#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample K alternative_first_exon CUFF.337 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102569033 7;19 N jcn_only_AD CUFF.336 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 10;80 K alternative_acceptor CUFF.332 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 41;128 K alternative_first_exon CUFF.335,CUFF.336 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133441 chr13:101133234-101133359 29;95 N jcn_only_AA CUFF.328 chr13 + chr13:31192194-31195900 chr13:31192194-31195209 chr13:31195210-31195900 chr13:31195900-31195901 chr13:31191830-31192193;chr13:31195901-31196029 15;5 K alternative_first_exon CUFF.339 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 282;489 K intron_retention CUFF.339 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 9;79 K jcn_only_AA CUFF.335 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 66;35 K alternative_first_exon CUFF.327 chr13 - chr13:25525627-25542343 chr13:25525627-25541529 chr13:25542344-25542622 chr13:25541530-25541621 237;14 N jcn_only_AD CUFF.328 chr13 + chr13:31192194-31195900 chr13:31195377-31195900 chr13:31192194-31195376 chr13:31192193-31192194 chr13:31195901-31196029;chr13:31191830-31192193 15;5 N alternative_donor CUFF.339 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 18;4 N alternative_acceptor CUFF.322 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 chr13:21179174-21179244;chr13:21189932-21190018 65;19 K alternative_last_exon CUFF.322,CUFF.339 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511291 4;53 N alternative_donor CUFF.330 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 151;14 N alternative_first_exon CUFF.322 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 chr13:21148519-21148614 17;29 K alternative_acceptor CUFF.335 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 66;24 N jcn_only_AD CUFF.339 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525694-103527208 chr13:103525693-103525694 18;16 K jcn_only_AD CUFF.322 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 chr13:21228015-21228067 391;110 K jcn_only_AD CUFF.334,CUFF.335 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 8;40 K jcn_only_AA CUFF.322,CUFF.331 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 chr13:21205155-21205241 391;91 N jcn_only_AA CUFF.322 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 chr13:21179174-21179244;chr13:21189932-21190018 65;38 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 16;515 K alternative_donor CUFF.335 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 8;60 K cassette CUFF.322 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 chr13:21230504-21230569;chr13:21237637-21237743 92;271 K jcn_only_AA CUFF.327 chr13 - chr13:25525627-25542343 chr13:25541592-25542343 312;72 K jcn_only_AA CUFF.327 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 22;223 N alternative_donor CUFF.322 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 chr13:21189932-21190018;chr13:21179174-21179244 65;1 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 16;2 N jcn_only_AA chr13 + chr13:21141396-21148518 chr13:21141396-21141808 chr13:21140585-21141395 34;30 K alternative_last_exon CUFF.336 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131801-101132017 145;194 K jcn_only_AA CUFF.327 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 20;409 N alternative_donor CUFF.328 chr13 + chr13:31192194-31195900 chr13:31195377-31195900 chr13:31192194-31195376 chr13:31192193-31192194 chr13:31195901-31196029;chr13:31191830-31192193 15;0 K intron_retention CUFF.322 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 chr13:21237402-21237525;chr13:21237637-21237743 340;22 K alternative_donor CUFF.334,CUFF.335 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493142-78493531 chr13:78493531-78493532 8;41 N alternative_acceptor CUFF.326 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 11;84 K jcn_only_AA CUFF.334 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 21;21 N jcn_only_AD CUFF.330 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590452-33591397 chr13:33590451-33590452 151;12 N jcn_only_AD CUFF.322 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 chr13:21189932-21190018;chr13:21179174-21179244 65;29 K alternative_first_exon CUFF.335 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97647064 chr13:97646552-97646744 24;51 K jcn_only_AA CUFF.332 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 41;65 N jcn_only_AA CUFF.326 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 11;191 K jcn_only_AD CUFF.330 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 13;164 K jcn_only_AA CUFF.331 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 16;60 K alternative_acceptor CUFF.334 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 21;55 K jcn_only_AD CUFF.335 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 8;99 K alternative_donor CUFF.330 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 13;103 N alternative_acceptor CUFF.328 chr13 + chr13:31192194-31195900 chr13:31192194-31195209 chr13:31195210-31195900 chr13:31195900-31195901 chr13:31191830-31192193;chr13:31195901-31196029 15;1 N cassette CUFF.322 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 chr13:21157096-21157158;chr13:21165106-21165159 16;33 N alternative_donor CUFF.336 chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 10;99 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 chr13:21141809-21141924;chr13:21142024-21142136 12;18 K intron_retention CUFF.334 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 8;8 K alternative_acceptor CUFF.254,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 109;337 N jcn_only_AD CUFF.272 chr12 + chr12:21229504-21279041;chr12:21242864-21279041 chr12:21272562-21279041 222;86 N jcn_only_AD CUFF.309 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 145;11 N cassette CUFF.260 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 39;231 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 10;752 K jcn_only_AA CUFF.272 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 29;44 K intron_retention CUFF.273 chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 176;11 K intron_retention CUFF.293 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 73;105 K intron_retention chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 64;804 K jcn_only_AA CUFF.272 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 146;41 K cassette CUFF.293 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 44;213 K intron_retention CUFF.300 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 105;797 K coord_cassette CUFF.275 chr12 - chr12:25702481-25801427 chr12:25702481-25710172;chr12:25710304-25735355;chr12:25735398-25801427 chr12:25710173-25710303;chr12:25735356-25735397 55;29 K intron_retention CUFF.300 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 27;822 N alternative_donor CUFF.304 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 114;72 K alternative_last_exon CUFF.275 chr12 - chr12:25650729-25656671;chr12:25652931-25656671;chr12:25562365-25656671;chr12:25655973-25656671 chr12:25629395-25656671 chr12:25652825-25652930;chr12:25562235-25562364;chr12:25655851-25655972 chr12:25629051-25629394 130;91 K intron_retention CUFF.293 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 137;173 K cassette CUFF.293 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 41;266 K jcn_only_AA CUFF.315 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 60;4 K mutually_exclusive CUFF.273 chr12 - chr12:22666314-22672048,chr12:22672174-22676359 chr12:22666314-22670919,chr12:22671072-22676359 chr12:22672049-22672173 chr12:22670920-22671071 159;70 N alternative_acceptor CUFF.315 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 56;30 K coord_cassette CUFF.273 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22655672;chr12:22655739-22659644 chr12:22646157-22646271;chr12:22655673-22655738 33;146 K jcn_only_AA CUFF.314 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 40;44 K intron_retention CUFF.304 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 123;147 N jcn_only_AD CUFF.272 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 127;181 N alternative_first_exon CUFF.276 chr12 + chr12:26205930-26208168,chr12:26205536-26208168,chr12:26174452-26208168;chr12:26148064-26208168 chr12:26164755-26208168 chr12:26147970-26148063 chr12:26164654-26164754 149;24 N coord_cassette CUFF.297 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 31;18 N jcn_only_AD CUFF.251 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 188;56 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 693;94 N jcn_only_AD CUFF.315 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 119;28 K jcn_only_AD CUFF.313 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 98;73 N alternative_donor chr12 + chr12:26148064-26208211;chr12:26205536-26208211 chr12:26205930-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 78;5 N jcn_only_AD CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463 chr12:1640117-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 987;19 K alternative_first_exon CUFF.287 chr12 + chr12:53847068-53848509,chr12:53846161-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53837175-53837557 chr12:53846610-53846759 418;52 N alternative_acceptor CUFF.296 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 112;26 N cassette CUFF.315 chr12 - chr12:120204987-120210573 chr12:120204987-120208588;chr12:120208715-120210573 chr12:120208589-120208714 4;22 N alternative_acceptor CUFF.315 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 137;107 N alternative_donor CUFF.254 chr12 + chr12:1739393-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1726310-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 514;0 N coord_cassette CUFF.304 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 52;132 K cassette CUFF.280 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 80;26 K alternative_first_exon CUFF.257 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440446-4440483 chr12:4444648-4444817 54;59 N jcn_only_AD CUFF.314,CUFF.315 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 24;13 K intron_retention CUFF.306 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 846;21 K alternative_first_exon CUFF.278,CUFF.296 chr12 - chr12:56709027-56709690;chr12:56709027-56709604 chr12:56709027-56709500 chr12:56709605-56710088 chr12:56709501-56709594 488;22 K alternative_last_exon CUFF.276 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26222421 20;215 N coord_cassette CUFF.304 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 58;79 N jcn_only_AD chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 394;84 K intron_retention chr12 - chr12:48392215-48393701 chr12:48392214-48392215;chr12:48393701-48393702 43;34 N jcn_only_AA CUFF.296 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 185;50 N cassette CUFF.275 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 24;128 N alternative_donor CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1684008-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 514;0 N jcn_only_AD CUFF.279 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 90;46 K alternative_last_exon CUFF.267 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743303 chr12:11716635-11717337 123;41 K intron_retention CUFF.270 chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 674;270 N alternative_last_exon CUFF.260 chr12 - chr12:7108792-7125577;chr12:7091066-7125577 chr12:7092701-7125577 chr12:7090452-7091065 chr12:7092593-7092700 200;138 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173437 47;403 N cassette CUFF.304 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 216;292 K cassette CUFF.259 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665717-4668022 chr12:4665519-4665716 28;551 K alternative_last_exon CUFF.275 chr12 - chr12:25650729-25656671;chr12:25652931-25656671;chr12:25629395-25656671;chr12:25655973-25656671 chr12:25562365-25656671 chr12:25652825-25652930;chr12:25629051-25629394;chr12:25655851-25655972 chr12:25562235-25562364 166;55 N intron_retention chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 106;152 K cassette CUFF.296 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 31;498 K alternative_last_exon CUFF.275 chr12 - chr12:25650729-25656671;chr12:25562365-25656671;chr12:25629395-25656671;chr12:25655973-25656671 chr12:25652931-25656671 chr12:25562235-25562364;chr12:25629051-25629394;chr12:25655851-25655972 chr12:25652825-25652930 190;31 N alternative_donor CUFF.259 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 199;16 K cassette CUFF.251 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 66;349 K jcn_only_AD CUFF.315 chr12 - chr12:120158391-120287977 chr12:120158391-120159113 104;74 N alternative_donor CUFF.279 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 90;6 K cassette CUFF.273 chr12 - chr12:22659754-22666227 chr12:22659754-22665580;chr12:22665614-22666227 chr12:22665581-22665613 183;168 N alternative_donor CUFF.309 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102872265-102874096 chr12:102874096-102874097 145;3 N cassette CUFF.278 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 169;312 K intron_retention CUFF.300 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 51;468 N jcn_only_AD CUFF.272 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 268;41 N intron_retention CUFF.251 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 56;705 N jcn_only_AD chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 368;110 N jcn_only_AA CUFF.315 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 137;216 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 56;236 K alternative_last_exon CUFF.287 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53873190-53874372 chr12:53868653-53868751 598;100 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 26;129 K alternative_donor CUFF.306 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 350;656 N jcn_only_AA CUFF.307 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 597;25 K alternative_donor CUFF.313 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 98;296 N jcn_only_AD CUFF.260 chr12 - chr12:7092701-7125577 chr12:7092701-7108732 chr12:7108733-7125577 chr12:7125577-7125578 191;55 N cassette CUFF.260 chr12 - chr12:7090345-7090971 chr12:7090345-7090755;chr12:7090794-7090971 chr12:7090756-7090793 144;295 K jcn_only_AA CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 331;519 K cassette CUFF.284 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 68;12 N alternative_acceptor CUFF.280 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 23;24 K cassette CUFF.264 chr12 + chr12:9723489-9725598 chr12:9723489-9724056;chr12:9724170-9725598 chr12:9724057-9724169 30;22 K intron_retention CUFF.270 chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 263;241 N cassette CUFF.273 chr12 - chr12:22610096-22612425 chr12:22610096-22611417;chr12:22611520-22612425 chr12:22611418-22611519 38;181 K cassette CUFF.259 chr12 + chr12:4662314-4668022 chr12:4662314-4665596;chr12:4665669-4668022 chr12:4665597-4665668 28;312 K alternative_first_exon CUFF.296,CUFF.313 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113623083-113623284 chr12:113621528-113621662 47;24 K alternative_first_exon CUFF.257 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430371-4430469 chr12:4433831-4433929 65;16 K cassette CUFF.306 chr12 + chr12:72083485-72090215 chr12:72083485-72084118;chr12:72084211-72090215 chr12:72084119-72084210 94;44 N cassette CUFF.280 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 21;135 N alternative_acceptor CUFF.296 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 108;30 N mutually_exclusive CUFF.260 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 73;155 N coord_cassette CUFF.259 chr12 + chr12:4653078-4655474 chr12:4653078-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 30;62 N coord_cassette CUFF.280 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 21;177 K intron_retention CUFF.296 chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 16;253 K intron_retention CUFF.293 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 33;79 N cassette CUFF.259 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 956;172 K alternative_acceptor CUFF.315 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 60;13 N jcn_only_AD CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1640117-1740463 chr12:1639176-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 498;508 K alternative_acceptor CUFF.313 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 132;816 K cassette CUFF.273 chr12 - chr12:22646272-22659644 chr12:22646272-22655672;chr12:22655739-22659644 chr12:22655673-22655738 260;146 K cassette CUFF.280 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 18;82 N alternative_donor chr12 + chr12:26205536-26208211;chr12:26205930-26208211 chr12:26148064-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 5;78 K intron_retention CUFF.306 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 350;250 K coord_cassette CUFF.251 chr12 - chr12:347177-369016 chr12:347177-347336;chr12:347510-351779;chr12:351921-352844;chr12:352980-369016 chr12:347337-347509;chr12:351780-351920;chr12:352845-352979 363;97 N alternative_donor CUFF.270 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 1857;3 K intron_retention CUFF.260 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 520;207 N cassette CUFF.304 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 193;210 K coord_cassette CUFF.277 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 27;273 N jcn_only_AD chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 26;8 K intron_retention CUFF.286 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 190;66 K coord_cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092 chr12:49349478-49349543;chr12:49349881-49350318 66;24 K jcn_only_AD CUFF.306 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 350;846 K jcn_only_AD CUFF.319 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 18;371 N jcn_only_AD CUFF.304 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 114;300 N jcn_only_AA CUFF.315 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 56;55 K cassette CUFF.286 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 43;242 N jcn_only_AD chr12 + chr12:26205536-26208211;chr12:26205930-26208211 chr12:26148064-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 128;78 N jcn_only_AD chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 378;607 K intron_retention CUFF.315 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 448;46 K intron_retention CUFF.267 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 48;31 N alternative_acceptor CUFF.280 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 44;3 K jcn_only_AA CUFF.313 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 132;1644 K intron_retention CUFF.251 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 54;58 K intron_retention CUFF.293 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 356;85 N coord_cassette CUFF.259 chr12 + chr12:4653071-4655474 chr12:4653071-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 802;79 N alternative_acceptor chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 113;52 K cassette CUFF.251 chr12 - chr12:347177-351779 chr12:347177-347336;chr12:347510-351779 chr12:347337-347509 