4020664;chr2:4020665-4020692 chr2:4009393-4009394;chr2:4009484-4009485;chr2:4015878-4015879;chr2:4020664-4020665 51;1 N jcn_only_AD CUFF.149 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 82;27 N jcn_only_AD CUFF.161 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 96;37 N jcn_only_AD CUFF.105 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 36;25 N jcn_only_AA chr2 + chr2:242590751-242592721;chr2:242590751-242591298 chr2:242590751-242592926 chr2:242591299-242592721;chr2:242592722-242592926 chr2:242592721-242592722;chr2:242592926-242592927 253;206 N intron_retention CUFF.105 chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 27;35 N jcn_only_AA chr2 - chr2:166732743-166737188 chr2:166736478-166737188 16;13 N jcn_only_AD CUFF.110,CUFF.191 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 9;6 N intron_retention CUFF.214 chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 34;25 N alternative_donor CUFF.192 chr2 - chr2:175809672-175816891 chr2:175809672-175809897 chr2:175809898-175816891 chr2:175816891-175816892 27;0 N mutually_exclusive CUFF.224 chr2 - chr2:242440212-242447420,chr2:242447551-242447919 chr2:242440212-242440892,chr2:242441124-242447919 chr2:242447421-242447550 chr2:242440893-242441123 22;6 N jcn_only_AA CUFF.126 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 134;21 K alternative_first_exon CUFF.96 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817628-222817928 20;44 N alternative_donor CUFF.103 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 136;0 K jcn_only_AD CUFF.6 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 14;23 K alternative_last_exon CUFF.104 chr1 - chr1:247320520-247322307,chr1:247320706-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247319200-247320519;chr1:247285248-247287173 chr1:247301447-247302059 58;10 K alternative_first_exon CUFF.1 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1655951-1656202 chr1:1663983-1664283 4;9 N alternative_acceptor CUFF.32,CUFF.78 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 47;0 K alternative_donor CUFF.63 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 25;2 N alternative_acceptor CUFF.10 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 66;2 N jcn_only_AD CUFF.62 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 23;4 N alternative_last_exon CUFF.17 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226593-26227578 6;114 N alternative_first_exon CUFF.101 chr1 + chr1:230203154-230338882 chr1:230314058-230338882 chr1:230202931-230203153 chr1:230313964-230314057 4;4 N alternative_donor CUFF.23 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 48;3 K cassette CUFF.23 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 37;40 K intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 23;6 N cassette CUFF.35 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 20;124 K jcn_only_AD CUFF.2 chr1 + chr1:2075781-2077465 chr1:2076951-2077465 251;148 K alternative_first_exon CUFF.50 chr1 - chr1:113471975-113472502,chr1:113471975-113497897;chr1:113471975-113498656;chr1:113471975-113478445 chr1:113471975-113499460 chr1:113498657-113498975;chr1:113478446-113478675 chr1:113499461-113499724 35;20 K alternative_first_exon CUFF.103 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245132943-245133100 chr1:245133631-245133745 59;30 K jcn_only_AA CUFF.65 chr1 - chr1:156449139-156450625 chr1:156449589-156450625 12;3 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 7;22 N jcn_only_AD CUFF.71 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 10;20 N alternative_acceptor CUFF.96 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 39;5 K jcn_only_AA CUFF.76 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 19;14 K alternative_last_exon CUFF.84,CUFF.91 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211599553-211599631 chr1:211570198-211570206 11;2 N alternative_acceptor CUFF.2 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 30;1 N alternative_first_exon chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941705 chr1:156939790-156939835 1;40 N alternative_donor CUFF.69,CUFF.7 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 714;5 N mutually_exclusive CUFF.35 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 12;31 K alternative_last_exon CUFF.100 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613724 12;6 N cassette CUFF.51 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 59;14 K alternative_first_exon CUFF.30 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33646626-33647267 chr1:33642009-33642241 16;30 K alternative_acceptor CUFF.76 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 19;25 N alternative_donor CUFF.63 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 22;7 N jcn_only_AD CUFF.40 chr1 + chr1:70820795-70832126;chr1:70820892-70832126;chr1:70820791-70832126 chr1:70832012-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 193;17 N jcn_only_AD CUFF.5 chr1 + chr1:11076312-11076900;chr1:11074023-11076900 chr1:11075704-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 94;3 K alternative_first_exon CUFF.17,CUFF.67 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156921365-156921491 chr1:156918365-156918864 chr1:156918113-156918290 4;11 N intron_retention chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 27;22 K cassette CUFF.48 chr1 - chr1:106132408-106145898 chr1:106132408-106143891;chr1:106144008-106145898 chr1:106143892-106144007 19;13 N alternative_donor CUFF.17 chr1 - chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26231634 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 46;4 N alternative_donor CUFF.85 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860531-200864215 chr1:200860530-200860531 73;0 K jcn_only_AA CUFF.104 chr1 - chr1:247320520-247322307 chr1:247320706-247322307 chr1:247320520-247320705 chr1:247320519-247320520 20;22 K coord_cassette CUFF.48 chr1 - chr1:106132408-106146784 chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784 chr1:106143892-106144007;chr1:106145899-106146180 17;16 K alternative_first_exon CUFF.31 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 11;10 K intron_retention CUFF.31 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 15;14 N jcn_only_AA CUFF.78,CUFF.9 chr1 + chr1:167272812-167301706 chr1:167272812-167288250 chr1:167288251-167301706 chr1:167301706-167301707 88;7 N alternative_donor CUFF.32 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 47;0 N jcn_only_AD CUFF.23 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 97;2 N cassette CUFF.4 chr1 + chr1:10494748-10511433 chr1:10494748-10500403;chr1:10500471-10511433 chr1:10500404-10500470 4;14 K cassette CUFF.78 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 30;67 K coord_cassette CUFF.4 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 10;15 K jcn_only_AD CUFF.77 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 8;11 K alternative_last_exon CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110217368 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110217369-110217706 17;4 K jcn_only_AD CUFF.24 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 185;19 N jcn_only_AD CUFF.2 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 106;18 K intron_retention CUFF.62 chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 4;33 K cassette CUFF.77 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 9;9 K coord_cassette CUFF.24 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 72;81 N alternative_acceptor chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;9 N alternative_first_exon CUFF.2 chr1 + chr1:2043257-2066700,chr1:2006573-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:2005369-2066700;chr1:2005715-2066700;chr1:2066526-2066700;chr1:1991031-2066700 chr1:2013900-2066700 chr1:2004879-2005368;chr1:2005376-2005714;chr1:2066277-2066525;chr1:1990980-1991030 chr1:2013665-2013899 301;37 K cassette CUFF.33 chr1 - chr1:53878941-53883199 chr1:53878941-53881072;chr1:53881197-53883199 chr1:53881073-53881196 23;52 N alternative_donor CUFF.78 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 108;0 N jcn_only_AA CUFF.26 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 82;9 N alternative_donor CUFF.55 chr1 + chr1:145577754-145578061;chr1:145575405-145578061 chr1:145576103-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 7;25 K alternative_acceptor CUFF.76 chr1 - chr1:161970129-161976086 chr1:161970132-161976086 chr1:161970129-161970131 chr1:161970128-161970129 19;7 N alternative_acceptor CUFF.49 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 10;40 N jcn_only_AD CUFF.96 chr1 + chr1:222835675-222837339 chr1:222836374-222837339 chr1:222835675-222836373 chr1:222835674-222835675 25;7 K coord_cassette CUFF.80 chr1 - chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169697198;chr1:169697388-169698326 chr1:169696880-169697068;chr1:169697199-169697387 20;40 N intron_retention chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 2;47 N cassette CUFF.2 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 6;73 N jcn_only_AD CUFF.55 chr1 + chr1:145577754-145578061;chr1:145575405-145578061 chr1:145576103-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 14;140 K intron_retention CUFF.67 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 chr1:156908210-156908305;chr1:156908941-156909077 42;8 K alternative_first_exon CUFF.50 chr1 - chr1:113471975-113472502,chr1:113471975-113497897;chr1:113471975-113498656;chr1:113471975-113499460 chr1:113471975-113478445 chr1:113498657-113498975;chr1:113499461-113499724 chr1:113478446-113478675 38;17 N alternative_donor CUFF.78 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 144;0 N jcn_only_AA CUFF.62 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 23;4 N alternative_acceptor chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 2;78 K intron_retention CUFF.96 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 25;58 K cassette CUFF.98 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 50;151 N jcn_only_AD CUFF.5 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 20;26 N alternative_acceptor CUFF.33 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883339-53904721 chr1:53883338-53883339 17;3 N alternative_acceptor CUFF.24 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 183;0 K alternative_first_exon CUFF.21 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656765-28656886 50;16 N alternative_acceptor CUFF.78,CUFF.9 chr1 + chr1:167272812-167301706 chr1:167272812-167288250 chr1:167288251-167301706 chr1:167301706-167301707 88;0 N cassette CUFF.80 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 26;52 K alternative_donor CUFF.77 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 8;8 N alternative_donor CUFF.2 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 106;1 N jcn_only_AA chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;3 K alternative_last_exon CUFF.36 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387210-54387440 20;41 N jcn_only_AD CUFF.35 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 38;16 N alternative_acceptor CUFF.8 chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 5;5 K jcn_only_AD CUFF.62 chr1 - chr1:153927643-153930621 chr1:153927643-153930536 chr1:153930537-153930621 chr1:153930621-153930622 15;62 N alternative_acceptor chr1 + chr1:70820892-70832009;chr1:70820892-70831828 chr1:70820892-70832126 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 9;44 K intron_retention CUFF.26 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 144;9 K alternative_last_exon CUFF.9 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383803 chr1:16382917-16383003 6;15 K intron_retention CUFF.93 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 7;34 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 9;4 K cassette CUFF.88 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 22;14 N alternative_donor CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820795-70832126;chr1:70820892-70832126 chr1:70820791-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 63;134 N jcn_only_AA CUFF.78 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 94;8 K alternative_first_exon CUFF.50 chr1 - chr1:113471975-113472502,chr1:113471975-113497897;chr1:113471975-113499460;chr1:113471975-113478445 chr1:113471975-113498656 chr1:113499461-113499724;chr1:113478446-113478675 chr1:113498657-113498975 41;14 N jcn_only_AD CUFF.49 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 26;8 K jcn_only_AA CUFF.60 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 38;16 N jcn_only_AD CUFF.23 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 62;37 N jcn_only_AD CUFF.2 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 120;3 N jcn_only_AA CUFF.2 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 106;11 N jcn_only_AD CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820795-70832126;chr1:70820892-70832126 chr1:70820791-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 76;134 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 40;10 K cassette CUFF.59 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 26;7 K alternative_first_exon CUFF.98 chr1 + chr1:224371121-224377278;chr1:224371534-224377278 chr1:224363650-224377278 chr1:224370803-224371120;chr1:224371312-224371533 chr1:224363421-224363649 109;19 K alternative_acceptor CUFF.104 chr1 - chr1:247320520-247322307 chr1:247320706-247322307 chr1:247320520-247320705 chr1:247320519-247320520 20;18 N cassette CUFF.74 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 2;38 N jcn_only_AA CUFF.32,CUFF.78 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 47;6 N alternative_donor CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26232342 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 43;7 N jcn_only_AD CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232342 chr1:26231230-26232879 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 96;12 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 11;171 K coord_cassette CUFF.96 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 11;22 K jcn_only_AA CUFF.78,CUFF.81 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 6;7 K cassette CUFF.48 chr1 - chr1:106132408-106146784 chr1:106132408-106145898;chr1:106146181-106146784 chr1:106145899-106146180 17;37 K jcn_only_AA CUFF.84 chr1 + chr1:196918780-196920029 chr1:196918780-196919981 chr1:196919982-196920029 chr1:196920029-196920030 11;22 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 2;6 N cassette CUFF.23 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 5;43 N jcn_only_AA CUFF.40 chr1 + chr1:70820892-70831828;chr1:70820892-70832126 chr1:70820892-70832009 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 66;4 N jcn_only_AD CUFF.60 chr1 - chr1:151158427-151162480;chr1:151158427-151162599 chr1:151158427-151167754 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 63;12 K alternative_first_exon CUFF.7 chr1 - chr1:11710892-11715696;chr1:11710892-11713447 chr1:11710892-11714375 chr1:11715697-11715892;chr1:11713448-11713484 chr1:11714376-11714739 15;22 K cassette CUFF.48 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 14;25 K alternative_first_exon CUFF.104,CUFF.99 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401051 chr1:224397943-224398114 7;10 K jcn_only_AD CUFF.21 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 3;62 N jcn_only_AD CUFF.23 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 38;60 N coord_cassette CUFF.35 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 15;28 K alternative_last_exon CUFF.103,CUFF.78 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167367231-167367370 chr1:167365770-167365836 23;45 K alternative_first_exon CUFF.7 chr1 - chr1:11710892-11713447;chr1:11710892-11714375 chr1:11710892-11715696 chr1:11713448-11713484;chr1:11714376-11714739 chr1:11715697-11715892 28;9 N alternative_donor CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232342 chr1:26231230-26232879 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 47;3 K intron_retention CUFF.5 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 45;19 N cassette CUFF.24 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 82;127 K alternative_first_exon CUFF.82 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129235 chr1:174128025-174128520 76;74 N jcn_only_AA CUFF.62 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 9;6 N alternative_donor CUFF.41 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 15;0 K intron_retention CUFF.62 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 13;35 N alternative_first_exon CUFF.2 chr1 + chr1:2043257-2066700,chr1:2006573-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:2005715-2066700;chr1:2013900-2066700;chr1:2066526-2066700;chr1:1991031-2066700 chr1:2005369-2066700 chr1:2005376-2005714;chr1:2013665-2013899;chr1:2066277-2066525;chr1:1990980-1991030 chr1:2004879-2005368 319;19 K cassette CUFF.67 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 chr1:156908210-156908305;chr1:156909340-156909702 34;36 K alternative_donor CUFF.6 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 14;14 K intron_retention CUFF.69 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 637;14 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 11;210 K jcn_only_AA CUFF.62 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 10;4 K intron_retention CUFF.76 chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 12;42 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 7;15 N intron_retention chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 14;30 K alternative_acceptor CUFF.60 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 38;12 N mutually_exclusive CUFF.51 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 2;36 K alternative_donor CUFF.5 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 16;28 N cassette CUFF.80 chr1 - chr1:169696667-169698326;chr1:169697069-169698326 chr1:169696667-169697198,chr1:169697069-169697198;chr1:169697388-169698326 chr1:169697199-169697387 27;44 K intron_retention CUFF.67 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 chr1:156908210-156908305;chr1:156909340-156909702 34;7 N alternative_acceptor CUFF.78 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 94;1 K alternative_last_exon CUFF.8 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15755089-15756839 chr1:15754394-15754505 5;4 N alternative_donor CUFF.5 chr1 + chr1:11075704-11076900;chr1:11074023-11076900 chr1:11076312-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 87;0 K jcn_only_AA CUFF.9 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 15;16 K cassette CUFF.82 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 17;77 K cassette CUFF.31 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 16;30 K alternative_acceptor CUFF.9 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 15;8 K alternative_last_exon CUFF.42 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723118-85723154 13;11 N jcn_only_AA CUFF.104 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 32;5 N jcn_only_AD CUFF.23 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 48;3 N alternative_donor CUFF.71 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 10;11 N alternative_first_exon CUFF.2 chr1 + chr1:2043257-2066700,chr1:2006573-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:2005369-2066700;chr1:2013900-2066700;chr1:2066526-2066700;chr1:1991031-2066700 chr1:2005715-2066700 chr1:2004879-2005368;chr1:2013665-2013899;chr1:2066277-2066525;chr1:1990980-1991030 chr1:2005376-2005714 285;53 N jcn_only_AA CUFF.103 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 136;5 K cassette CUFF.77 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 10;8 N jcn_only_AA CUFF.85,CUFF.96 chr1 + chr1:222835675-222837339 chr1:222835675-222836229 chr1:222836230-222837339 chr1:222837339-222837340 25;15 K intron_retention CUFF.98 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 24;17 N alternative_donor CUFF.60 chr1 - chr1:151158427-151162480;chr1:151158427-151167754 chr1:151158427-151162599 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 17;0 N alternative_last_exon chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877293 4;2 K alternative_last_exon CUFF.71 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160156066-160156157 chr1:160152482-160152554 194;15 N alternative_donor CUFF.2 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 120;0 N jcn_only_AD CUFF.31,CUFF.62 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 2;10 K cassette CUFF.96 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 