142;86 K cassette CUFF.285 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 38;303 N alternative_last_exon chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21279042-21279191 chr12:21245447-21245678 181;250 N jcn_only_AD CUFF.270 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 1857;8 K intron_retention CUFF.287 chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 55;226 N intron_retention CUFF.315 chr12 - chr12:120148426-120148853 chr12:120148425-120148426;chr12:120148853-120148854 28;64 K alternative_first_exon CUFF.259 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4657853-4658002 chr12:4659670-4659713 1199;12 K cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 66;134 N jcn_only_AD chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 194;284 K cassette CUFF.277 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 111;247 K alternative_acceptor CUFF.270 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 674;208 K cassette CUFF.251 chr12 - chr12:332401-333157 chr12:332401-332911;chr12:333012-333157 chr12:332912-333011 180;22 N jcn_only_AD CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1684008-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 989;17 K jcn_only_AD CUFF.300 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 51;1646 N jcn_only_AA CUFF.276 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 57;1460 K intron_retention CUFF.296 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 112;242 N alternative_donor CUFF.251 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 188;33 K intron_retention CUFF.278 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 369;8 K alternative_donor CUFF.319 chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 18;183 N alternative_donor CUFF.300 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 22;57 K intron_retention CUFF.312 chr12 + chr12:113595496-113596505 chr12:113595495-113595496;chr12:113596505-113596506 3;122 K intron_retention CUFF.307 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 19;6 N alternative_donor CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1640117-1740463 chr12:1639176-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 6;508 N cassette CUFF.304 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 179;424 K alternative_first_exon CUFF.283 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404237-52404346 84;221 K jcn_only_AA CUFF.254,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 109;591 K cassette CUFF.287 chr12 + chr12:53853188-53854798 chr12:53853188-53854114;chr12:53854210-53854798 chr12:53854115-53854209 655;97 K coord_cassette CUFF.251 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 363;119 K intron_retention CUFF.293 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 81;143 N alternative_acceptor CUFF.280 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 34;13 N jcn_only_AA CUFF.296 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 123;112 N alternative_first_exon chr12 - chr12:7091066-7125577 chr12:7091066-7091836 chr12:7125578-7125781 chr12:7091837-7091980 229;474 N alternative_donor CUFF.272 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 21;0 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 35;417 K cassette CUFF.293 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 420;114 N alternative_donor CUFF.254 chr12 + chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1739393-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 511;3 K cassette CUFF.293 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 203;83 K intron_retention CUFF.309 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 30;27 K alternative_first_exon CUFF.273 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22631247-22631411 chr12:22630196-22630254 260;53 N alternative_acceptor CUFF.307 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254194-77256739 chr12:77254193-77254194 597;11 K cassette CUFF.280 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 80;244 N cassette CUFF.259 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 977;767 N alternative_donor chr12 + chr12:26148064-26208211;chr12:26205930-26208211 chr12:26205536-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 83;0 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 15;50 N cassette CUFF.287 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 554;297 N cassette CUFF.259 chr12 + chr12:4653078-4655474;chr12:4653071-4655474;chr12:4653071-4654947 chr12:4653071-4654384,chr12:4653078-4654384;chr12:4654479-4655474,chr12:4654479-4654947 chr12:4654385-4654478 935;198 N cassette CUFF.275 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 13;170 N cassette CUFF.304 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 223;488 N alternative_donor CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1738538-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 514;0 K cassette CUFF.313 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 15;338 N jcn_only_AD CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1738538-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 990;15 N coord_cassette CUFF.300 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 10;28 K intron_retention CUFF.283 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 628;139 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 15;47 K alternative_last_exon CUFF.276,CUFF.287 chr12 + chr12:26148064-26208211;chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208169-26208379 chr12:26173078-26173437 84;87 N coord_cassette CUFF.304 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 16;77 N jcn_only_AA chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 113;52 K alternative_first_exon CUFF.276 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26147970-26148063 chr12:26164654-26164754 38;177 K cassette CUFF.270 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 94;1150 K cassette CUFF.259 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665669-4668022 chr12:4665519-4665668 28;767 N cassette CUFF.304 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 43;208 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 15;109 N alternative_acceptor CUFF.296 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 72;66 K intron_retention CUFF.296 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 705;40 K alternative_acceptor CUFF.293 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 73;130 N intron_retention chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 37;116 N jcn_only_AD CUFF.300 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 22;106 K alternative_acceptor CUFF.314 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 40;50 N jcn_only_AD CUFF.309 chr12 - chr12:102796345-102809481;chr12:102796345-102811732 chr12:102796345-102813286 130;20 K coord_cassette CUFF.272 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 26;188 K intron_retention CUFF.260 chr12 - chr12:7086908-7087502 chr12:7086907-7086908;chr12:7087502-7087503 157;63 N alternative_donor chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 97;4 K alternative_acceptor CUFF.319 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 97;254 N jcn_only_AD chr12 - chr12:102796345-102809481;chr12:102796345-102813286 chr12:102796345-102811732 91;59 K intron_retention CUFF.300 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 18;22 K cassette CUFF.287 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 179;757 K intron_retention CUFF.273 chr12 - chr12:22697114-22697253 chr12:22697113-22697114;chr12:22697253-22697254 187;60 N cassette CUFF.300 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 10;298 N jcn_only_AA CUFF.280 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 84;255 K alternative_first_exon CUFF.311 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834567-111834677 30;48 K jcn_only_AA CUFF.251 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 840;197 N alternative_donor CUFF.254 chr12 + chr12:1739393-1740463;chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463 chr12:1640117-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 511;3 K alternative_acceptor CUFF.259,CUFF.272 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 24;610 K intron_retention CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 109;80 N jcn_only_AA CUFF.296 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 178;56 K cassette CUFF.286 chr12 - chr12:53471046-53473094 chr12:53471046-53471844;chr12:53471956-53473094 chr12:53471845-53471955 228;16 K coord_cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 66;195 N jcn_only_AA CUFF.275 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 47;112 N jcn_only_AD CUFF.272 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011506-21172314 chr12:21011505-21011506 21;5 N jcn_only_AD CUFF.259 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 199;32 K intron_retention CUFF.270 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 1014;104 N jcn_only_AD CUFF.279,CUFF.307 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 37;2 K intron_retention CUFF.270 chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 1320;127 N alternative_acceptor CUFF.272 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 593;28 K intron_retention CUFF.319 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 97;177 N intron_retention chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 144;135 K intron_retention CUFF.296 chr12 - chr12:56708751-56709604 chr12:56708750-56708751;chr12:56709604-56709605 31;30 N jcn_only_AA CUFF.280 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 314;24 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 73;122 K intron_retention CUFF.283 chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 297;65 N alternative_donor chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 17;84 K cassette CUFF.285 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 231;77 K intron_retention CUFF.300 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 491;228 N mutually_exclusive CUFF.287 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 420;43 K intron_retention CUFF.283 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 379;109 N alternative_donor chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 378;324 N cassette CUFF.300 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 575;38 K jcn_only_AA CUFF.259,CUFF.272 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 24;934 N alternative_donor CUFF.260 chr12 - chr12:7092701-7125577 chr12:7092701-7108732 chr12:7108733-7125577 chr12:7125577-7125578 191;1 K coord_cassette CUFF.287 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 109;257 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 8;24 N cassette CUFF.304 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 531;201 N alternative_last_exon CUFF.279 chr12 - chr12:48394878-48398019,chr12:48396825-48398019;chr12:48392215-48398019 chr12:48393909-48398019 chr12:48392198-48392214 chr12:48393484-48393908 69;82 K intron_retention chr12 - chr12:56709027-56709604 chr12:56709026-56709027;chr12:56709604-56709605 479;7 N jcn_only_AA CUFF.296 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 218;16 K intron_retention CUFF.293 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 407;58 K jcn_only_AD CUFF.259 chr12 + chr12:4662256-4668022;chr12:4665717-4668022 chr12:4665669-4668022 253;718 N alternative_donor chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 26;123 N coord_cassette CUFF.259 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 143;119 K jcn_only_AA CUFF.319 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 97;207 K intron_retention ENSG00000161798.6 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 162;43 K cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 66;151 K alternative_first_exon CUFF.291 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393916-54394510 chr12:54396214-54397123 92;99 K alternative_first_exon CUFF.276 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26111962-26112081 chr12:26126681-26126820 72;47 K coord_cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49349981-49351092 chr12:49349478-49349543;chr12:49349881-49349980 66;24 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 61;526 N alternative_donor CUFF.315 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 43;2 N alternative_acceptor CUFF.296 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 122;16 N cassette CUFF.268 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 6;34 K alternative_acceptor CUFF.251 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 840;102 N alternative_donor CUFF.279 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 159;5 N coord_cassette CUFF.304 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 59;82 K intron_retention CUFF.285 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 253;82 K intron_retention CUFF.287 chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 591;82 N jcn_only_AD CUFF.254 chr12 + chr12:1739393-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1726310-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 966;40 K alternative_last_exon CUFF.272 chr12 + chr12:21229504-21272537;chr12:21229504-21279051,chr12:21229504-21279041 chr12:21229504-21242841 chr12:21279052-21279191 chr12:21242842-21243040 226;257 K alternative_acceptor CUFF.300 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 491;689 K cassette CUFF.300 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 57;1348 N jcn_only_AD CUFF.315 chr12 - chr12:120221856-120222763 chr12:120221856-120221992 chr12:120221993-120222763 chr12:120222763-120222764 43;5 K jcn_only_AD CUFF.260,CUFF.313 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 27;56 K intron_retention CUFF.307 chr12 - chr12:77254194-77256955 chr12:77254193-77254194;chr12:77256955-77256956 597;5 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 50;132 N intron_retention chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 15;92 K alternative_donor CUFF.300 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 51;1077 N intron_retention CUFF.304 chr12 + chr12:69203073-69218142 chr12:69203072-69203073;chr12:69218142-69218143 62;14 K alternative_last_exon CUFF.275 chr12 - chr12:25650729-25656671;chr12:25652931-25656671;chr12:25562365-25656671;chr12:25629395-25656671 chr12:25655973-25656671 chr12:25652825-25652930;chr12:25562235-25562364;chr12:25629051-25629394 chr12:25655851-25655972 190;31 K alternative_acceptor CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 331;255 N alternative_last_exon CUFF.309 chr12 - chr12:102796345-102813286 chr12:102811782-102813286 chr12:102789645-102796344 chr12:102811723-102811781 6;119 K intron_retention CUFF.256 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 87;186 N intron_retention chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 575;821 K jcn_only_AD CUFF.283 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 379;297 K jcn_only_AA CUFF.270 chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 674;263 N jcn_only_AD CUFF.254 chr12 + chr12:1726310-1740463;chr12:1684008-1740463;chr12:1738538-1740463;chr12:1639176-1740463;chr12:1640117-1740463 chr12:1739393-1740463 chr12:1639176-1640116;chr12:1640117-1684007;chr12:1684008-1726309;chr12:1726310-1738537;chr12:1738538-1739392 chr12:1639175-1639176;chr12:1640116-1640117;chr12:1684007-1684008;chr12:1726309-1726310;chr12:1738537-1738538 599;406 K alternative_first_exon CUFF.307 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256956-77257124 chr12:77256590-77256615 586;16 K jcn_only_AD CUFF.259 chr12 + chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662256-4668022 894;77 N alternative_acceptor CUFF.280 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 40;7 K jcn_only_AD CUFF.259 chr12 + chr12:4662256-4668022;chr12:4665669-4668022 chr12:4665717-4668022 795;176 N jcn_only_AD CUFF.279 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 159;3 K intron_retention CUFF.307 chr12 - chr12:77257125-77259928 chr12:77257124-77257125;chr12:77259928-77259929 498;61 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 120;86 N alternative_donor CUFF.315 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 119;3 N jcn_only_AA CUFF.272 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 593;35 N coord_cassette CUFF.280 chr12 - chr12:49334972-49350767 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767 chr12:49349478-49349543;chr12:49349881-49350133 21;23 N cassette CUFF.287 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 120;582 K intron_retention CUFF.300 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 1646;56 K alternative_donor CUFF.281 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 230;202 K cassette CUFF.273 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 33;327 N jcn_only_AA CUFF.270 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1748850-1754959 chr12:1754959-1754960 84;276 N jcn_only_AD CUFF.309 chr12 - chr12:102796345-102811732;chr12:102796345-102813286 chr12:102796345-102809481 79;71 K intron_retention CUFF.287 chr12 + chr12:53849155-53849244 chr12:53849154-53849155;chr12:53849244-53849245 513;182 K alternative_first_exon CUFF.278 chr12 - chr12:48276558-48293619,chr12:48276558-48298346;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48336646-48336831 chr12:48298738-48298894 69;252 N alternative_acceptor CUFF.270 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1748850-1754959 chr12:1754959-1754960 84;28 N alternative_first_exon CUFF.297 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853828-57853984 chr12:57854284-57854338 19;13 K intron_retention CUFF.259 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 24;281 K intron_retention CUFF.292 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 51;24 N cassette CUFF.273 chr12 - chr12:22610096-22622642 chr12:22610096-22612425;chr12:22612477-22622642 chr12:22612426-22612476 62;154 N alternative_donor CUFF.314,CUFF.315 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 24;8 K jcn_only_AA CUFF.300 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 491;1091 N cassette CUFF.315 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 95;134 K alternative_first_exon CUFF.278,CUFF.313 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272751-48272898 chr12:48272599-48272743 463;127 K intron_retention CUFF.315 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 16;49 N cassette CUFF.287 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 158;698 K coord_cassette CUFF.280 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 66;169 N jcn_only_AD chr12 + chr12:26148064-26208211;chr12:26205930-26208211 chr12:26205536-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 191;15 N cassette CUFF.270 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 23;618 N jcn_only_AA CUFF.280 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 293;46 K coord_cassette CUFF.272 chr12 + chr12:21229504-21294447 chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279052-21279191;chr12:21284057-21284170 26;255 K intron_retention CUFF.287 chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 31;229 K intron_retention CUFF.286 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 53;144 K jcn_only_AA CUFF.293 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 73;81 K jcn_only_AD CUFF.281 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 230;170 N