40;14 N jcn_only_AA chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 27;26 K intron_retention CUFF.63 chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 22;3 N alternative_donor CUFF.31,CUFF.62 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 2;11 K intron_retention CUFF.67 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 chr1:156914811-156914989;chr1:156915837-156915954 22;6 N intron_retention CUFF.31 chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 10;8 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 9;148 N jcn_only_AD chr1 + chr1:32541856-32542363 chr1:32542248-32542363 9;48 N alternative_acceptor CUFF.85 chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 11;72 N coord_cassette CUFF.23 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 5;37 K jcn_only_AA CUFF.76 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 19;12 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 2;23 K cassette CUFF.70 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 57;22 N jcn_only_AD CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26233278;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26231539 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 89;19 N jcn_only_AA CUFF.2 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 30;20 N jcn_only_AD CUFF.5 chr1 + chr1:11075704-11076900;chr1:11076312-11076900 chr1:11074023-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 10;87 N jcn_only_AD CUFF.17 chr1 - chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26231634 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 90;18 N intron_retention chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 14;22 K intron_retention CUFF.2 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 108;26 N cassette CUFF.80 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 3;55 K intron_retention CUFF.70 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 61;9 K intron_retention CUFF.62 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 46;6 N jcn_only_AA CUFF.8 chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 5;144 K alternative_first_exon CUFF.65,CUFF.79 chr1 - chr1:169439425-169454800 chr1:169439425-169446392 chr1:169454801-169455266 chr1:169446393-169446995 8;3 N alternative_acceptor chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 14;47 K alternative_first_exon CUFF.87 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601148 chr1:205594760-205594885 6;12 K cassette CUFF.63 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 12;16 N alternative_donor CUFF.2 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 105;23 K alternative_donor CUFF.24 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 185;17 K intron_retention CUFF.50 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 55;6 K alternative_first_exon CUFF.24 chr1 + chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551,chr1:32538700-32540551 chr1:32537632-32538053 chr1:32538432-32538652 15;156 N jcn_only_AD CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820892-70832126;chr1:70820791-70832126 chr1:70820795-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 194;15 N mutually_exclusive CUFF.80 chr1 - chr1:169696667-169697198,chr1:169697388-169698326 chr1:169696667-169696879,chr1:169697069-169698326 chr1:169697199-169697387 chr1:169696880-169697068 6;9 K alternative_acceptor CUFF.41,CUFF.88 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 29;14 N jcn_only_AA CUFF.40,CUFF.49 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 134;23 K alternative_first_exon CUFF.65 chr1 - chr1:156449139-156450625 chr1:156449139-156449377 chr1:156450626-156450763 chr1:156449378-156449634 10;62 N alternative_acceptor CUFF.103,CUFF.4 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 129;0 K intron_retention CUFF.17 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 135;4 K intron_retention CUFF.31 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 14;10 N jcn_only_AA CUFF.85 chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 11;136 N jcn_only_AD CUFF.5 chr1 + chr1:11075704-11076900;chr1:11074023-11076900 chr1:11076312-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 90;7 N alternative_acceptor CUFF.62 chr1 - chr1:153921121-153921590 chr1:153921377-153921590 chr1:153921121-153921376 chr1:153921120-153921121 23;1 N cassette CUFF.24 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 98;73 N jcn_only_AD CUFF.55 chr1 + chr1:145575405-145578061;chr1:145576103-145578061 chr1:145577754-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 148;7 N intron_retention chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 3;5 N jcn_only_AD CUFF.60 chr1 - chr1:151158427-151167754;chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 24;51 N jcn_only_AD chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905100-53905447 chr1:53905447-53905448 28;6 K intron_retention CUFF.55 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 17;34 K alternative_first_exon CUFF.2 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1981909-1982140 chr1:1982177-1982451 51;67 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 2;1 N coord_cassette CUFF.35 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 4;28 N jcn_only_AA chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 14;73 N jcn_only_AD CUFF.93 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 10;21 N jcn_only_AA CUFF.103,CUFF.4 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 129;5 K intron_retention CUFF.31 chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 2;14 N alternative_donor chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 23;45 N jcn_only_AA CUFF.40 chr1 + chr1:70820892-70832009;chr1:70820892-70832126 chr1:70820892-70831828 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 47;22 N jcn_only_AA CUFF.81 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 3;54 N alternative_donor CUFF.24 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 183;1 K intron_retention CUFF.103 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 45;14 N jcn_only_AD CUFF.63 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 22;9 N alternative_donor CUFF.60 chr1 - chr1:151158427-151167754;chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 12;5 K alternative_donor CUFF.62 chr1 - chr1:153927643-153930621 chr1:153927643-153930536 chr1:153930537-153930621 chr1:153930621-153930622 15;31 K intron_retention CUFF.76 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 19;48 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 4;7 N alternative_acceptor CUFF.30 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 9;13 K alternative_first_exon CUFF.7 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11715697-11715892;chr1:11714376-11714739 chr1:11713448-11713484 31;6 K alternative_last_exon CUFF.4 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512210 chr1:10502322-10502866 15;29 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 2;50 K intron_retention CUFF.67 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 chr1:156908941-156909077;chr1:156909340-156909702 30;7 N alternative_donor CUFF.5 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 20;11 N jcn_only_AA CUFF.10 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 66;2 N jcn_only_AD CUFF.87 chr1 - chr1:27436269-27480473 chr1:27436269-27440316 4;4 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26228173 chr1:26219005-26219098 6;4 N alternative_donor CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820795-70832126;chr1:70820791-70832126 chr1:70820892-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 152;45 K intron_retention CUFF.36 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 37;12 K alternative_donor CUFF.21 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 3;56 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 11;67 K alternative_acceptor CUFF.78,CUFF.81 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 6;7 N alternative_donor CUFF.49 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 5;66 N jcn_only_AD CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820795-70832126;chr1:70820791-70832126 chr1:70820892-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 166;44 N cassette CUFF.84 chr1 + chr1:196913069-196919981 chr1:196913069-196918565;chr1:196918780-196919981 chr1:196918566-196918779 4;17 K cassette CUFF.86 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 5;6 K cassette CUFF.4 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 20;24 N alternative_donor chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905100-53905447 chr1:53905447-53905448 28;5 N cassette CUFF.93 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 9;37 N alternative_donor CUFF.40 chr1 + chr1:70832012-70832126;chr1:70820892-70832126;chr1:70820791-70832126 chr1:70820795-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 180;17 N jcn_only_AD CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26233278;chr1:26231230-26232879 chr1:26231230-26232342 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 80;28 N alternative_acceptor chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 27;14 N cassette CUFF.78 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 2;103 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 15;11 K alternative_last_exon CUFF.104 chr1 - chr1:247320520-247322307,chr1:247320706-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247319200-247320519;chr1:247301447-247302059 chr1:247285248-247287173 61;7 N alternative_first_exon CUFF.85 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877526-200877677 3;70 K alternative_last_exon CUFF.103 chr1 + chr1:245246991-245250034,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245250546;chr1:245246991-245254795 chr1:245246991-245250061 chr1:245250547-245251139;chr1:245254796-245255091 chr1:245250062-245250268 158;27 K alternative_acceptor CUFF.62 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 10;16 N jcn_only_AD chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26233278 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 77;31 K jcn_only_AA CUFF.41,CUFF.88 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 29;15 N jcn_only_AA CUFF.24 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 183;7 K intron_retention CUFF.77 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 10;8 N alternative_donor CUFF.5 chr1 + chr1:11075704-11076900;chr1:11076312-11076900 chr1:11074023-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 0;87 N alternative_donor CUFF.60 chr1 - chr1:151158427-151162480;chr1:151158427-151162599 chr1:151158427-151167754 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 5;12 K cassette CUFF.40 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 114;22 N alternative_donor chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 16;0 K alternative_last_exon CUFF.100,CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110217369-110217706;chr1:110224431-110224456 chr1:110251103-110252171 15;6 N alternative_acceptor CUFF.10 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 39;29 N alternative_last_exon CUFF.88 chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230338883-230339036 chr1:230227336-230227780 4;40 K intron_retention CUFF.69 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 472;23 N alternative_acceptor CUFF.104 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 32;4 K jcn_only_AA CUFF.31 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 3;43 K intron_retention CUFF.67 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 chr1:156909340-156909702;chr1:156909999-156910217 26;3 N jcn_only_AD CUFF.24 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 183;4 N jcn_only_AD CUFF.2 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 105;12 N jcn_only_AD chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 16;10 N jcn_only_AD CUFF.78 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 108;43 N alternative_acceptor CUFF.40 chr1 + chr1:70820892-70832009;chr1:70820892-70832126 chr1:70820892-70831828 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 45;8 N alternative_last_exon chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2066701-2066786 chr1:2029786-2029840 10;4 K intron_retention CUFF.62 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 10;27 K alternative_last_exon CUFF.103 chr1 + chr1:245246991-245250034,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245250546;chr1:245246991-245250061 chr1:245246991-245254795 chr1:245250547-245251139;chr1:245250062-245250268 chr1:245254796-245255091 121;64 K alternative_last_exon CUFF.103 chr1 + chr1:245246991-245250034,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245254795;chr1:245246991-245250061 chr1:245246991-245250546 chr1:245254796-245255091;chr1:245250062-245250268 chr1:245250547-245251139 117;68 N jcn_only_AD CUFF.78 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 94;6 N jcn_only_AD CUFF.85 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860531-200864215 chr1:200860530-200860531 73;3 N jcn_only_AA CUFF.10 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 39;29 N alternative_donor CUFF.2 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 108;5 N alternative_first_exon CUFF.104 chr1 - chr1:153927643-153930820 chr1:153927643-153930621,chr1:153927643-153930536 chr1:153930821-153931091 chr1:153930622-153930750 7;46 K alternative_first_exon CUFF.67 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933646 chr1:156933312-156933386 20;17 N jcn_only_AA CUFF.49 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 10;30 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 9;3 N alternative_donor CUFF.17 chr1 - chr1:26231230-26231634;chr1:26231230-26233278;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26231539 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 45;5 K alternative_first_exon CUFF.91 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556052-211556267 chr1:211563906-211564012 33;13 N alternative_donor CUFF.85 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 3;1 N alternative_acceptor CUFF.26 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 82;5 K alternative_first_exon CUFF.62 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 10;27 N alternative_donor CUFF.96 chr1 + chr1:222835675-222837339 chr1:222836374-222837339 chr1:222835675-222836373 chr1:222835674-222835675 25;46 N jcn_only_AD CUFF.78 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 144;8 K intron_retention CUFF.60 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 56;38 K intron_retention CUFF.15 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 80;8 N jcn_only_AD CUFF.55 chr1 + chr1:145577754-145578061;chr1:145576103-145578061 chr1:145575405-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 147;7 N alternative_acceptor CUFF.40 chr1 + chr1:70820892-70831828;chr1:70820892-70832126 chr1:70820892-70832009 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 52;1 N intron_retention CUFF.35 chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 6;116 K cassette CUFF.35 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 80;32 N mutually_exclusive CUFF.24 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 23;9 N cassette CUFF.65 chr1 - chr1:156453223-156470277 chr1:156453223-156469223;chr1:156469353-156470277 chr1:156469224-156469352 22;10 N alternative_donor CUFF.5 chr1 + chr1:11076312-11076900;chr1:11074023-11076900 chr1:11075704-11076900 chr1:11074023-11075703;chr1:11075704-11076311 chr1:11074022-11074023;chr1:11075703-11075704 87;0 N alternative_acceptor CUFF.2 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 120;0 N jcn_only_AD CUFF.103 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 136;6 N alternative_donor CUFF.40 chr1 + chr1:70820795-70832126;chr1:70820892-70832126;chr1:70820791-70832126 chr1:70832012-70832126 chr1:70820791-70820794;chr1:70820795-70820891;chr1:70820892-70832011 chr1:70820790-70820791;chr1:70820794-70820795;chr1:70820891-70820892 196;1 K intron_retention chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 136;48 N jcn_only_AA CUFF.96 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838225-222838650 chr1:222838650-222838651 39;9 N jcn_only_AD CUFF.69,CUFF.7 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 714;6 N alternative_acceptor CUFF.10 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 31;37 K jcn_only_AD CUFF.104 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 5;6 N jcn_only_AA chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 2;65 K alternative_last_exon CUFF.104 chr1 - chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307,chr1:247320706-247322307 chr1:247301447-247302059;chr1:247285248-247287173 chr1:247319200-247320519 17;51 K jcn_only_AD CUFF.5 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 16;45 N cassette CUFF.103 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 27;77 K alternative_acceptor CUFF.84 chr1 + chr1:196918780-196920029 chr1:196918780-196919981 chr1:196919982-196920029 chr1:196920029-196920030 11;11 N alternative_acceptor CUFF.2 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 106;2 K intron_retention CUFF.5 chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 16;20 N alternative_acceptor CUFF.103 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 136;0 N jcn_only_AA chr1 - chr1:27436269-27480473 chr1:27440778-27480473 4;10 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 9;5 N alternative_donor CUFF.93 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188491-213188954 chr1:213188954-213188955 10;21 N alternative_donor CUFF.23 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 80;1 N jcn_only_AD CUFF.85 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 chr1:200870288-200875623 chr1:200870287-200870288 3;6 N alternative_first_exon CUFF.2 chr1 + chr1:2043257-2066700,chr1:2006573-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:2005369-2066700;chr1:2005715-2066700;chr1:2013900-2066700;chr1:2066526-2066700 chr1:1991031-2066700 chr1:2004879-2005368;chr1:2005376-2005714;chr1:2013665-2013899;chr1:2066277-2066525 chr1:1990980-1991030 314;24 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 4;1 K alternative_first_exon CUFF.104 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247322308-247322369 chr1:247313160-247313340 10;7 N cassette CUFF.5 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 7;82 N alternative_donor CUFF.55 chr1 + chr1:145575405-145578061;chr1:145576103-145578061 chr1:145577754-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 32;0 K alternative_first_exon CUFF.98 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224370803-224371120;chr1:224363421-224363649 chr1:224371312-224371533 59;69 N jcn_only_AD CUFF.60 chr1 - chr1:151158427-151162480;chr1:151158427-151167754 chr1:151158427-151162599 chr1:151162481-151162599;chr1:151162600-151167754 chr1:151162599-151162600;chr1:151167754-151167755 63;12 N jcn_only_AA CUFF.10 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 30;38 N alternative_donor chr1 - chr1:26231230-26231634;chr1:26231230-26231539;chr1:26231230-26232342;chr1:26231230-26232879 chr1:26231230-26233278 chr1:26231540-26231634;chr1:26231635-26232342;chr1:26232343-26232879;chr1:26232880-26233278 chr1:26231634-26231635;chr1:26232342-26232343;chr1:26232879-26232880;chr1:26233278-26233279 19;31 K coord_cassette CUFF.77 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 9;7 N alternative_acceptor CUFF.85,CUFF.96 chr1 + chr1:222835675-222837339 chr1:222835675-222836229 chr1:222836230-222837339 chr1:222837339-222837340 25;5 N jcn_only_AA CUFF.33 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883339-53904721 chr1:53883338-53883339 17;28 K alternative_first_exon CUFF.98 chr1 + chr1:224363650-224377278;chr1:224371534-224377278 chr1:224371121-224377278 chr1:224363421-224363649;chr1:224371312-224371533 chr1:224370803-224371120 88;40 N alternative_donor CUFF.78 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 94;1 N cassette CUFF.93 chr1 - chr1:213181809-213188954 chr1:213181809-213184549;chr1:213184801-213188954 chr1:213184550-213184800 5;41 K cassette CUFF.75 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 30;6 N alternative_donor CUFF.49 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 26;51 K alternative_acceptor CUFF.31 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 3;44 N jcn_only_AD CUFF.49 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 5;124 K cassette CUFF.42 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 49;15 N alternative_first_exon CUFF.2 chr1 + chr1:2043257-2066700,chr1:2006573-2066700,chr1:2065440-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2006819-2066700,chr1:2047750-2066700;chr1:2005369-2066700;chr1:2005715-2066700;chr1:2013900-2066700;chr1:1991031-2066700 chr1:2066526-2066700 chr1:2004879-2005368;chr1:2005376-2005714;chr1:2013665-2013899;chr1:1990980-1991030 chr1:2066277-2066525 246;92 N alternative_donor CUFF.35 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 38;4 K alternative_first_exon CUFF.14 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963206-22963353 2;7 N jcn_only_AA chr1 + chr1:70820892-70832009;chr1:70820892-70831828 chr1:70820892-70832126 chr1:70831829-70832009;chr1:70832010-70832126 chr1:70832009-70832010;chr1:70832126-70832127 26;44 N cassette CUFF.78 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 9;95 N jcn_only_AA CUFF.30 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 9;22 N alternative_donor CUFF.62 chr1 - chr1:153921121-153921590 chr1:153921121-153921309 chr1:153921310-153921590 chr1:153921590-153921591 23;1 N jcn_only_AD CUFF.2 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 108;9 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 10;104 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 43;7 N jcn_only_AD CUFF.41 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 15;2 K cassette CUFF.15 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 39;11 N alternative_donor CUFF.23 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 21;60 K cassette CUFF.20 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 16;95 K intron_retention CUFF.21 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 5;21 N alternative_donor CUFF.55 chr1 + chr1:145577754-145578061;chr1:145576103-145578061 chr1:145575405-145578061 chr1:145575405-145576102;chr1:145576103-145577753 chr1:145575404-145575405;chr1:145576102-145576103 25;7 N jcn_only_AD CUFF.57 chr1 + chr1:147563999-147566014 chr1:147564350-147566014 3;1 K cassette CUFF.101 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 4;3 N alternative_donor CUFF.23 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 61;20 N jcn_only_AA CUFF.2 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 120;3 K alternative_last_exon CUFF.49 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110217369-110217706;chr1:110251103-110252171 chr1:110224431-110224456 16;5 K jcn_only_AD CUFF.63 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 25;5 N alternative_acceptor CUFF.55 chr1 + chr1:145575405-145578061 chr1:145575405-145577651 chr1:145577652-145578061 chr1:145578061-145578062 7;2 N jcn_only_AA CUFF.55 chr1 + chr1:145575405-145578061 chr1:145575405-145577651 chr1:145577652-145578061 chr1:145578061-145578062 7;9 N jcn_only_AD CUFF.32 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 47;4 N cassette CUFF.62 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 3;68 K intron_retention chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 65;26 N alternative_acceptor CUFF.40,CUFF.49 chr1 + chr1:70820791-70832126 chr1:70820791-70831828 chr1:70831829-70832126 chr1:70832126-70832127 134;10 N jcn_only_AD chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 23;22 K cassette CUFF.65 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 18;9 K intron_retention chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 26;24 N cassette CUFF.2 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 32;259 N jcn_only_AA chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 14;64 K cassette CUFF.708 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 102;6 N jcn_only_AA CUFF.699 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 13;11 N alternative_donor CUFF.691 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 26;4 N intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 16;99 N jcn_only_AD CUFF.691 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 26;4 K cassette CUFF.703 chr9 + chr9:130988453-130996299 chr9:130988453-130994264;chr9:130994404-130996299 chr9:130994265-130994403 15;20 K alternative_first_exon CUFF.713 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780732-139793164 chr9:139780940-139780993;chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780437-139780731 61;51 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 9;108 K cassette CUFF.703 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 15;15 K jcn_only_AD CUFF.684 chr9 - chr9:104239452-104251395 chr9:104239452-104242952 6;3 K intron_retention CUFF.714 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 122;5 N jcn_only_AD CUFF.671 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 9;12 K cassette CUFF.693 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 6;10 K alternative_first_exon CUFF.684 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104295735-104295916 chr9:104294959-104295732 6;6 N alternative_donor CUFF.702 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 29;1 N jcn_only_AA CUFF.664 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 36;119 K alternative_last_exon CUFF.671,CUFF.697 chr9 + chr9:43853617-43861005;chr9:43853617-43861002 chr9:43853617-43854068 chr9:43861003-43861206 chr9:43854069-43854405 12;23 N cassette CUFF.688 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 15;75 K intron_retention CUFF.702 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 122;67 N cassette CUFF.707 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 7;30 N coord_cassette CUFF.702 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 32;94 K cassette CUFF.707 chr9 + chr9:133320383-133327610 chr9:133320383-133325658;chr9:133325721-133327610 chr9:133325659-133325720 3;7 N alternative_donor chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 10;19 N intron_retention CUFF.702 chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 31;28 K intron_retention CUFF.702 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 336;11 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 9;80 N jcn_only_AA CUFF.708 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 5;4 N jcn_only_AD CUFF.702,CUFF.708 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 67;19 N alternative_acceptor CUFF.668 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077397-35078340 chr9:35077396-35077397 14;10 N intron_retention chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 52;42 K alternative_last_exon CUFF.682 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000317-100000367 6;7 K cassette CUFF.679 chr9 - chr9:86924630-86928273 chr9:86924630-86925326;chr9:86925503-86928273 chr9:86925327-86925502 3;10 N jcn_only_AD chr9 - chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15225914 21;33 K alternative_acceptor CUFF.693 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 2;10 N alternative_donor CUFF.702 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 30;0 K cassette CUFF.681 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 4;21 K cassette CUFF.697 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 31;468 N jcn_only_AD CUFF.702 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 244;30 K intron_retention CUFF.664 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 51;5 N cassette CUFF.673 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 7;7 N jcn_only_AD CUFF.702 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 84;2 N alternative_donor CUFF.702 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 179;43 N intron_retention chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 17;10 K cassette CUFF.678 chr9 - chr9:86485548-86498727 chr9:86485548-86495211;chr9:86495410-86498727 chr9:86495212-86495409 chr9:86485434-86485547;chr9:86498728-86498933 7;21 N cassette CUFF.702 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 34;116 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 19;246 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 96;343 N alternative_acceptor CUFF.697 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 256;9 K alternative_donor CUFF.693,CUFF.702 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 9;5 N alternative_acceptor CUFF.705 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 119;15 N jcn_only_AD CUFF.668 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 14;15 K coord_cassette CUFF.697 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 179;108 N jcn_only_AA CUFF.705 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 155;17 N jcn_only_AA CUFF.705 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 20;245 K jcn_only_AD CUFF.707 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 47;11 N alternative_donor CUFF.702 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 93;9 N cassette CUFF.686 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 5;15 N jcn_only_AA CUFF.708 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730313-135736984 chr9:135730312-135730313 103;6 N jcn_only_AD 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 58;28 N jcn_only_AA CUFF.668 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077397-35078340 chr9:35077396-35077397 14;23 N alternative_donor 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 2;28 K jcn_only_AA CUFF.699 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 12;21 N jcn_only_AA CUFF.703 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 26;12 K jcn_only_AD CUFF.693,CUFF.702 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555165-123555426 chr9:123555426-123555427 9;3 K cassette CUFF.697 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 151;149 K cassette CUFF.713 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 87;24 N alternative_donor CUFF.702 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 192;30 N alternative_acceptor CUFF.678 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 chr9:86514576-86514719;chr9:86506234-86506416 12;0 N jcn_only_AD CUFF.664,CUFF.702 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 34;24 K intron_retention CUFF.693 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 2;10 N jcn_only_AA CUFF.702 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 32;132 K intron_retention CUFF.705 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 155;24 N cassette CUFF.670 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 9;10 N alternative_acceptor CUFF.713 