jcn_only_AD chr12 + chr12:26148064-26208211;chr12:26205536-26208211 chr12:26205930-26208211 chr12:26148064-26205535;chr12:26205536-26205929 chr12:26148063-26148064;chr12:26205535-26205536 93;113 K alternative_acceptor CUFF.272 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 146;32 N alternative_acceptor CUFF.276 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 57;232 K intron_retention CUFF.251 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 363;84 K alternative_donor CUFF.260,CUFF.313 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 27;34 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 76;804 K alternative_last_exon CUFF.314 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633246-113633694 chr12:113637846-113638618 37;100 N alternative_first_exon chr12 - chr12:48392215-48398019 chr12:48392215-48393701 chr12:48398020-48398313 chr12:48393702-48393908 22;76 K intron_retention CUFF.293 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 135;202 K intron_retention CUFF.266 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 240;66 N cassette CUFF.304 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 484;650 K alternative_donor CUFF.283 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 379;169 N alternative_donor CUFF.279,CUFF.307 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48382209-48383010 chr12:48383010-48383011 37;0 K intron_retention chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 131;160 N jcn_only_AA CUFF.280 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 325;14 K intron_retention CUFF.293 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 553;84 N intron_retention chr12 + chr12:72080101-72080439 chr12:72080100-72080101;chr12:72080439-72080440 23;20 N coord_cassette CUFF.297 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 115;18 N alternative_donor chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 chr12:1742072-1749142;chr12:1749143-1754227 chr12:1742071-1742072;chr12:1749142-1749143 88;13 N jcn_only_AA CUFF.251 chr12 - chr12:332401-344255 chr12:336835-344255 27;144 K cassette CUFF.243 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 182;301 K intron_retention CUFF.180 chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 38;92 N alternative_donor CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 164;992 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 113;68 K intron_retention CUFF.183 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 78;164 N alternative_acceptor CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 112;372 K jcn_only_AD CUFF.178 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 271;59 N alternative_acceptor CUFF.198 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 219;5 N jcn_only_AD CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 112;30 K jcn_only_AD CUFF.231 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 19;169 K intron_retention CUFF.213 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 64;31 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 126;435 K intron_retention CUFF.208 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 375;439 N jcn_only_AD CUFF.187 chr11 - chr11:10819429-10823840 chr11:10819429-10820538 82;434 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 68;119 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 169;168 K intron_retention chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 101;19 N alternative_donor CUFF.222 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 333;14 N cassette CUFF.198 chr11 + chr11:36398255-36422546 chr11:36398255-36415395;chr11:36415562-36422546 chr11:36415396-36415561 235;281 N alternative_acceptor CUFF.226 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 101;22 N intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 14;258 N alternative_acceptor CUFF.191 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 261;14 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 14;103 K intron_retention CUFF.235 chr11 + chr11:118402587-118403631 chr11:118402586-118402587;chr11:118403631-118403632 29;152 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 17;3 K jcn_only_AD CUFF.203 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 1135;109 N intron_retention chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 62;343 N cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 24;331 K intron_retention CUFF.178 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 171;149 N mutually_exclusive CUFF.176 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 61;221 K cassette CUFF.176 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 63;562 K intron_retention CUFF.210 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 1501;32 K coord_cassette CUFF.176 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 274;31 N mutually_exclusive CUFF.228 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 49;182 N jcn_only_AD CUFF.247 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 3466;87 N alternative_first_exon chr11 - chr11:124767158-124767483;chr11:124767158-124768293 chr11:124767158-124767621 chr11:124768294-124768448 chr11:124767622-124768177 136;203 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 36;30 K intron_retention CUFF.235 chr11 + chr11:118403923-118404571 chr11:118403922-118403923;chr11:118404571-118404572 536;14 K alternative_last_exon CUFF.218 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 10;62 N alternative_acceptor CUFF.198 chr11 + chr11:36467991-36483891 chr11:36467991-36472758 chr11:36472759-36483891 chr11:36483891-36483892 186;4 N jcn_only_AA CUFF.249 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 393;13 N alternative_acceptor CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 246;913 K intron_retention CUFF.237 chr11 - chr11:118923142-118923348 chr11:118923141-118923142;chr11:118923348-118923349 112;26 K intron_retention CUFF.177 chr11 - chr11:556376-556491 chr11:556375-556376;chr11:556491-556492 9;44 K cassette CUFF.226 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 126;84 N alternative_donor CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 135;52 K coord_cassette CUFF.185 chr11 + chr11:3424187-3427728 chr11:3424187-3424822;chr11:3424883-3426083;chr11:3426194-3427728 chr11:3424823-3424882;chr11:3426084-3426193 95;107 N alternative_acceptor CUFF.243 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 461;51 N jcn_only_AA CUFF.235 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 686;79 K coord_cassette CUFF.237 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118926990;chr11:118927130-118927785 chr11:118926782-118926879;chr11:118926991-118927129 47;867 K intron_retention CUFF.231 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 19;104 K intron_retention CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 565;143 N alternative_acceptor CUFF.249 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 82;449 N intron_retention chr11 + chr11:118403177-118404134 chr11:118403176-118403177;chr11:118404134-118404135 134;115 K jcn_only_AD CUFF.236 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 471;42 N alternative_acceptor CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 565;55 K intron_retention CUFF.177 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 12;60 K intron_retention CUFF.237 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 88;52 N alternative_acceptor CUFF.178 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 59;30 K intron_retention chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 21;335 N jcn_only_AD CUFF.179 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 137;44 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 24;7 K intron_retention CUFF.206 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 66;13 N intron_retention CUFF.235 chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 231;608 K alternative_first_exon CUFF.226 chr11 - chr11:104915386-104972134;chr11:104915386-104916017 chr11:104915386-104915917 chr11:104916018-104916081 chr11:104915918-104915993 81;10 N alternative_first_exon CUFF.219 chr11 + chr11:74630071-74630577;chr11:74624828-74630577 chr11:74622471-74630577 chr11:74629823-74630070;chr11:74624740-74624827 chr11:74622307-74622470 70;49 N alternative_last_exon CUFF.190 chr11 - chr11:6639008-6640426 chr11:6640147-6640426 chr11:6638857-6639007 chr11:6639681-6640146 93;396 K intron_retention chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 460;753 K alternative_first_exon CUFF.179 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785278 chr11:1783363-1783459 22;33 K intron_retention CUFF.230 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 48;36 N coord_cassette CUFF.235 chr11 + chr11:118403177-118404571 chr11:118403177-118403804;chr11:118403923-118404134;chr11:118404267-118404571 chr11:118403805-118403922;chr11:118404135-118404266 61;392 K intron_retention ENSG00000134817.9 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 270;9 K alternative_donor CUFF.235 chr11 + chr11:118402242-118402489 chr11:118402317-118402489 chr11:118402242-118402316 chr11:118402241-118402242 79;138 N alternative_acceptor CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 468;11 N cassette CUFF.214 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 31;981 K jcn_only_AA CUFF.207 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 chr11:63669670-63669802;chr11:63670076-63670254 264;113 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 283;157 K intron_retention CUFF.235 chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 133;923 K intron_retention CUFF.243 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 245;16 N jcn_only_AA CUFF.249 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 314;91 N cassette CUFF.228 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 197;36 K cassette CUFF.185 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 160;54 K alternative_donor CUFF.178 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 171;106 N alternative_donor CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 1861;30 N intron_retention chr11 + chr11:6640087-6640597 chr11:6640086-6640087;chr11:6640597-6640598 2;311 K intron_retention CUFF.243 chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 244;165 N jcn_only_AD CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 99;21 K jcn_only_AA CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 369;958 N cassette CUFF.224 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 57;409 N cassette CUFF.191 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 103;27 K jcn_only_AA CUFF.178 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 222;107 K intron_retention CUFF.222 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 107;242 K alternative_first_exon CUFF.187 chr11 - chr11:5701469-5705215,chr11:5701469-5706097;chr11:5701469-5958630 chr11:5701469-5706245 chr11:5958631-5958735 chr11:5706246-5706377 129;33 N alternative_donor CUFF.247 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 404;87 N alternative_donor CUFF.214 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 182;9 K intron_retention CUFF.187 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 205;35 N jcn_only_AA CUFF.192 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 32;32 N jcn_only_AA CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 969;33 N jcn_only_AD chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 112;69 N jcn_only_AD CUFF.180,CUFF.237 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 346;5 N cassette CUFF.176 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 230;321 K intron_retention CUFF.243 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 308;12 K intron_retention CUFF.207 chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 chr11:63670533-63670604;chr11:63671570-63671619 82;81 N jcn_only_AD CUFF.243 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 43;308 K intron_retention CUFF.231 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 323;23 K jcn_only_AD CUFF.183 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 49;234 N alternative_acceptor CUFF.243 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 72;440 K intron_retention CUFF.189 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 485;53 N jcn_only_AD CUFF.222 chr11 - chr11:94705358-94706452;chr11:94705358-94706661 chr11:94705358-94706436 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 402;24 N alternative_donor CUFF.198 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 1;26 N jcn_only_AA CUFF.178 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 59;26 N cassette CUFF.193 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 32;46 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 1774;177 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 21;74 N cassette CUFF.225 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 19;126 N cassette CUFF.180 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 139;246 N intron_retention chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 30;38 K intron_retention CUFF.247 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 399;41 N alternative_first_exon CUFF.203 chr11 + chr11:61583899-61605249,chr11:61594904-61605249;chr11:61584169-61605249 chr11:61596070-61605249 chr11:61584071-61584168 chr11:61595967-61596069 209;28 K jcn_only_AD CUFF.176 chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 120;1038 N alternative_last_exon chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74630578-74631066 chr11:74624740-74624827 97;58 K alternative_first_exon CUFF.225 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102962979 chr11:102959956-102960047 248;239 K cassette CUFF.178 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 203;112 N jcn_only_AD CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 1861;57 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 126;403 K alternative_first_exon CUFF.197 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264110 20;51 N jcn_only_AA CUFF.177 chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 9;17 K alternative_acceptor CUFF.180 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 460;50 K cassette CUFF.225 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 372;384 K intron_retention chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 74;54 K intron_retention CUFF.210 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 1593;142 N jcn_only_AA CUFF.249 chr11 - chr11:124766952-124767621;chr11:124767529-124767621 chr11:124767158-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 104;302 K intron_retention chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 241;98 N jcn_only_AA CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 61;74 K intron_retention CUFF.193 chr11 - chr11:10823322-10823595 chr11:10823321-10823322;chr11:10823595-10823596 37;34 N jcn_only_AA CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 1955;159 N alternative_acceptor CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 303;464 N alternative_acceptor CUFF.235 chr11 + chr11:118405071-118405221;chr11:118405071-118406222 chr11:118405071-118416833 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 126;79 N cassette CUFF.181 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 43;50 K intron_retention CUFF.210 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 1590;56 N alternative_first_exon CUFF.181 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466613-2466714 chr11:2483035-2483207 21;165 N intron_retention chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 29;157 K intron_retention CUFF.183 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 234;17 N jcn_only_AA CUFF.198 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 163;657 N alternative_donor chr11 - chr11:102960048-102962515;chr11:102960048-102962244 chr11:102960048-102962412 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 102;64 N alternative_donor CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 165;22 K alternative_first_exon CUFF.189 chr11 - chr11:6622006-6624633 chr11:6622006-6622155 chr11:6624634-6624915 chr11:6622156-6622285 450;47 N alternative_acceptor CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 199;6 N jcn_only_AD CUFF.210 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 1593;111 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 61;195 K intron_retention CUFF.176 chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 30;63 K intron_retention CUFF.190 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 353;144 N jcn_only_AD CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829291 chr11:10828929-10829095 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 87;33 N cassette CUFF.235 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 195;1544 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 169;78 N alternative_donor CUFF.247 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 463;28 N alternative_acceptor CUFF.192 chr11 - chr11:8941998-8947009 chr11:8943063-8947009 chr11:8941998-8943062 chr11:8941997-8941998 32;9 K intron_retention CUFF.178 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 271;67 N alternative_donor CUFF.243 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 43;203 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 29;620 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404134 chr11:118401950-118402489,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402490-118403176 145;39 K coord_cassette CUFF.221 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 7;24 K alternative_first_exon CUFF.189,CUFF.213 chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67772277-67772541 chr11:67771418-67771625 330;595 K intron_retention CUFF.243 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 205;27 K intron_retention CUFF.187 chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 205;10 K cassette CUFF.198 chr11 + chr11:36424929-36453402 chr11:36424929-36440804;chr11:36440854-36453402 chr11:36440805-36440853 52;266 K intron_retention CUFF.243 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 440;36 K intron_retention CUFF.237 chr11 - chr11:118923542-118924832 chr11:118923541-118923542;chr11:118924832-118924833 103;25 N intron_retention CUFF.231 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 32;170 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 170;1195 N cassette CUFF.207 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 chr11:63670533-63670630;chr11:63672258-63672515 111;232 N cassette CUFF.193 chr11 - chr11:10821304-10821790 chr11:10821304-10821636;chr11:10821716-10821790 chr11:10821637-10821715 174;40 K intron_retention CUFF.243 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 62;39 N jcn_only_AA CUFF.231 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 19;32 K intron_retention CUFF.180 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 460;71 K jcn_only_AA CUFF.183 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 32;281 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 21;52 N coord_cassette CUFF.235 chr11 + chr11:118403177-118404571 chr11:118403177-118403631;chr11:118403923-118404134;chr11:118404267-118404571 chr11:118403632-118403922;chr11:118404135-118404266 61;719 N jcn_only_AD CUFF.222 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 152;275 K intron_retention CUFF.206 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 