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 15;80 N cassette CUFF.664 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 5;44 N jcn_only_AA CUFF.697 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 430;9 N alternative_donor CUFF.702 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 30;0 K alternative_first_exon CUFF.713 chr9 + chr9:139794973-139802521,chr9:139795129-139802521 chr9:139796849-139802521 chr9:139794874-139794972 chr9:139796604-139796848 93;21 K mutually_exclusive CUFF.703 chr9 + chr9:130985140-130988313,chr9:130988453-130996299 chr9:130985140-130986529,chr9:130986669-130996299 chr9:130988314-130988452 chr9:130986530-130986668 12;8 N jcn_only_AD CUFF.664,CUFF.702 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 41;16 N alternative_acceptor CUFF.688 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 7;1 N jcn_only_AD CUFF.702 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 54;31 N intron_retention CUFF.705 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 2;22 N jcn_only_AA CUFF.664 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 121;34 K alternative_first_exon CUFF.697 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125026790-125027217 chr9:125027840-125028059 219;37 K intron_retention CUFF.667 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 11;19 N alternative_donor CUFF.702,CUFF.708 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 29;1 N alternative_donor CUFF.664,CUFF.702 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 67;35 N jcn_only_AD CUFF.664 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357 chr9:15214248-15249915 51;3 N alternative_acceptor CUFF.705 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 16;118 N jcn_only_AD CUFF.702 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 79;6 N alternative_acceptor CUFF.671 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 9;0 N alternative_acceptor CUFF.705 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 133;1 K alternative_acceptor CUFF.688 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 37;4 K alternative_last_exon CUFF.669,CUFF.681 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600609 1;18 N jcn_only_AD CUFF.702 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 60;214 K alternative_last_exon CUFF.688 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 32;39 N alternative_donor CUFF.703 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 33;7 K cassette CUFF.714 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 77;109 N mutually_exclusive CUFF.702 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 19;2 N intron_retention CUFF.714 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 10;5 N jcn_only_AA CUFF.699 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 10;16 N jcn_only_AA CUFF.664 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 33;30 K intron_retention CUFF.693 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 9;4 N jcn_only_AD chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 10;31 K alternative_donor CUFF.713 chr9 + chr9:139794973-139802521 chr9:139795129-139802521 chr9:139794973-139795128 chr9:139794972-139794973 73;53 K intron_retention CUFF.668 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 89;11 N alternative_acceptor CUFF.664 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 51;3 K jcn_only_AA CUFF.688 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 37;9 N alternative_acceptor CUFF.703 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 chr9:131009216-131009653 chr9:131009653-131009654 26;4 N jcn_only_AA CUFF.678 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 chr9:86514576-86514719;chr9:86506234-86506416 12;11 N jcn_only_AA CUFF.671 chr9 + chr9:43885073-43890295 chr9:43885073-43887610 chr9:43887611-43890295 chr9:43890295-43890296 9;7 K intron_retention CUFF.699 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 39;23 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 44;58 K alternative_first_exon CUFF.707 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351655-133351776 33;12 N jcn_only_AA CUFF.681 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95591956-95599058 chr9:95599058-95599059 13;5 N jcn_only_AD CUFF.664 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915 chr9:15214248-15224357 47;6 K alternative_first_exon CUFF.713 chr9 + chr9:139784995-139793164;chr9:139780732-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139784801-139784994;chr9:139780437-139780731;chr9:139777119-139777162 chr9:139780940-139780993 72;40 N alternative_donor CUFF.702,CUFF.705 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 155;6 K intron_retention CUFF.705 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 101;20 N intron_retention chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 10;9 K cassette CUFF.709 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 9;4 K intron_retention CUFF.668 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 32;3 N alternative_acceptor CUFF.708 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 5;0 N alternative_acceptor CUFF.699 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 13;7 K intron_retention chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 143;39 K intron_retention CUFF.702 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 30;65 N alternative_acceptor CUFF.702 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 32;66 N cassette CUFF.678 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 chr9:86514576-86514719;chr9:86523367-86523567 7;17 N alternative_acceptor CUFF.697 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 255;10 N jcn_only_AD CUFF.702,CUFF.705 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486231-131486272 chr9:131486272-131486273 155;2 K cassette CUFF.688 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 4;80 K alternative_first_exon CUFF.713 chr9 + chr9:139780994-139793164;chr9:139784995-139793164;chr9:139780732-139793164 chr9:139777163-139793164 chr9:139780940-139780993;chr9:139784801-139784994;chr9:139780437-139780731 chr9:139777119-139777162 104;8 K jcn_only_AA CUFF.693 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 2;9 N jcn_only_AD CUFF.693 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 2;49 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667652 chr9:125655188-125655305 13;22 N alternative_acceptor chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 14;54 K intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 32;85 N jcn_only_AA CUFF.705 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 249;15 N alternative_acceptor CUFF.681 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95591956-95599058 chr9:95599058-95599059 13;0 K alternative_last_exon CUFF.696 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906610-124906657 35;32 N alternative_donor CUFF.702 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 73;149 N jcn_only_AD CUFF.702 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 244;30 K jcn_only_AD CUFF.702 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 163;39 N alternative_donor CUFF.664,CUFF.702 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 34;7 K jcn_only_AD CUFF.676,CUFF.683 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 15;5 N jcn_only_AD CUFF.664 chr9 - chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15224337 42;12 N jcn_only_AA CUFF.713 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 15;84 K alternative_last_exon CUFF.693 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514246-123515589 chr9:123526451-123527125 chr9:123533626-123533795 6;13 K intron_retention CUFF.668 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 22;10 N alternative_donor CUFF.671 chr9 + chr9:43885073-43890295 chr9:43887734-43890295 chr9:43885073-43887733 chr9:43885072-43885073 9;1 N alternative_acceptor CUFF.702 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 163;15 N jcn_only_AA chr9 + chr9:43861207-43884944 chr9:43861207-43875988 4;4 K jcn_only_AD CUFF.672 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 17;6 N cassette CUFF.697 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 45;123 N cassette CUFF.702 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 55;105 K intron_retention CUFF.707 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 3;5 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 12;66 N jcn_only_AA chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 25;31 K intron_retention CUFF.706 chr9 + chr9:131483550-131483705 chr9:131483549-131483550;chr9:131483705-131483706 7;20 K alternative_first_exon CUFF.713 chr9 + chr9:139780994-139793164;chr9:139780732-139793164;chr9:139777163-139793164 chr9:139784995-139793164 chr9:139780940-139780993;chr9:139780437-139780731;chr9:139777119-139777162 chr9:139784801-139784994 99;13 N jcn_only_AA CUFF.664 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 153;2 N jcn_only_AA CUFF.705 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 260;4 N cassette CUFF.702 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 8;113 N jcn_only_AA CUFF.664 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 51;3 K alternative_last_exon CUFF.703 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017522 chr9:131016288-131016441 24;4 K intron_retention CUFF.693 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 13;3 N jcn_only_AA CUFF.697 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 352;87 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 25;32 N coord_cassette CUFF.678 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 chr9:86474071-86474286 4;8 K cassette CUFF.710 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 12;49 K cassette CUFF.688 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 104;2 N jcn_only_AD CUFF.688 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 7;8 K alternative_donor CUFF.672 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 17;3 N alternative_acceptor CUFF.705 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 155;25 K alternative_first_exon CUFF.676 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161531 chr9:71160845-71161127 9;14 K cassette CUFF.685 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 9;2 K cassette CUFF.707 chr9 + chr9:133320383-133327610 chr9:133320383-133326988;chr9:133327431-133327610 chr9:133326989-133327430 3;6 N alternative_donor CUFF.668 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 chr9:35078138-35078601 chr9:35078601-35078602 14;9 N jcn_only_AD CUFF.702 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 48;9 K jcn_only_AD CUFF.713 chr9 + chr9:139794973-139802521 chr9:139795129-139802521 chr9:139794973-139795128 chr9:139794972-139794973 73;69 K jcn_only_AD CUFF.693 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 9;13 K jcn_only_AD CUFF.664,CUFF.699 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 19;36 N alternative_first_exon chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026790-125027217 chr9:125027840-125028059 4;30 K jcn_only_AD CUFF.699,CUFF.708 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 103;7 N cassette CUFF.697 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 179;90 K alternative_acceptor CUFF.699 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 12;12 N alternative_acceptor chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 25;146 K mutually_exclusive CUFF.685 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 4;2 K alternative_donor CUFF.693 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 9;8 N alternative_last_exon CUFF.664 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249028-15249685 2;323 N alternative_donor CUFF.688 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 7;1 N jcn_only_AA CUFF.702 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 163;37 N cassette CUFF.669 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 14;5 K mutually_exclusive CUFF.707 chr9 + chr9:133320383-133326988,chr9:133327431-133327610 chr9:133320383-133325658,chr9:133325721-133327610 chr9:133326989-133327430 chr9:133325659-133325720 6;7 K alternative_donor CUFF.707 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 47;10 N jcn_only_AD CUFF.703 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002276-131003326 chr9:131002275-131002276 33;19 N coord_cassette CUFF.671 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 6;2 N alternative_acceptor CUFF.708 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 chr9:135730313-135736984 chr9:135730312-135730313 103;0 N jcn_only_AA CUFF.688 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 7;6 K intron_retention CUFF.714 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 10;90 N alternative_acceptor CUFF.664 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 33;1 K intron_retention CUFF.702 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 214;45 N alternative_donor CUFF.660 chr8 + chr8:144375236-144377909 chr8:144377641-144377909 chr8:144375236-144377640 chr8:144375235-144375236 196;2 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 2;48 K intron_retention CUFF.618 chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 52;43 K alternative_last_exon CUFF.657 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143995379-143995461 chr8:143927811-143927844 4;41 K alternative_last_exon CUFF.638 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037079-99037966 chr8:99054873-99055003 19;65 N alternative_acceptor CUFF.660 chr8 + chr8:144375236-144377909 chr8:144375236-144377548 chr8:144377549-144377909 chr8:144377909-144377910 196;1 N jcn_only_AD CUFF.642 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 43;3 N jcn_only_AA CUFF.658 chr8 + chr8:144356973-144358172;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358066 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 185;72 K cassette CUFF.631 chr8 - chr8:80963864-80965516 chr8:80963864-80964840;chr8:80964911-80965516 chr8:80964841-80964910 307;71 N cassette CUFF.631 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 101;125 K alternative_first_exon CUFF.660 chr8 + chr8:144374455-144375141,chr8:144373938-144375141;chr8:144373029-144375141 chr8:144373781-144375141 chr8:144372915-144373028 chr8:144373337-144373780 27;113 K intron_retention CUFF.620 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 56;6 K alternative_first_exon CUFF.625 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888389-74888726 28;60 N alternative_acceptor CUFF.626,CUFF.645 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 chr8:124637927-124646553 chr8:124646553-124646554 546;0 K alternative_first_exon CUFF.657 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915663-143915705 chr8:143916159-143916284 5;27 N jcn_only_AA CUFF.658 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 114;9 N alternative_acceptor CUFF.658 chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357147 chr8:144356973-144357364 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 165;10 N mutually_exclusive CUFF.631 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 11;2 N alternative_last_exon chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74895018 chr8:74891314-74891406 2;25 K intron_retention CUFF.612 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 30;15 N jcn_only_AA CUFF.641 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 65;19 K intron_retention CUFF.614 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 34;13 K alternative_acceptor CUFF.615,CUFF.637 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 23;9 K jcn_only_AA CUFF.612 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 5;47 K alternative_first_exon CUFF.616 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605716 chr8:29592687-29592739 11;10 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 231;17 N alternative_donor CUFF.618,CUFF.631 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 67;0 N jcn_only_AA CUFF.614 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 9;59 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 7;231 K intron_retention CUFF.638 chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 73;37 K intron_retention CUFF.618 chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 35;69 N alternative_acceptor CUFF.658 chr8 + chr8:144356973-144358066;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358172 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 173;2 K cassette CUFF.652 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 11;14 K intron_retention CUFF.640 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 32;30 K alternative_last_exon CUFF.662 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824320 1;5 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 22;0 N jcn_only_AD CUFF.644 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 57;33 K jcn_only_AD CUFF.652 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 12;7 N alternative_acceptor CUFF.614 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 19;40 N jcn_only_AD chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 4;5 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 14;27 K cassette CUFF.620 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 7;33 K coord_cassette CUFF.641 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 5;8 N alternative_acceptor CUFF.607 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;2 N jcn_only_AD CUFF.618,CUFF.631 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30643948-30648712 chr8:30648712-30648713 67;6 N jcn_only_AD chr8 - chr8:56675588-56676195 chr8:56675588-56675980 3;7 N alternative_acceptor CUFF.624 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 18;0 K cassette CUFF.644 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 6;90 N alternative_donor CUFF.633 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 93;6 K intron_retention CUFF.631 chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 238;7 N jcn_only_AD CUFF.622 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 46;109 N intron_retention CUFF.638 chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 16;20 N jcn_only_AA chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75276220-75400912 chr8:75400912-75400913 10;77 N jcn_only_AD CUFF.625 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 43;4 N cassette CUFF.622 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 14;128 N alternative_donor CUFF.641 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 65;0 K cassette CUFF.612 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 4;41 K intron_retention CUFF.643 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 5;30 N alternative_donor CUFF.642 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 3;1 N alternative_acceptor CUFF.641 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 65;0 K jcn_only_AA CUFF.615,CUFF.637 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 23;20 K intron_retention CUFF.612 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 38;19 N alternative_first_exon chr8 - chr8:80976829-81032049,chr8:80976829-81070671,chr8:80976829-81083255,chr8:80976829-81083441,chr8:80976829-81130703;chr8:80976829-81083659 chr8:80976829-80992549 chr8:81083660-81083888 chr8:80992550-80993085 119;91 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 20;21 K alternative_first_exon CUFF.623 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224540 5;51 N alternative_donor CUFF.642 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 127;1 N alternative_donor CUFF.644 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 57;7 K alternative_first_exon CUFF.609 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 5;6 K intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 170;20 N jcn_only_AD CUFF.641 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 19;3 N alternative_donor CUFF.642 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 4;0 K alternative_last_exon CUFF.625 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74890991-74891257 chr8:74888540-74888726 21;32 K alternative_donor CUFF.652 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963158-126963429 chr8:126963429-126963430 12;9 K intron_retention CUFF.638 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 80;68 N alternative_donor CUFF.642 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 1;3 N jcn_only_AA chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 87;170 K cassette CUFF.635 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 4;24 N alternative_acceptor CUFF.614 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 52;7 K alternative_last_exon