234;26 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 82;134 K cassette CUFF.221 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 7;48 N alternative_donor CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 94;97 N alternative_acceptor CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 969;36 N alternative_acceptor chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 7;217 N alternative_donor chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 13;7 N jcn_only_AD CUFF.181 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 36;95 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 29;431 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615903 chr11:8476291-8476379 33;223 K intron_retention CUFF.187 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 95;154 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 18;22 N alternative_acceptor CUFF.231 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 19;14 N alternative_acceptor CUFF.198,CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 1393;50 N jcn_only_AD CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 231;860 N alternative_donor CUFF.198 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 27;0 N intron_retention chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 230;173 N intron_retention chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 111;220 N intron_retention chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 8;24 K intron_retention CUFF.195 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 20;259 K mutually_exclusive CUFF.221 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 75;30 N alternative_first_exon CUFF.208 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:63999016-63999436 chr11:64000176-64000337 66;778 K intron_retention CUFF.249 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 87;11 N alternative_donor CUFF.214 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 106;85 N alternative_acceptor CUFF.247 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 1093;66 K intron_retention CUFF.235 chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 105;258 N jcn_only_AD CUFF.203 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 30;98 N alternative_donor chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 115;376 K intron_retention CUFF.222 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 68;47 K alternative_last_exon CUFF.179 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775033-1775368 chr11:1775404-1775485 76;17 K intron_retention CUFF.245 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 193;18 K intron_retention chr11 + chr11:118401950-118402492 chr11:118401949-118401950;chr11:118402492-118402493 1059;152 N jcn_only_AA CUFF.247 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 2020;94 N alternative_first_exon CUFF.249 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768448 chr11:124767622-124768177 59;9 N alternative_acceptor CUFF.203 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 416;26 N jcn_only_AD CUFF.198 chr11 + chr11:36397709-36398178 chr11:36397788-36398178 chr11:36397709-36397787 chr11:36397708-36397709 44;34 N intron_retention CUFF.235 chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 157;952 N alternative_acceptor CUFF.249 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 72;481 N jcn_only_AD CUFF.214 chr11 + chr11:67776163-67782766;chr11:67777863-67782766 chr11:67782546-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 945;146 K jcn_only_AA CUFF.177 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 47;32 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678493 68;340 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 43;21 N jcn_only_AA CUFF.198,CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 1393;101 N jcn_only_AD CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818400-67819908 chr11:67818399-67818400 138;124 N jcn_only_AD chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 480;241 K alternative_donor CUFF.176 chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 120;585 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 36;98 K intron_retention CUFF.203 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 300;27 K intron_retention chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 28;13 N alternative_last_exon CUFF.193 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818592-10819428 chr11:10823596-10823756 66;161 N jcn_only_AA CUFF.203 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 290;35 N coord_cassette CUFF.207 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678493 26;79 N jcn_only_AA CUFF.208,CUFF.210 chr11 + chr11:63999437-63999901;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999865 611;346 K cassette CUFF.192 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 39;313 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404571 chr11:118401950-118402489,chr11:118403177-118404571 chr11:118403632-118403922 chr11:118402490-118403176 145;39 K intron_retention chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 2057;53 N alternative_donor CUFF.176,CUFF.192 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 32;3 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 59;94 K intron_retention CUFF.206 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 71;78 K intron_retention CUFF.237 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 447;89 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678493 319;122 N jcn_only_AA CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 29;327 K intron_retention CUFF.180 chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 66;51 N alternative_donor CUFF.206 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368495-62368894 chr11:62368894-62368895 172;15 N cassette CUFF.235 chr11 + chr11:118403177-118404571;chr11:118403923-118404571 chr11:118403177-118404134,chr11:118403923-118404134;chr11:118404267-118404571 chr11:118404135-118404266 597;519 K intron_retention CUFF.193 chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 23;135 K intron_retention CUFF.199 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 13;313 K intron_retention CUFF.178 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 222;19 N jcn_only_AD CUFF.198 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;314 N intron_retention CUFF.210 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 89;1322 N alternative_acceptor CUFF.249 chr11 - chr11:124767529-124767621;chr11:124767158-124767621 chr11:124766952-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 518;13 N cassette CUFF.237 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 62;70 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 98;68 K intron_retention CUFF.248 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 22;49 N cassette CUFF.237 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 47;976 N alternative_acceptor CUFF.228 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 13;11 N cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8554894;chr11:8555044-8615290 chr11:8554895-8555043 24;80 N alternative_donor chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 30;15 K alternative_acceptor CUFF.218,CUFF.230 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 20;61 N cassette CUFF.185 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 11;164 N jcn_only_AA CUFF.208 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-64001365 chr11:63999437-63999981 671;286 K intron_retention CUFF.235 chr11 + chr11:118404267-118404571 chr11:118404266-118404267;chr11:118404571-118404572 290;32 K intron_retention CUFF.203 chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 18;15 K intron_retention chr11 + chr11:118401950-118402489 chr11:118401949-118401950;chr11:118402489-118402490 984;150 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 178;28 K intron_retention CUFF.178 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 107;11 N intron_retention chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 31;59 K cassette CUFF.221 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 7;84 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119252182 chr11:119244232-119246933 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 70;26 N jcn_only_AD CUFF.231 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 30;285 N jcn_only_AA chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 73;24 N cassette CUFF.237 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 69;1735 N alternative_acceptor CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 9;14 N intron_retention CUFF.243 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 99;36 N jcn_only_AA CUFF.243 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 540;62 N alternative_donor CUFF.198 chr11 + chr11:36397709-36398178 chr11:36397788-36398178 chr11:36397709-36397787 chr11:36397708-36397709 44;16 K jcn_only_AA CUFF.187 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 82;205 K cassette CUFF.184 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 chr11:3239562-3239789;chr11:3242800-3244361 59;40 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 34;273 K intron_retention CUFF.249 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 92;19 K intron_retention CUFF.178 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 203;112 N intron_retention chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 44;229 N alternative_acceptor CUFF.177 chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 9;8 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 24;9 N alternative_donor CUFF.231 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 30;164 K alternative_donor CUFF.183 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 49;294 N mutually_exclusive CUFF.187 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 26;169 N cassette CUFF.237 chr11 - chr11:118926880-118927785;chr11:118926880-118927730 chr11:118926880-118926990;chr11:118927130-118927730,chr11:118927130-118927785 chr11:118926991-118927129 284;772 N jcn_only_AA CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118405221 chr11:118405071-118406222 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 672;93 N jcn_only_AA CUFF.198 chr11 + chr11:36467991-36483891 chr11:36467991-36472758 chr11:36472759-36483891 chr11:36483891-36483892 186;91 N jcn_only_AA CUFF.198 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 323;24 N jcn_only_AA CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 171;594 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 55;120 N jcn_only_AD chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 30;13 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 34;134 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 168;80 K intron_retention CUFF.208 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 278;93 K intron_retention CUFF.190 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 588;146 N alternative_first_exon CUFF.191,CUFF.213 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8615630-8615903 chr11:8615291-8615603 53;24 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402960,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402961-118403176 34;94 K intron_retention CUFF.176 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 473;353 N jcn_only_AD chr11 - chr11:119244232-119246933;chr11:119244232-119252182 chr11:119244232-119249716 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 36;61 N alternative_first_exon CUFF.219 chr11 + chr11:74624828-74630577;chr11:74622471-74630577 chr11:74630071-74630577 chr11:74624740-74624827;chr11:74622307-74622470 chr11:74629823-74630070 62;57 K intron_retention CUFF.187 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 82;93 N coord_cassette CUFF.180 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188116;chr11:2188263-2188664 chr11:2187863-2187998;chr11:2188117-2188262 139;279 K intron_retention CUFF.236 chr11 - chr11:118531625-118531868 chr11:118531624-118531625;chr11:118531868-118531869 693;14 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 230;947 K alternative_first_exon CUFF.178 chr11 + chr11:827712-828259;chr11:826267-828259 chr11:827319-828259,chr11:827460-828259 chr11:826144-826266 chr11:827195-827318 54;213 K intron_retention CUFF.187 chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 25;67 K alternative_acceptor CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 369;596 N cassette CUFF.247 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 66;2224 N cassette CUFF.223 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 6;81 N cassette CUFF.191 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 39;226 K cassette CUFF.235 chr11 + chr11:118402587-118403631 chr11:118402587-118402960;chr11:118403177-118403631 chr11:118402961-118403176 29;1094 N jcn_only_AD CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 29;329 N alternative_acceptor chr11 - chr11:5701469-5706097 chr11:5705370-5706097 chr11:5701469-5705369 chr11:5701468-5701469 73;3 N cassette CUFF.176 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 377;458 N jcn_only_AD CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 164;1896 N intron_retention chr11 + chr11:118403177-118404571 chr11:118403176-118403177;chr11:118404571-118404572 61;105 K intron_retention CUFF.180 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 505;43 K intron_retention CUFF.200 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 482;101 N cassette CUFF.210 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 386;1733 N cassette CUFF.191 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 87;209 K cassette CUFF.221 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 37;23 N jcn_only_AA CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 9;77 N alternative_first_exon chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056091-119056219 chr11:119056248-119056337 64;16 K intron_retention CUFF.178 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 99;96 K intron_retention CUFF.213 chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 237;756 N jcn_only_AD chr11 - chr11:119291640-119292320;chr11:119291640-119295607 chr11:119291640-119293822 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 157;3395 K mutually_exclusive CUFF.176 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 61;221 N cassette CUFF.198 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 15;177 N intron_retention chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 480;190 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 29;206 N alternative_acceptor CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 61;202 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 73;39 K intron_retention CUFF.193 chr11 - chr11:10825138-10825445 chr11:10825137-10825138;chr11:10825445-10825446 162;20 K jcn_only_AA CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 44;15 N alternative_donor CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998620-63999342 chr11:63998413-63998619 chr11:63998412-63998413 112;12 N cassette CUFF.187 chr11 - chr11:5686913-5688918 chr11:5686913-5687210;chr11:5687312-5688918 chr11:5687211-5687311 28;211 N cassette CUFF.180 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 85;40 N alternative_first_exon CUFF.190 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615903 chr11:8494710-8494823 11;165 K jcn_only_AA CUFF.247 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 2173;399 K alternative_acceptor CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 44;8 N alternative_acceptor chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 90;1351 K intron_retention CUFF.230 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 20;106 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 59;189 K alternative_first_exon CUFF.245 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119252183-119252421 chr11:119234559-119234975 19;183 N alternative_donor CUFF.198 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 26;1 N jcn_only_AA CUFF.219 chr11 + chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 389;52 N mutually_exclusive CUFF.237 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 52;36 K alternative_first_exon CUFF.177,CUFF.193 chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:560683-560707 chr11:559969-560219 26;24 N jcn_only_AA CUFF.191 chr11 - chr11:8496614-8502080;chr11:8498831-8502080 chr11:8496364-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 56;14 N intron_retention chr11 - chr11:8486370-8615629 chr11:8486369-8486370;chr11:8615629-8615630 13;21 K intron_retention CUFF.193 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 413;241 K jcn_only_AD CUFF.235 chr11 + chr11:118402242-118402489 chr11:118402317-118402489 chr11:118402242-118402316 chr11:118402241-118402242 79;105 K intron_retention CUFF.249 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 260;246 K intron_retention CUFF.230 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 29;106 N alternative_donor CUFF.222 chr11 - chr11:94705358-94706436;chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 141;206 N intron_retention CUFF.235 chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 52;270 K jcn_only_AA CUFF.189 chr11 - chr11:6622006-6624633;chr11:6623495-6624633 chr11:6623446-6624633 473;26 K intron_retention chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 70;36 K intron_retention CUFF.190 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 256;146 N alternative_first_exon CUFF.219 chr11 + chr11:74630071-74630577;chr11:74622471-74630577 chr11:74624828-74630577 chr11:74629823-74630070;chr11:74622307-74622470 chr11:74624740-74624827 106;13 N jcn_only_AA CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998413-63998503 chr11:63998504-63999342 chr11:63999342-63999343 112;25 N intron_retention chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 286;852 N alternative_donor CUFF.185 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 166;51 N jcn_only_AA CUFF.191 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 42;28 N mutually_exclusive CUFF.207 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678493 260;39 K intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 11;12 K intron_retention CUFF.235 chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 79;236 N alternative_first_exon chr11 + chr11:827712-828229;chr11:826267-828229 chr11:827460-828229 chr11:826144-826266 chr11:827195-827459 151;30 N jcn_only_AA CUFF.226 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 101;18 N jcn_only_AD CUFF.176,CUFF.192 chr11 - chr11:8941998-8947009 chr11:8941998-8942840 chr11:8942841-8947009 chr11:8947009-8947010 32;30 K intron_retention CUFF.213 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 1401;142 K intron_retention CUFF.220 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 198;570 N jcn_only_AA CUFF.208 chr11 + chr11:63999437-63999865;chr11:63999437-63999901;chr11:63999437-63999981 chr11:63999437-64001365 895;62 K alternative_acceptor CUFF.187 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 82;263 K alternative_acceptor CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 200;320 N intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 69;60 K alternative_acceptor CUFF.178 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 222;62 N alternative_donor CUFF.203 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 30;2 N alternative_donor chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 23;253 K intron_retention CUFF.183 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 49;103 K jcn_only_AD CUFF.178 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 171;51 K intron_retention CUFF.193 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 260;181 N jcn_only_AA CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 468;28 K cassette CUFF.225 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 183;209 N intron_retention chr11 + chr11:118401950-118403631 chr11:118401949-118401950;chr11:118403631-118403632 126;39 K intron_retention CUFF.206 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 60;25 K intron_retention CUFF.210 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 303;1087 N jcn_only_AA CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 340;1774 K jcn_only_AA CUFF.176 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 193;1038 N alternative_donor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 29;5 K alternative_acceptor CUFF.247 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 2173;247 N jcn_only_AD chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 23;186 K jcn_only_AD CUFF.187 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 82;95 N alternative_acceptor CUFF.198 chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 222;2 N jcn_only_AA CUFF.228 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107944527-107948902 chr11:107948902-107948903 13;86 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 11;60 N jcn_only_AD CUFF.243 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 244;52 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 19;238 N alternative_acceptor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 29;12 N jcn_only_AA CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 565;29 K alternative_acceptor CUFF.177 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 47;16 N alternative_donor CUFF.222 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 220;127 N jcn_only_AA CUFF.178 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 38;90 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 36;15 N alternative_acceptor CUFF.203 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 290;206 N jcn_only_AD CUFF.180 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 66;31 K alternative_donor CUFF.178 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 271;64 K intron_retention CUFF.249 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 106;14 N jcn_only_AA CUFF.191 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 42;28 K alternative_first_exon CUFF.206,CUFF.236 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367731 chr11:62366690-62366781 138;25 K alternative_acceptor CUFF.220 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 198;203 K jcn_only_AA CUFF.189 chr11 - chr11:6623446-6624633;chr11:6622006-6624633 chr11:6623495-6624633 407;92 K cassette CUFF.236 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 534;69 N jcn_only_AA CUFF.225 chr11 - chr11:102937297-102953984 chr11:102953569-102953984 178;240 N alternative_acceptor chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 31;77 K intron_retention CUFF.210 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 2178;14 N alternative_acceptor CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 1067;92 K intron_retention chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 263;668 N mutually_exclusive CUFF.235 chr11 + chr11:118403177-118404134,chr11:118404267-118404571 chr11:118403177-118403631,chr11:118403923-118404571 chr11:118404135-118404266 chr11:118403632-118403922 75;636 K intron_retention CUFF.178 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 313;6 N jcn_only_AA chr11 + chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 209;231 K jcn_only_AA CUFF.180 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 460;38 N jcn_only_AD CUFF.214 chr11 + chr11:67782546-67782766;chr11:67777863-67782766 chr11:67776163-67782766 chr11:67776163-67777862;chr11:67777863-67782545 chr11:67776162-67776163;chr11:67777862-67777863 1006;85 N alternative_acceptor CUFF.191 chr11 - chr11:8496364-8502080;chr11:8498831-8502080 chr11:8496614-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 66;209 N cassette CUFF.214 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 123;821 K cassette CUFF.187 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 205;153 N alternative_donor CUFF.180,CUFF.237 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 346;341 K intron_retention CUFF.220 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 168;502 N intron_retention chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 346;628 N jcn_only_AA CUFF.243 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 502;99 K intron_retention CUFF.178 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 271;57 K alternative_first_exon CUFF.243 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056091-119056219 chr11:119056248-119056337 40;7 K cassette CUFF.176 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 349;26 N alternative_acceptor CUFF.249 chr11 - chr11:124766952-124767621;chr11:124767158-124767621 chr11:124767529-124767621 chr11:124766952-124767157;chr11:124767158-124767528 chr11:124766951-124766952;chr11:124767157-124767158 462;69 N jcn_only_AD chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 87;10 K intron_retention CUFF.206 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 76;16 N alternative_acceptor CUFF.243 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 491;21 N jcn_only_AD chr11 - chr11:6639008-6640426 chr11:6639008-6640006 115;352 N jcn_only_AA chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 31;69 K intron_retention chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 33;453 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 620;41 N alternative_donor CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818400-67819908 chr11:67818399-67818400 138;48 N jcn_only_AA CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 2026;88 N alternative_acceptor CUFF.191 chr11 - chr11:8496364-8502080;chr11:8496614-8502080 chr11:8498831-8502080 chr11:8496364-8496613;chr11:8496614-8498830 chr11:8496363-8496364;chr11:8496613-8496614 223;52 N intron_retention chr11 - chr11:8474454-8615629 chr11:8474453-8474454;chr11:8615629-8615630 37;7 N jcn_only_AA CUFF.249 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 72;72 N alternative_donor CUFF.193,CUFF.225 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 87;100 N cassette CUFF.235 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403804;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403805-118403922 195;823 N alternative_donor CUFF.179 chr11 - chr11:102960048-102962412;chr11:102960048-102962515 chr11:102960048-102962244 chr11:102962245-102962412;chr11:102962413-102962515 chr11:102962412-102962413;chr11:102962515-102962516 132;34 K alternative_acceptor CUFF.207 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 chr11:63669670-63669802;chr11:63670076-63670254 264;56 N jcn_only_AA CUFF.243 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 161;440 N jcn_only_AD CUFF.198 chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 337;26 N cassette CUFF.236 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 54;261 N intron_retention chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 48;237 K intron_retention CUFF.185 chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 166;112 N alternative_donor CUFF.210 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479917-65480068 chr11:65479916-65479917 1593;65 K intron_retention CUFF.179 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 58;28 K intron_retention CUFF.193 chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 393;157 K alternative_first_exon CUFF.231 chr11 + chr11:117072658-117073717;chr11:117070149-117073717,chr11:117070546-117073717 chr11:117071059-117073717 chr11:117070037-117070148 chr11:117070959-117071058 147;19 N intron_retention chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 52;190 N alternative_donor CUFF.198 chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 7;14 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 22;102 N alternative_donor CUFF.181 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 36;40 K intron_retention CUFF.247 chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 88;681 K intron_retention CUFF.231 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 285;16 K intron_retention CUFF.235 chr11 + chr11:118403923-118404134 chr11:118403922-118403923;chr11:118404134-118404135 801;24 N jcn_only_AD CUFF.199 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 14;404 N cassette CUFF.207 chr11 + chr11:63656437-63662630 chr11:63656437-63657693;chr11:63657768-63662630 chr11:63657694-63657767 chr11:63656185-63656436;chr11:63662631-63662810 22;136 N jcn_only_AD CUFF.247 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 3482;71 N intron_retention chr11 - chr11:8947647-8948640 chr11:8947646-8947647;chr11:8948640-8948641 9;20 N alternative_acceptor CUFF.235 chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 85;120 N cassette CUFF.180 chr11 - chr11:2187999-2188664 chr11:2187999-2188116;chr11:2188263-2188664 chr11:2188117-2188262 87;297 N jcn_only_AA chr11 + chr11:36415562-36415945;chr11:36415562-36417663 chr11:36415562-36422546 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 130;217 K intron_retention CUFF.178 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 51;118 K jcn_only_AA CUFF.218,CUFF.230 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 20;29 K intron_retention CUFF.193 chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 159;30 K intron_retention CUFF.185 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 98;65 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 39;124 N jcn_only_AA chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 90;1620 N jcn_only_AD CUFF.222 chr11 - chr11:94705358-94706452;chr11:94705358-94706436 chr11:94705358-94706661 chr11:94706437-94706452;chr11:94706453-94706661 chr11:94706452-94706453;chr11:94706661-94706662 299;127 K intron_retention CUFF.193 chr11 - chr11:10825966-10826459 chr11:10825965-10825966;chr11:10826459-10826460 334;113 K jcn_only_AA CUFF.198 chr11 + chr11:36317989-36422546 chr11:36317989-36318920 85;10 N jcn_only_AA CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 303;89 K alternative_first_exon CUFF.176 chr11 - chr11:410028-414822;chr11:410028-417324 chr11:410028-417293 chr11:417325-417531 chr11:417294-417320 474;79 N intron_retention chr11 + chr11:118915457-118916096 chr11:118915456-118915457;chr11:118916096-118916097 4;96 K alternative_last_exon CUFF.220 chr11 - chr11:75520420-75522468;chr11:75514563-75522468 chr11:75514771-75522468 chr11:75514476-75514562 chr11:75514577-75514770 178;253 K jcn_only_AA CUFF.250 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 19;107 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 24;11 K jcn_only_AA CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 200;645 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 94;203 N alternative_donor CUFF.180 chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 66;24 N jcn_only_AD CUFF.185 chr11 + chr11:3427841-3428851 chr11:3427946-3428851 chr11:3427841-3427945 chr11:3427840-3427841 166;14 N mutually_exclusive CUFF.235 chr11 + chr11:118403177-118404134,chr11:118404267-118404571 chr11:118403177-118403804,chr11:118403923-118404571 chr11:118404135-118404266 chr11:118403805-118403922 75;330 N intron_retention chr11 - chr11:10822635-10823595 chr11:10822634-10822635;chr11:10823595-10823596 32;52 N jcn_only_AA CUFF.203 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 chr11:61616153-61624482 chr11:61624482-61624483 416;243 K intron_retention chr11 + chr11:118403177-118403631 chr11:118403176-118403177;chr11:118403631-118403632 1221;115 N jcn_only_AA CUFF.245 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 13;10 K alternative_acceptor CUFF.176 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 193;611 N jcn_only_AD CUFF.193,CUFF.225 chr11 - chr11:10828929-10829720;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829080 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 76;44 N alternative_donor CUFF.243 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 244;106 K intron_retention CUFF.203 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 449;82 K alternative_acceptor CUFF.250 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 19;88 N intron_retention chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 45;366 N intron_retention chr11 + chr11:36397709-36398178 chr11:36397708-36397709;chr11:36398178-36398179 44;218 K jcn_only_AA CUFF.220 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 198;168 N jcn_only_AD CUFF.198 chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 80;282 K intron_retention CUFF.176 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 410;88 N jcn_only_AD CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829291;chr11:10828929-10829095 chr11:10828929-10829720 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 98;22 K intron_retention CUFF.214 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 539;314 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 43;78 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 43;21 N intron_retention chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 159;209 N alternative_donor chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 480;266 K intron_retention chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 216;269 K cassette CUFF.193 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 45;351 N intron_retention chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 174;96 K jcn_only_AA CUFF.189 chr11 - chr11:6623446-6624633;chr11:6623495-6624633 chr11:6622006-6624633 118;381 N alternative_donor chr11 - chr11:119244232-119249716;chr11:119244232-119246933 chr11:119244232-119252182 chr11:119246934-119249716;chr11:119249717-119252182 chr11:119249716-119249717;chr11:119252182-119252183 10;10 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 20;40 K intron_retention CUFF.243 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 249;7 K intron_retention CUFF.247 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 2173;122 N intron_retention chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 44;443 N alternative_acceptor CUFF.247 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 1071;88 N intron_retention chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 984;27 N alternative_acceptor CUFF.178 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 38;60 N alternative_donor CUFF.193 chr11 - chr11:10828929-10829080;chr11:10828929-10829720;chr11:10828929-10829095 chr11:10828929-10829291 chr11:10829081-10829095;chr11:10829096-10829291;chr11:10829292-10829720 chr11:10829095-10829096;chr11:10829291-10829292;chr11:10829720-10829721 174;13 K alternative_acceptor CUFF.183 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 32;139 K alternative_donor CUFF.231 chr11 + chr11:117070149-117073717 chr11:117070546-117073717 chr11:117070149-117070545 chr11:117070148-117070149 19;199 N intron_retention chr11 + chr11:119289531-119291109 chr11:119289530-119289531;chr11:119291109-119291110 23;73 N alternative_acceptor CUFF.245 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 13;6 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 13;35 N jcn_only_AA CUFF.198 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 241;106 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 18;13 N jcn_only_AD CUFF.198 chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 chr11:36322621-36383731;chr11:36383732-36398254 chr11:36322620-36322621;chr11:36383731-36383732 307;55 K intron_retention CUFF.235 chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 1243;249 N alternative_donor CUFF.199 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 14;228 K intron_retention CUFF.178 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 64;142 N jcn_only_AD CUFF.206 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368495-62368894 chr11:62368894-62368895 172;23 N jcn_only_AA chr11 + chr11:63999437-63999865;chr11:63999437-64001365;chr11:63999437-63999981 chr11:63999437-63999901 693;263 K intron_retention chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 29;319 K intron_retention CUFF.190 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 262;109 N coord_cassette CUFF.141 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158027;chr10:46158130-46158989 chr10:46148432-46148507;chr10:46158028-46158129 chr10:46147414-46147481;chr10:46158990-46159290 34;196 K coord_cassette CUFF.172 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 23;176 K alternative_last_exon CUFF.175 chr10 - chr10:135060555-135061294 chr10:135061206-135061294 chr10:135059982-135060554 chr10:135061048-135061205 7;264 N jcn_only_AA CUFF.159 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 564;7 K cassette CUFF.149 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 390;27 N jcn_only_AA CUFF.151 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 640;63 K mutually_exclusive CUFF.166 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 31;14 N alternative_acceptor CUFF.156 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 4;328 N jcn_only_AA CUFF.164 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 157;32 N alternative_acceptor CUFF.159 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 345;0 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 40;99 K cassette CUFF.129 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 12;49 N jcn_only_AA CUFF.156 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 215;129 N jcn_only_AA CUFF.151 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 633;70 N alternative_first_exon CUFF.137 chr10 + chr10:35464634-35477127 chr10:35468205-35477127 chr10:35464513-35464633 chr10:35468062-35468204 289;1218 K coord_cassette CUFF.151 chr10 - chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607;chr10:73862726-73887839 chr10:73862092-73862170;chr10:73862608-73862725 200;72 N alternative_acceptor CUFF.156 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 132;0 K cassette CUFF.156 chr10 - chr10:78669855-78674693 chr10:78669855-78673814;chr10:78673896-78674693 chr10:78673815-78673895 445;17 K intron_retention CUFF.135 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 19;14 K alternative_first_exon CUFF.134 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033715-28033877 chr10:28053580-28053702 88;39 N alternative_donor CUFF.152,CUFF.155 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 10;127 N jcn_only_AA CUFF.159 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 345;9 K cassette CUFF.162 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 80;362 N jcn_only_AD CUFF.151 chr10 - chr10:73956748-73963184;chr10:73956748-73958206 chr10:73956748-73972944 883;38 K alternative_first_exon CUFF.151 chr10 - chr10:73973090-73975534;chr10:73973090-73975539;chr10:73973090-73975964 chr10:73973090-73976578 chr10:73975540-73975867;chr10:73975965-73976052 chr10:73976579-73976675 369;78 K alternative_donor CUFF.162 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 15;192 N alternative_donor CUFF.141 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 