CUFF.615 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27530537 chr8:27516013-27517056 4;12 K alternative_first_exon CUFF.662 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821472-144821673 5;3 N intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 13;88 N jcn_only_AA CUFF.614 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 51;19 N cassette CUFF.622 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619 chr8:56656040-56656179 59;39 K intron_retention CUFF.620 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 14;3 K cassette CUFF.641 chr8 + chr8:106370866-106431371 chr8:106370866-106427102;chr8:106427235-106431371 chr8:106427103-106427234 34;6 K jcn_only_AA CUFF.624 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 29;2 N cassette CUFF.622 chr8 - chr8:56652778-56663522;chr8:56656180-56663522 chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522 chr8:56657620-56657680 61;61 K jcn_only_AA CUFF.616 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 13;12 N cassette CUFF.614 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 7;40 N alternative_donor CUFF.610 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 13;2 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 7;57 N alternative_donor CUFF.642 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 4;0 N alternative_acceptor CUFF.642 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 96;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 0;22 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 14;68 K cassette CUFF.638 chr8 - chr8:99055004-99057574 chr8:99055004-99057170;chr8:99057317-99057574 chr8:99057171-99057316 73;88 K alternative_acceptor CUFF.624 chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 29;1 N alternative_acceptor CUFF.637 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 14;0 K alternative_acceptor CUFF.620 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 56;11 K alternative_acceptor CUFF.612 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 5;26 N cassette CUFF.622 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 20;70 N jcn_only_AD CUFF.622 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 116;38 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 46;7 K jcn_only_AA CUFF.620 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 56;14 N jcn_only_AA CUFF.644 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 57;22 K alternative_first_exon CUFF.642 chr8 + chr8:107670314-107691437,chr8:107630412-107691437;chr8:107531368-107691437 chr8:107593480-107691437 chr8:107531171-107531367 chr8:107593125-107593479 38;94 N jcn_only_AD CUFF.641 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 65;4 N jcn_only_AD CUFF.642 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 39;7 K intron_retention CUFF.638 chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 85;49 K intron_retention CUFF.631 chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 101;7 K intron_retention CUFF.620 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 38;4 K intron_retention CUFF.618 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 37;20 N cassette CUFF.626 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 56;49 N alternative_donor CUFF.622 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 135;6 N alternative_acceptor CUFF.658 chr8 + chr8:144356973-144358172;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358066 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 138;37 K coord_cassette CUFF.622 chr8 - chr8:56652778-56663522 chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522 chr8:56656040-56656179;chr8:56657620-56657680 53;41 N jcn_only_AA CUFF.614 chr8 - chr8:23189522-23190913;chr8:23186100-23190913 chr8:23186079-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 30;40 N jcn_only_AA CUFF.658 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 61;63 N jcn_only_AA CUFF.642 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 96;23 N jcn_only_AA CUFF.658 chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357147 chr8:144356973-144357364 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 244;13 N jcn_only_AA CUFF.614 chr8 - chr8:23189522-23190913;chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 59;11 N intron_retention CUFF.622 chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 3;6 N jcn_only_AD CUFF.642 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 18;29 K alternative_first_exon CUFF.612,CUFF.636 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085482 chr8:96084945-96085148 22;3 K alternative_first_exon CUFF.644 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120790259-120790369 chr8:120779243-120779444 2;13 N cassette CUFF.631 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 229;83 K alternative_first_exon CUFF.618 chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 chr8:30669836-30670467 chr8:30667506-30667887 83;107 K intron_retention CUFF.620 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 44;8 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 5;22 N cassette CUFF.631 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 229;112 K intron_retention CUFF.631 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 218;2 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 26;2 N intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 72;15 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 10;53 K cassette CUFF.622 chr8 - chr8:56668971-56676494 chr8:56668971-56675193;chr8:56675588-56676494 chr8:56675194-56675587 47;143 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 10;61 N jcn_only_AD CUFF.622 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 147;7 K intron_retention CUFF.620 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 7;7 K alternative_first_exon CUFF.620 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008892 chr8:38006594-38006704 62;15 N alternative_donor CUFF.622 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 115;26 N jcn_only_AD CUFF.625 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 23;23 K jcn_only_AD CUFF.625 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 26;12 K cassette CUFF.614 chr8 - chr8:23225948-23261466 chr8:23225948-23239903;chr8:23240027-23261466 chr8:23239904-23240026 15;39 N jcn_only_AD CUFF.642 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 39;7 N alternative_acceptor chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75276220-75400912 chr8:75400912-75400913 10;0 N alternative_donor CUFF.622 chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 32;109 N jcn_only_AD CUFF.642 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 127;21 K mutually_exclusive CUFF.626 chr8 + chr8:75262814-75272371,chr8:75272546-75274118 chr8:75262814-75263508,chr8:75263702-75274118 chr8:75272372-75272545 chr8:75263509-75263701 32;46 N alternative_donor chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 4;33 N alternative_acceptor CUFF.644 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 57;6 N jcn_only_AA CUFF.637 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 14;2 N alternative_donor CUFF.641 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 19;0 N jcn_only_AA CUFF.626,CUFF.645 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 chr8:124637927-124646553 chr8:124646553-124646554 546;18 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 7;84 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 22;0 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 23;4 N jcn_only_AD CUFF.633 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192910-82193548 chr8:82192909-82192910 93;6 K jcn_only_AA CUFF.624 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 23;16 N mutually_exclusive CUFF.622 chr8 - chr8:56663717-56675193,chr8:56675588-56676494 chr8:56663717-56668802,chr8:56668971-56676494 chr8:56675194-56675587 chr8:56668803-56668970 25;52 N jcn_only_AA CUFF.658 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 72;52 N jcn_only_AD CUFF.625 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 27;20 K alternative_donor CUFF.625 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884857-74885228 chr8:74884856-74884857 26;18 N jcn_only_AD CUFF.610 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 13;5 N intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 12;7 K intron_retention CUFF.631 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 307;28 N jcn_only_AA CUFF.660 chr8 + chr8:144375236-144377909 chr8:144375236-144377548 chr8:144377549-144377909 chr8:144377909-144377910 196;2 N alternative_acceptor chr8 + chr8:144356973-144358172;chr8:144356973-144358066;chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 49;126 N jcn_only_AA CUFF.624 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 18;5 K alternative_last_exon CUFF.643 chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552502 chr8:118542962-118543066 8;5 K intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 74;32 K alternative_first_exon CUFF.643 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542531-118543066 21;62 K alternative_last_exon CUFF.631 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80947099-80950470 11;114 N cassette CUFF.658 chr8 + chr8:144349655-144356873 chr8:144349655-144351529;chr8:144351691-144356873 chr8:144351530-144351690 28;83 N cassette CUFF.642 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 4;29 K alternative_first_exon CUFF.656 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855370 25;28 N jcn_only_AA CUFF.658 chr8 + chr8:144356973-144358066;chr8:144356973-144357147;chr8:144356973-144357364 chr8:144356973-144358172 chr8:144357148-144357364;chr8:144357365-144358066;chr8:144358067-144358172 chr8:144357364-144357365;chr8:144358066-144358067;chr8:144358172-144358173 255;2 N jcn_only_AD CUFF.660 chr8 + chr8:144375236-144377909 chr8:144377641-144377909 chr8:144375236-144377640 chr8:144375235-144375236 196;2 N jcn_only_AA CUFF.607 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 11;5 N alternative_acceptor CUFF.614 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23186079-23186099;chr8:23186100-23189521 chr8:23186078-23186079;chr8:23186099-23186100 47;12 N cassette CUFF.626 chr8 + chr8:75262814-75272371 chr8:75262814-75263508;chr8:75263702-75272371 chr8:75263509-75263701 34;32