55;95 K cassette CUFF.141 chr10 - chr10:46148508-46158989 chr10:46148508-46158027;chr10:46158130-46158989 chr10:46158028-46158129 chr10:46148432-46148507;chr10:46158990-46159290 69;210 N coord_cassette CUFF.141 chr10 - chr10:46113709-46143741 chr10:46113709-46120030;chr10:46120086-46121398;chr10:46122554-46135263;chr10:46135412-46143741 chr10:46120031-46120085;chr10:46121399-46122553;chr10:46135264-46135411 chr10:46113588-46113708;chr10:46143742-46143982 26;231 N cassette CUFF.131 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 122;224 N jcn_only_AA CUFF.156 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 148;40 N jcn_only_AA chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 41;89 N alternative_donor CUFF.141 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 153;1 N cassette CUFF.131 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 82;212 K intron_retention CUFF.169 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 15;19 N alternative_acceptor CUFF.156 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 330;2 N alternative_donor CUFF.172 chr10 + chr10:124187833-124189139;chr10:124187937-124189139 chr10:124186548-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 10;45 K coord_cassette CUFF.125 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 6;454 K coord_cassette CUFF.149 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 27;18 N jcn_only_AD CUFF.141 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 311;46 K cassette CUFF.125 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 435;177 K cassette CUFF.145 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 49;15 N jcn_only_AD CUFF.128,CUFF.159 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 564;6 K intron_retention CUFF.128 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 74;11 N cassette CUFF.131 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 29;223 K intron_retention CUFF.172 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 18;28 K intron_retention CUFF.169 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 5;6 N intron_retention chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 6;33 N alternative_donor CUFF.131,CUFF.159 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 314;0 K alternative_first_exon CUFF.151 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975539 chr10:73973090-73975964 chr10:73976579-73976675;chr10:73975540-73975867 chr10:73975965-73976052 312;135 N jcn_only_AA CUFF.131 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 314;6 N jcn_only_AA CUFF.151 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 505;198 N jcn_only_AA CUFF.121 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 13;37 N alternative_donor CUFF.151 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 652;11 N alternative_donor CUFF.156 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 37;86 N coord_cassette CUFF.131 chr10 - chr10:27059275-27112066 chr10:27059275-27059451;chr10:27059470-27065993;chr10:27066171-27112066 chr10:27059452-27059469;chr10:27065994-27066170 29;85 N jcn_only_AA chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 459;4 N alternative_acceptor CUFF.136 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 233;28 N jcn_only_AA CUFF.151 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 419;284 K cassette CUFF.121 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 4;97 N jcn_only_AA CUFF.137 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 2077;617 K alternative_first_exon CUFF.123 chr10 + chr10:5123094-5138601,chr10:5124078-5138601;chr10:5136721-5138601;chr10:5120170-5138601 chr10:5077809-5138601 chr10:5136610-5136720;chr10:5120092-5120169 chr10:5077546-5077808 357;152 N mutually_exclusive CUFF.171 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 30;46 N cassette CUFF.137 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 645;1401 K cassette CUFF.149 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 27;165 N cassette CUFF.151 chr10 - chr10:73857209-73862607;chr10:73857209-73887839 chr10:73857209-73862091;chr10:73862171-73862607,chr10:73862171-73887839 chr10:73862092-73862170 229;113 N alternative_acceptor CUFF.156 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 132;0 K intron_retention CUFF.136 chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 45;7 N cassette CUFF.131 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 28;162 N jcn_only_AD CUFF.121 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 127;2 N mutually_exclusive CUFF.151 chr10 - chr10:73857209-73862607,chr10:73862726-73887839 chr10:73857209-73862091,chr10:73862171-73887839 chr10:73862608-73862725 chr10:73862092-73862170 33;56 N cassette CUFF.171 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 54;125 N alternative_donor CUFF.121 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 47;0 N alternative_donor chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 290;13 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 15;125 N cassette CUFF.141 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 chr10:46147414-46147481;chr10:46158990-46159290 34;157 K alternative_first_exon CUFF.174 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 34;26 N cassette CUFF.171 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 24;63 N alternative_acceptor CUFF.164 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 157;1 N cassette CUFF.125 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 6;322 N jcn_only_AA chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 22;138 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 835;610 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 111;85 N jcn_only_AD CUFF.151 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 783;309 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 783;662 K cassette CUFF.166 chr10 + chr10:103190210-103239124 chr10:103190210-103221737;chr10:103221816-103239124 chr10:103221738-103221815 2;89 N alternative_acceptor CUFF.156 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 92;11 N coord_cassette CUFF.123 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 94;351 K coord_cassette CUFF.167 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 21;22 N alternative_acceptor chr10 + chr10:69918385-69925239 chr10:69918385-69921485 chr10:69921486-69925239 chr10:69925239-69925240 22;27 K alternative_first_exon CUFF.161 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833637-94833880 87;28 N jcn_only_AA CUFF.151 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 615;88 K intron_retention CUFF.152 chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 10;109 K jcn_only_AA CUFF.136 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 34;172 N alternative_acceptor chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 16;1 K cassette CUFF.125 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 6;466 N jcn_only_AA CUFF.156 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 151;37 K cassette CUFF.162 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 390;10 K alternative_first_exon CUFF.123 chr10 + chr10:5123094-5138601,chr10:5124078-5138601;chr10:5136721-5138601;chr10:5077809-5138601 chr10:5120170-5138601 chr10:5136610-5136720;chr10:5077546-5077808 chr10:5120092-5120169 373;136 K mutually_exclusive CUFF.156 chr10 - chr10:78729826-78761164,chr10:78761339-78771724 chr10:78729826-78734244,chr10:78734332-78771724 chr10:78761165-78761338 chr10:78734245-78734331 179;70 N alternative_acceptor CUFF.137 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 2077;661 K cassette CUFF.167 chr10 + chr10:106976881-106982873 chr10:106976881-106977601;chr10:106977724-106982873 chr10:106977602-106977723 17;22 N jcn_only_AA CUFF.151 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 118;652 N alternative_acceptor chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 41;6 N jcn_only_AD CUFF.141,CUFF.152 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 chr10:46143742-46143982;chr10:46147414-46147481 331;34 K intron_retention CUFF.148 chr10 + chr10:69921510-69925458 chr10:69921509-69921510;chr10:69925458-69925459 15;12 K alternative_last_exon CUFF.128 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17645929-17646046 chr10:17657484-17657963 39;45 N cassette CUFF.136 chr10 - chr10:35360268-35379106 chr10:35360268-35378823;chr10:35378930-35379106 chr10:35378824-35378929 23;31 N jcn_only_AA CUFF.159 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 6;501 N cassette CUFF.171 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 58;184 N jcn_only_AA CUFF.151 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 683;161 N alternative_donor ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 2;2 N alternative_acceptor CUFF.123 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 173;6 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 131;16 K alternative_acceptor CUFF.149 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 24;79 N alternative_first_exon CUFF.137 chr10 + chr10:35426808-35467816,chr10:35437420-35467816,chr10:35464928-35467816;chr10:35464634-35467816;chr10:35416122-35467816 chr10:35456732-35467816 chr10:35464513-35464633;chr10:35415719-35416121 chr10:35456633-35456731 1249;501 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 627;56 N mutually_exclusive CUFF.131 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 52;30 N jcn_only_AA CUFF.136 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 233;84 N alternative_donor chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 194;13 N jcn_only_AD CUFF.151 chr10 - chr10:73956748-73972944;chr10:73956748-73958206 chr10:73956748-73963184 238;683 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 70;24 N jcn_only_AA CUFF.123 chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 193;132 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 111;13 N alternative_acceptor CUFF.156 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 48;55 K cassette CUFF.125 chr10 + chr10:6270182-6274857 chr10:6270182-6273225;chr10:6273278-6274857 chr10:6273226-6273277 51;282 K cassette CUFF.165 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 529;91 K alternative_first_exon CUFF.165 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491898-101492166 43;445 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 290;108 N cassette CUFF.131 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 82;247 N cassette CUFF.159 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 8;38 N cassette CUFF.171 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 32;84 N jcn_only_AD chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 57;90 K alternative_first_exon CUFF.172 chr10 + chr10:124151889-124152696;chr10:124134323-124152696 chr10:124134364-124152696 chr10:124134140-124134322 chr10:124134328-124134363 196;14 N alternative_donor CUFF.172 chr10 + chr10:124187833-124189139;chr10:124186548-124189139 chr10:124187937-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 49;6 N jcn_only_AD CUFF.156,CUFF.174 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 566;11 K jcn_only_AD CUFF.162 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 15;381 K alternative_acceptor CUFF.136 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 34;77 K cassette CUFF.156 chr10 - chr10:78709125-78713558 chr10:78709125-78711794;chr10:78711918-78713558 chr10:78711795-78711917 344;6 N jcn_only_AA CUFF.151 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 732;38 N cassette CUFF.171 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 32;102 N alternative_acceptor CUFF.131 chr10 - chr10:27112235-27149675 chr10:27128713-27149675 chr10:27112235-27128712 chr10:27112234-27112235 314;0 N alternative_donor CUFF.151 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 783;11 N intron_retention chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 284;169 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 30;13 N alternative_acceptor CUFF.172 chr10 + chr10:124186548-124189139 chr10:124186548-124187791 chr10:124187792-124189139 chr10:124189139-124189140 45;11 N jcn_only_AD CUFF.156 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 37;30 N jcn_only_AA chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 16;28 K alternative_first_exon CUFF.130 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833373 22;31 N alternative_acceptor CUFF.156 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0;132 K intron_retention CUFF.151 chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 88;30 N intron_retention chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 63;82 N jcn_only_AD CUFF.151 chr10 - chr10:73956748-73963184;chr10:73956748-73972944 chr10:73956748-73958206 721;200 K jcn_only_AD CUFF.128 chr10 - chr10:17636383-17645558 chr10:17636383-17641288 25;53 N coord_cassette CUFF.125 chr10 + chr10:6266177-6274857 chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857 chr10:6267124-6267211;chr10:6268155-6268328 77;144 K jcn_only_AA CUFF.164 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 57;93 N jcn_only_AA CUFF.156 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 410;96 K cassette CUFF.146 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 294;314 N alternative_acceptor CUFF.156 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 215;6 N jcn_only_AA CUFF.137 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 835;691 K cassette CUFF.149 chr10 + chr10:70661228-70666466 chr10:70661228-70665981;chr10:70666094-70666466 chr10:70665982-70666093 23;139 N cassette CUFF.125 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 20;436 N alternative_donor CUFF.141 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 141;9 N alternative_donor CUFF.141,CUFF.152 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46145180-46147413 chr10:46147413-46147414 chr10:46143742-46143982;chr10:46147414-46147481 331;22 K cassette CUFF.145 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 102;241 N jcn_only_AA CUFF.151 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 690;80 N alternative_donor CUFF.121 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:629529-735433 chr10:735433-735434 127;0 K cassette CUFF.136 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 52;157 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 290;47 N jcn_only_AD CUFF.172 chr10 + chr10:124187833-124189139;chr10:124186548-124189139 chr10:124187937-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 80;44 N alternative_acceptor chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 459;3 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 15;5 N jcn_only_AA CUFF.151 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 783;138 N alternative_donor CUFF.171 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 6;38 N alternative_donor chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 470;100 N jcn_only_AA CUFF.156 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 231;132 N jcn_only_AA chr10 + chr10:35416496-35437295 chr10:35416496-35426709 173;148 N alternative_first_exon CUFF.137 chr10 + chr10:35426808-35467816,chr10:35437420-35467816,chr10:35464928-35467816;chr10:35464634-35467816;chr10:35456732-35467816 chr10:35416122-35467816 chr10:35464513-35464633;chr10:35456633-35456731 chr10:35415719-35416121 1647;103 N alternative_first_exon CUFF.137 chr10 + chr10:35426808-35467816,chr10:35437420-35467816,chr10:35464928-35467816;chr10:35456732-35467816;chr10:35416122-35467816 chr10:35464634-35467816 chr10:35456633-35456731;chr10:35415719-35416121 chr10:35464513-35464633 1695;55 K cassette CUFF.151 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 79;302 N jcn_only_AD CUFF.172 chr10 + chr10:124186548-124189139;chr10:124187937-124189139 chr10:124187833-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 89;35 N jcn_only_AD CUFF.141 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 336;21 K alternative_donor CUFF.167 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 27;7 N alternative_acceptor chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 274;4 N jcn_only_AA CUFF.156 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 178;328 N alternative_acceptor CUFF.123 chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 193;7 K alternative_first_exon CUFF.171 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123687947 chr10:123687359-123687551 91;75 K alternative_first_exon CUFF.150 chr10 - chr10:73515224-73520624 chr10:73515224-73517334 chr10:73520625-73520681 chr10:73517335-73517405 chr10:73515116-73515223 4;25 K alternative_last_exon CUFF.171 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499939-123503373 chr10:123542026-123542214 128;100 N cassette CUFF.137 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 30;924 K alternative_first_exon CUFF.123 chr10 + chr10:5123094-5138601,chr10:5124078-5138601;chr10:5120170-5138601;chr10:5077809-5138601 chr10:5136721-5138601 chr10:5120092-5120169;chr10:5077546-5077808 chr10:5136610-5136720 428;81 K alternative_first_exon CUFF.140 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274326 chr10:44274030-44274074 20;22 N alternative_acceptor CUFF.121 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 13;11 N cassette CUFF.151 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 279;122 N alternative_donor CUFF.121 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 13;2 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 73;610 K cassette CUFF.155 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 82;40 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 194;61 N coord_cassette CUFF.131 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 29;179 K alternative_first_exon CUFF.130,CUFF.155 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290395 chr10:76289051-76289138 55;58 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 30;7 N jcn_only_AD CUFF.141 chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 68;289 N jcn_only_AD CUFF.152,CUFF.155 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 10;118 K jcn_only_AD CUFF.167 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 27;12 N jcn_only_AD CUFF.131,CUFF.159 chr10 - chr10:27112235-27149675 chr10:27112235-27128661 chr10:27128662-27149675 chr10:27149675-27149676 314;9 N mutually_exclusive CUFF.131 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 63;30 K intron_retention CUFF.145 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 13;169 N cassette CUFF.125 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 77;394 N mutually_exclusive CUFF.171 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 34;48 K jcn_only_AA CUFF.139 chr10 + chr10:43572780-43607546 chr10:43572780-43595906 60;9 N jcn_only_AA CUFF.156 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 214;149 K coord_cassette CUFF.131 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 48;187 K cassette CUFF.146 chr10 - chr10:69583151-69597691 chr10:69583151-69587299;chr10:69587442-69597691 chr10:69587300-69587441 471;59 N jcn_only_AD CUFF.121 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 47;12 N jcn_only_AA chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 274;120 N alternative_acceptor CUFF.159 chr10 - chr10:80825577-80827144 chr10:80826344-80827144 chr10:80825577-80826343 chr10:80825576-80825577 564;1 K cassette CUFF.166 chr10 + chr10:103190210-103239124 chr10:103190210-103221720;chr10:103221816-103239124 chr10:103221721-103221815 2;140 N alternative_donor CUFF.156,CUFF.174 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 566;3 N alternative_acceptor CUFF.156 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 330;2 K alternative_last_exon CUFF.121 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370574-370959 2;189 N jcn_only_AD CUFF.171 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 6;724 N alternative_acceptor CUFF.151 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 783;19 N jcn_only_AD CUFF.172 chr10 + chr10:124187833-124189139;chr10:124187937-124189139 chr10:124186548-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 78;45 K jcn_only_AA CUFF.149 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 24;61 N intron_retention CUFF.152 chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 118;79 K alternative_first_exon CUFF.151 chr10 - chr10:73973090-73975534;chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73976579-73976675;chr10:73975965-73976052 chr10:73975540-73975867 257;190 K alternative_acceptor CUFF.164 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 57;46 K cassette CUFF.156 chr10 - chr10:78729826-78771724 chr10:78729826-78734244;chr10:78734332-78771724 chr10:78734245-78734331 72;75 N alternative_acceptor CUFF.159 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 6;5 K alternative_first_exon CUFF.139 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572451-43572779 chr10:43606655-43606913 54;15 N jcn_only_AD CUFF.151 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 652;84 N alternative_acceptor CUFF.137 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 835;22 N jcn_only_AD ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 2;2 N jcn_only_AA CUFF.156 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 77;111 N alternative_donor CUFF.128,CUFF.159 chr10 - chr10:80825577-80827144 chr10:80825577-80826204 chr10:80826205-80827144 chr10:80827144-80827145 564;1 N alternative_acceptor CUFF.156 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 414;23 K jcn_only_AA CUFF.174 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 26;18 N jcn_only_AD CUFF.141 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 153;24 K coord_cassette CUFF.131 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 48;163 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 1271;173 N alternative_donor CUFF.172 chr10 + chr10:124186548-124189139;chr10:124187937-124189139 chr10:124187833-124189139 chr10:124186548-124187832;chr10:124187833-124187936 chr10:124186547-124186548;chr10:124187832-124187833 51;4 N jcn_only_AD chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 470;148 N jcn_only_AA CUFF.123 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 173;173 N alternative_donor CUFF.141 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 104;46 N alternative_acceptor CUFF.156 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 66;37 K alternative_last_exon CUFF.128 chr10 - chr10:17636383-17645558 chr10:17641411-17645558 chr10:17636204-17636382 chr10:17641100-17641410 22;49 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 666;17 K alternative_last_exon CUFF.141 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143742-46143982 chr10:46146995-46147073 chr10:46147414-46147481 259;9 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 447;65 K cassette CUFF.129 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 31;35 K alternative_last_exon CUFF.125 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277495 chr10:6270159-6270239 33;380 K intron_retention CUFF.172 chr10 + chr10:124134364-124152696 chr10:124134363-124134364;chr10:124152696-124152697 17;61 K intron_retention CUFF.151 chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 198;32 N jcn_only_AA CUFF.156 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 414;28 N jcn_only_AA CUFF.172 chr10 + chr10:124186548-124189139 chr10:124186548-124187791 chr10:124187792-124189139 chr10:124189139-124189140 45;80 N jcn_only_AA CUFF.156 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 281;82 K coord_cassette CUFF.171 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 24;87 N jcn_only_AA CUFF.156 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 424;82 K alternative_last_exon CUFF.153 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476877-75476950 chr10:75477773-75477923 18;47 K alternative_first_exon CUFF.150,CUFF.151 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73921296-73921432 chr10:73918704-73919137 279;231 K jcn_only_AD CUFF.148 chr10 + chr10:69866559-69902696 chr10:69882098-69902696 2;131 K cassette CUFF.171 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 39;162 K cassette CUFF.153 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 56;31 N jcn_only_AA chr10 - chr10:78737397-78771724 chr10:78755467-78771724 14;16 K alternative_first_exon CUFF.125 chr10 + chr10:6188460-6255585;chr10:6186977-6255585 chr10:6245300-6255585 chr10:6186826-6186976 chr10:6244761-6245299 19;607 N jcn_only_AD CUFF.121 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 13;9 N mutually_exclusive CUFF.171 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 76;84 N alternative_acceptor CUFF.151 chr10 - chr10:73956748-73963184 chr10:73958424-73963184 chr10:73956748-73958423 chr10:73956747-73956748 683;48 N jcn_only_AD chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 106;41 K alternative_first_exon CUFF.175 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061295-135061481 chr10:135061058-135061205 13;304 N cassette CUFF.131 chr10 - chr10:27059275-27065993 chr10:27059275-27059451;chr10:27059470-27065993 chr10:27059452-27059469 28;77 K cassette CUFF.169 chr10 - chr10:119774622-119798482 chr10:119774622-119793492;chr10:119793553-119798482 chr10:119793493-119793552 5;25 K cassette CUFF.156 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 72;179 K cassette CUFF.617 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 974;243 K alternative_donor CUFF.550 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 276;572 N jcn_only_AD CUFF.611 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 26;711 K coord_cassette CUFF.620 chr17 - chr17:79354385-79358928 chr17:79354385-79355676;chr17:79355741-79358745;chr17:79358833-79358928 chr17:79355677-79355740;chr17:79358746-79358832 58;703 N jcn_only_AD CUFF.556 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 233;470 N jcn_only_AD CUFF.556 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 417;28 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 chr17:66511535-66511717 88;115 K intron_retention CUFF.611 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 chr17:66511128-66511260;chr17:66511535-66511717 149;125 N jcn_only_AA chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 7;284 N jcn_only_AA CUFF.626 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 803;13 K cassette CUFF.603 chr17 + chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562428-61562596 chr17:61562331-61562427 173;78 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 57;103 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 73;565 N jcn_only_AA CUFF.554 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 247;71 K intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 147;10 N jcn_only_AA CUFF.607 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 772;55 N jcn_only_AA CUFF.556 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 470;40 N intron_retention CUFF.551 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 18;45 N intron_retention CUFF.607 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 55;97 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 chr17:66511535-66511717 47;143 N jcn_only_AD CUFF.600 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 219;12 N cassette CUFF.568 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 227;319 K intron_retention CUFF.559 chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 40;54 K alternative_last_exon CUFF.598 chr17 - chr17:57777551-57784731,chr17:57777238-57784731;chr17:57756906-57784731 chr17:57775340-57784731 chr17:57756728-57756905 chr17:57774677-57775339 435;38 K coord_cassette CUFF.568 chr17 + chr17:25969375-25972886 chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886 chr17:25970551-25970646;chr17:25972340-25972375 147;212 N cassette CUFF.549 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 47;90 N cassette CUFF.585 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 36;168 K intron_retention CUFF.607 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 834;44 N jcn_only_AA CUFF.611 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 460;222 N alternative_acceptor CUFF.622 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 48;621 N intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 112;153 K alternative_acceptor CUFF.558 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 107;99 N jcn_only_AA CUFF.594 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 206;27 N cassette CUFF.573 chr17 + chr17:29576138-29584704;chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704,chr17:29580019-29585361 chr17:29579956-29580018 57;320 K alternative_first_exon CUFF.594,CUFF.622 chr17 - chr17:79479387-79479489,chr17:79479387-79479640,chr17:79479387-79481572;chr17:79479387-79479631;chr17:79479387-79479759 chr17:79479387-79490667 chr17:79479632-79479632;chr17:79479760-79479900 chr17:79490668-79490764 353;212 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 20;28 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 153;88 K jcn_only_AA CUFF.568 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 161;294 N cassette CUFF.617 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 330;859 N alternative_first_exon CUFF.549 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655858-655995;chr17:655373-655501 chr17:654891-655335 55;159 N jcn_only_AD CUFF.611 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 460;180 N intron_retention CUFF.607 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 128;60 N alternative_donor CUFF.573 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 22;0 N alternative_donor CUFF.611 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 26;384 N jcn_only_AA CUFF.551 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 295;18 K intron_retention chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 381;221 N jcn_only_AA CUFF.618 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 75;120 K alternative_first_exon CUFF.611 chr17 + chr17:66509112-66511127,chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66507921-66508283 chr17:66508492-66508689 chr17:66511128-66511260 129;11 N intron_retention chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 21;152 N jcn_only_AD CUFF.597 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 370;46 N alternative_acceptor CUFF.603 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 44;3 N intron_retention chr17 - chr17:79478830-79478928 chr17:79478829-79478830;chr17:79478928-79478929 135;35 K intron_retention CUFF.626 chr17 + chr17:80416707-80417875 chr17:80416706-80416707;chr17:80417875-80417876 76;3 K alternative_first_exon CUFF.626 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416707-80417867;chr17:80417325-80417867 chr17:80416394-80417867 chr17:80416503-80416706;chr17:80417311-80417324 chr17:80416056-80416393 953;332 N alternative_acceptor CUFF.622 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 1029;91 N alternative_acceptor CUFF.618 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 75;21 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 336;491 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 47;0 N coord_cassette CUFF.617 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 66;166 K cassette CUFF.626 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442827-80443372 chr17:80442689-80442826 36;374 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 162;39 K intron_retention CUFF.570 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 47;27 K intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 143;88 K alternative_first_exon CUFF.591 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46710954;chr17:46685591-46685758 chr17:46687881-46688379 76;19 K intron_retention CUFF.556 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 183;87 K intron_retention CUFF.607 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 491;100 K intron_retention CUFF.594 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 35;45 N alternative_donor CUFF.573 chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 21;26 N alternative_acceptor CUFF.559 chr17 - chr17:15546131-15562115;chr17:15555261-15562115 chr17:15557749-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 64;8 N mutually_exclusive CUFF.620 chr17 - chr17:79354385-79358745,chr17:79358833-79358928 chr17:79354385-79355676,chr17:79355741-79358928 chr17:79358746-79358832 chr17:79355677-79355740 33;60 K intron_retention CUFF.622 chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 86;384 N alternative_acceptor CUFF.623 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 59;498 K alternative_last_exon CUFF.558 chr17 - chr17:15492542-15499827 chr17:15498141-15499827,chr17:15498205-15499827 chr17:15491698-15492541 chr17:15498062-15498140 38;169 N intron_retention CUFF.607 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 182;155 N jcn_only_AA CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 567;50 K intron_retention CUFF.556 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 32;91 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 39;167 K intron_retention CUFF.617 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 251;11 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 38;34 N intron_retention CUFF.607 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 49;174 N alternative_donor CUFF.585 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 179;4 K intron_retention CUFF.624 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 413;45 K intron_retention chr17 - chr17:1946265-1946368 chr17:1946264-1946265;chr17:1946368-1946369 7;165 N intron_retention chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 80;45 N intron_retention chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 7;71 N jcn_only_AD CUFF.603 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 109;255 N jcn_only_AA chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 87;330 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 28;66 N coord_cassette CUFF.579 chr17 - chr17:34500807-34503839 chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839 chr17:34502090-34502175;chr17:34502339-34502411 60;16 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 241;44 N cassette CUFF.559 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 73;144 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 49;168 K alternative_donor CUFF.592 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 99;80 N intron_retention chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 51;34 N jcn_only_AA CUFF.559 chr17 - chr17:15546131-15562115;chr17:15555261-15562115 chr17:15557749-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 78;24 K jcn_only_AA CUFF.566 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 21;6 K intron_retention CUFF.551 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 639;135 N alternative_donor chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 231;11 N jcn_only_AA CUFF.622 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 1029;135 N intron_retention chr17 - chr17:61906563-61907103 chr17:61906562-61906563;chr17:61907103-61907104 5;159 K alternative_first_exon CUFF.626 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416394-80417867;chr17:80417325-80417867 chr17:80416707-80417867 chr17:80416056-80416393;chr17:80417311-80417324 chr17:80416503-80416706 501;784 N jcn_only_AD CUFF.550 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 128;381 N cassette CUFF.592 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 105;144 K intron_retention CUFF.568 chr17 + chr17:25965381-25967668 chr17:25965380-25965381;chr17:25967668-25967669 161;176 K jcn_only_AD CUFF.550 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 90;139 K jcn_only_AD CUFF.551 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 18;398 K alternative_last_exon CUFF.618 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250831-79250933 chr17:79253497-79253960 109;121 N jcn_only_AD CUFF.556 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 510;193 N jcn_only_AA CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 489;128 N jcn_only_AA CUFF.625 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1088;53 K alternative_first_exon CUFF.591 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46710954 chr17:46685591-46685758 37;58 K intron_retention CUFF.626 chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 11;33 K alternative_first_exon CUFF.594 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307939-47308199 chr17:47307830-47307890 81;90 N jcn_only_AD chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 123;78 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 62;126 N jcn_only_AA CUFF.626 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436447-80436675 chr17:80436675-80436676 394;13 K cassette CUFF.573 chr17 + chr17:29687722-29701030 chr17:29687722-29694242;chr17:29694297-29701030 chr17:29694243-29694296 262;58 K cassette CUFF.581 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 57;168 N jcn_only_AD CUFF.573 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 29;22 K intron_retention CUFF.551 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 414;51 K alternative_acceptor CUFF.568 chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 161;265 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 chr17:66511535-66511717 48;81 K intron_retention CUFF.607 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 49;88 K intron_retention CUFF.551 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 295;54 N intron_retention chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 70;78 K cassette CUFF.557 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 22;39 N jcn_only_AD CUFF.603 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 307;56 K intron_retention CUFF.551 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 253;53 N jcn_only_AA CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 584;94 N jcn_only_AD CUFF.556 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 663;40 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 279;6 N jcn_only_AA CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 538;139 N intron_retention chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 chr17:66511535-66511717 148;64 N coord_cassette CUFF.568 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 19;478 K jcn_only_AD CUFF.591,CUFF.625 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 44;1088 K alternative_last_exon CUFF.558 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15491698-15492541 9;79 K intron_retention CUFF.603 chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 39;547 N alternative_acceptor CUFF.626 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436447-80436675 chr17:80436675-80436676 394;4 N jcn_only_AA CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 544;73 N cassette CUFF.561 chr17 + chr17:15603483-15604465 chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603587-15603680 20;68 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 chr17:66511128-66511260 62;56 K intron_retention CUFF.622 chr17 - chr17:79477356-79477504 chr17:79477355-79477356;chr17:79477504-79477505 86;620 K cassette CUFF.550 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 724;544 N jcn_only_AA CUFF.554 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 245;35 K alternative_first_exon CUFF.554,CUFF.622 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5408762 chr17:5403351-5404520 98;266 K cassette CUFF.559 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 75;221 K intron_retention chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 870;53 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 50;100 N jcn_only_AD CUFF.618 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 54;30 N intron_retention CUFF.598 chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 43;22 N intron_retention chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 53;208 N alternative_acceptor chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61574498-61584416 chr17:61584416-61584417 7;25 N cassette CUFF.568 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 27;351 N alternative_acceptor CUFF.607 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 643;80 N coord_cassette CUFF.568 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 19;334 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 151;433 N alternative_acceptor chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 232;491 N jcn_only_AA CUFF.571,CUFF.611 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 591;36 N alternative_acceptor CUFF.579 chr17 - chr17:34500807-34502089 chr17:34501989-34502089 chr17:34500807-34501988 chr17:34500806-34500807 3;8 N mutually_exclusive CUFF.559 chr17 - chr17:15584268-15586167,chr17:15586266-15586349 chr17:15584268-15584364,chr17:15584537-15586349 chr17:15586168-15586265 chr17:15584365-15584536 300;17 K intron_retention CUFF.573 chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 384;9 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 52;152 K coord_cassette CUFF.617 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 160;166 N intron_retention chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 193;229 N jcn_only_AD CUFF.598 chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 17;43 N jcn_only_AA CUFF.559 chr17 - chr17:15555261-15562115;chr17:15557749-15562115 chr17:15546131-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 46;56 N cassette CUFF.603 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 50;572 N jcn_only_AD CUFF.573 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 51;238 N intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 138;118 K intron_retention CUFF.597 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 111;156 N jcn_only_AA CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 778;49 N alternative_acceptor CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 439;30 K intron_retention CUFF.607 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 2193;64 K cassette CUFF.571 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 22;95 K jcn_only_AD CUFF.592 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 99;111 N alternative_acceptor CUFF.550 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 497;84 N alternative_donor CUFF.573 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 22;0 K intron_retention CUFF.625 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 1274;82 N alternative_acceptor CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 636;87 K intron_retention CUFF.551 chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 5;28 N jcn_only_AD CUFF.573 chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 48;39 N cassette CUFF.603 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 55;289 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 42;260 N alternative_donor CUFF.598 chr17 - chr17:57775340-57784731 chr17:57775340-57776231 chr17:57776232-57784731 chr17:57784731-57784732 17;19 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 256;23 K intron_retention chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 chr17:66511128-66511260 10;38 N jcn_only_AA CUFF.618 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 24;132 K alternative_first_exon CUFF.563 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380271-17380579 chr17:17388614-17388747 16;25 K cassette CUFF.626 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 356;784 K jcn_only_AD CUFF.550 chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 276;94 N alternative_donor CUFF.622 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 1029;48 K intron_retention CUFF.622 chr17 - chr17:79479169-79479257 chr17:79479168-79479169;chr17:79479257-79479258 819;116 K intron_retention CUFF.607 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 1063;41 N alternative_donor CUFF.623 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 55;3 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 512;32 K alternative_donor CUFF.551 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 18;241 N alternative_donor CUFF.611 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 460;28 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 73;556 N alternative_acceptor CUFF.554 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5425107-5433378 chr17:5425106-5425107 247;3 N coord_cassette CUFF.573 chr17 + chr17:29664899-29667522 chr17:29664899-29665019;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665020-29665157;chr17:29665722-29665823 56;115 K alternative_first_exon CUFF.554,CUFF.590 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42340004-42340094 chr17:42339395-42339485 32;139 N intron_retention chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 12;185 K intron_retention CUFF.608 chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 22;132 N alternative_acceptor CUFF.626 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 795;11 K intron_retention CUFF.551 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 276;77 N alternative_donor chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 13;1 N jcn_only_AA CUFF.626 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 153;512 N alternative_acceptor CUFF.626 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 153;471 N cassette CUFF.620 chr17 - chr17:79354385-79358928;chr17:79355741-79358928 chr17:79355741-79358745,chr17:79354385-79358745;chr17:79358833-79358928 chr17:79358746-79358832 115;701 N alternative_acceptor CUFF.594 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 122;80 N alternative_acceptor CUFF.550 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 517;49 N jcn_only_AA CUFF.578 chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 293;40 N alternative_acceptor CUFF.597 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 52;128 K jcn_only_AA CUFF.578 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 71;210 N alternative_acceptor CUFF.626 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 795;11 N alternative_donor CUFF.600 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 16;16 N jcn_only_AA chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75544053-75557026 chr17:75557026-75557027 13;11 N alternative_acceptor CUFF.559 chr17 - chr17:15546131-15562115;chr17:15557749-15562115 chr17:15555261-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 64;8 N jcn_only_AD chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 13;4 K intron_retention chr17 + chr17:79890661-79890871 chr17:79890660-79890661;chr17:79890871-79890872 11;153 N alternative_donor CUFF.573 chr17 + chr17:29667602-29670026 chr17:29667664-29670026 chr17:29667602-29667663 chr17:29667601-29667602 51;142 K alternative_first_exon CUFF.626 chr17 + chr17:80417000-80417867,chr17:80416385-80417867;chr17:80416394-80417867;chr17:80416707-80417867 chr17:80417325-80417867 chr17:80416056-80416393;chr17:80416503-80416706 chr17:80417311-80417324 1237;48 N jcn_only_AD CUFF.626 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 831;26 N jcn_only_AD CUFF.603 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 260;135 K intron_retention CUFF.550 chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 90;622 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 51;110 N intron_retention CUFF.622 chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 35;31 N alternative_acceptor CUFF.607 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 2193;92 K alternative_first_exon CUFF.603 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554327-61554704 chr17:61554789-61555151 358;513 N alternative_donor CUFF.556 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 554;9 N alternative_donor CUFF.556 chr17 + chr17:6352728-6353347 chr17:6353099-6353347 chr17:6352728-6353098 chr17:6352727-6352728 417;14 N cassette CUFF.620 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676;chr17:79355741-79358745,chr17:79355741-79358928 chr17:79355677-79355740 93;805 N alternative_acceptor CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 688;35 K intron_retention CUFF.568 chr17 + chr17:25965381-25967597 chr17:25965380-25965381;chr17:25967597-25967598 294;25 N coord_cassette CUFF.559 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15580888;chr17:15581036-15584178 chr17:15562116-15562190;chr17:15580490-15580594;chr17:15580889-15581035 165;51 K jcn_only_AD CUFF.607 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 49;870 K cassette CUFF.573 chr17 + chr17:29677337-29683477 chr17:29677337-29679274;chr17:29679433-29683477 chr17:29679275-29679432 53;173 K cassette CUFF.603 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 34;319 K intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 553;180 N cassette CUFF.592 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 105;162 N alternative_acceptor CUFF.603 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 390;4 K coord_cassette CUFF.585 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 340;198 N cassette CUFF.556 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 98;268 N alternative_donor CUFF.556 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 370;193 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 81;87 N jcn_only_AA chr17 - chr17:5487280-5487612 chr17:5487424-5487612 2;61 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 50;565 K intron_retention CUFF.550 chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 94;129 K intron_retention CUFF.550 chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 139;225 K intron_retention CUFF.592 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 99;85 N intron_retention chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 61;253 N cassette CUFF.559 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 292;98 K alternative_last_exon CUFF.625 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993751-79993939 37;713 K intron_retention CUFF.559 chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 60;302 N alternative_donor CUFF.600 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 28;4 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 35;206 N coord_cassette CUFF.573 chr17 + chr17:29576138-29585361 chr17:29576138-29579955;chr17:29580019-29584704;chr17:29584745-29585361 chr17:29579956-29580018;chr17:29584705-29584744 27;313 N cassette CUFF.623 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 94;277 K intron_retention CUFF.573 chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 373;8 K jcn_only_AD CUFF.626 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 432;436 K cassette CUFF.610 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 15;54 K intron_retention CUFF.568 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 434;7 K jcn_only_AA CUFF.573 chr17 + chr17:29664899-29665042 chr17:29664899-29665019 chr17:29665020-29665042 chr17:29665042-29665043 137;36 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 960;180 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 15;43 N alternative_acceptor CUFF.556 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 470;12 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 73;49 N coord_cassette CUFF.559 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 140;207 K intron_retention chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 48;25 K alternative_acceptor CUFF.573 chr17 + chr17:29664899-29665042 chr17:29664899-29665019 chr17:29665020-29665042 chr17:29665042-29665043 137;20 N intron_retention CUFF.622 chr17 - chr17:79478653-79478788 chr17:79478652-79478653;chr17:79478788-79478789 103;72 K cassette CUFF.610 chr17 - chr17:66279265-66287226 chr17:66279265-66281685;chr17:66281784-66287226 chr17:66281686-66281783 6;26 K intron_retention CUFF.584 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 40;21 N alternative_acceptor chr17 + chr17:5402041-5402751 chr17:5402041-5402749 chr17:5402750-5402751 chr17:5402751-5402752 6;3 K intron_retention CUFF.564 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 187;179 K intron_retention CUFF.559 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 573;85 N jcn_only_AA CUFF.603 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 288;107 N jcn_only_AD CUFF.573 chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 41;9 N intron_retention chr17 - chr17:79994965-79995325 chr17:79994964-79994965;chr17:79995325-79995326 316;88 N intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 84;170 N jcn_only_AD CUFF.600 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 187;44 N jcn_only_AD CUFF.551 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 315;56 N alternative_first_exon CUFF.549 chr17 - chr17:653150-655857;chr17:653150-654890 chr17:653150-655372 chr17:655858-655995;chr17:654891-655335 chr17:655373-655501 198;16 K alternative_first_exon CUFF.550,CUFF.594 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47304009-47304120 chr17:47303018-47303085 67;18 N alternative_acceptor CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 440;126 K intron_retention CUFF.618 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 54;103 N coord_cassette CUFF.568 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 19;426 N cassette CUFF.554 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 97;120 K jcn_only_AA CUFF.592,CUFF.611 chr17 + chr17:46986183-46993437 chr17:46986183-46988169 34;94 K intron_retention CUFF.607 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 59;132 N jcn_only_AD CUFF.600 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 55;175 N alternative_acceptor CUFF.573 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 22;0 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 50;40 N cassette CUFF.625 chr17 - chr17:79994890-79995506 chr17:79994890-79995325;chr17:79995418-79995506 chr17:79995326-79995417 135;278 K alternative_acceptor CUFF.556 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 183;72 N jcn_only_AD CUFF.603 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 311;53 N alternative_acceptor CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 462;104 K jcn_only_AA CUFF.556 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353559-6353681 chr17:6353681-6353682 183;32 N intron_retention CUFF.622 chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 28;35 N coord_cassette CUFF.617 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 160;198 N cassette CUFF.611 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 chr17:66507921-66508283;chr17:66511535-66511717 230;115 K cassette CUFF.603 chr17 + chr17:61560051-61560820 chr17:61560051-61560389;chr17:61560535-61560820 chr17:61560390-61560534 80;121 N cassette CUFF.568 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 185;224 N alternative_acceptor CUFF.603 chr17 + chr17:61562734-61563652;chr17:61562734-61563917 chr17:61562734-61563719 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 267;35 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 40;1022 K alternative_acceptor CUFF.566 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 21;10 N alternative_acceptor CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 404;65 N intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 85;376 N jcn_only_AD CUFF.573 chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 65;22 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 chr17:66511128-66511260 35;55 N alternative_first_exon chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77005746-77006021 chr17:77004145-77004214 159;26 N cassette CUFF.554 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 143;107 N cassette CUFF.561 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 24;76 K intron_retention CUFF.626 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 784;36 K alternative_first_exon CUFF.623 chr17 - chr17:79894738-79895055,chr17:79894738-79895068,chr17:79894738-79895103,chr17:79894738-79895133,chr17:79894738-79895403;chr17:79894738-79895137 chr17:79894738-79894845 chr17:79895138-79895266 chr17:79894846-79895051 577;134 K jcn_only_AA CUFF.626 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 76;700 K alternative_acceptor CUFF.559 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 573;120 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 118;84 K alternative_first_exon CUFF.626 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436676-80436794 chr17:80438420-80438420 583;11 K cassette CUFF.610 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 45;20 N jcn_only_AA CUFF.551 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 86;26 N alternative_acceptor CUFF.573,CUFF.616 chr17 + chr17:29706042-29708890 chr17:29706042-29706123 chr17:29706124-29708890 chr17:29708890-29708891 26;5 N jcn_only_AA CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 645;182 K alternative_donor CUFF.591,CUFF.625 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 44;612 N jcn_only_AA chr17 + chr17:5402041-5402751 chr17:5402041-5402749 chr17:5402750-5402751 chr17:5402751-5402752 6;5 K intron_retention CUFF.622 chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 383;82 K alternative_acceptor CUFF.626 chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 76;344 K cassette CUFF.568 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 226;380 N alternative_acceptor chr17 + chr17:75543175-75557026 chr17:75543175-75544052 chr17:75544053-75557026 chr17:75557026-75557027 13;1 N alternative_acceptor CUFF.571,CUFF.611 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 591;17 K cassette CUFF.561 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 83;21 K alternative_first_exon CUFF.549,CUFF.625 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994067-79994184 chr17:79994023-79994057 866;30 N jcn_only_AD CUFF.573 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 64;32 N coord_cassette CUFF.559 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178 chr17:15562116-15562190;chr17:15580490-15580594 165;31 N jcn_only_AA CUFF.554 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 276;4 N alternative_acceptor CUFF.551 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 295;35 N mutually_exclusive CUFF.623 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 18;12 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 136;260 N intron_retention chr17 - chr17:61904838-61906477 chr17:61904837-61904838;chr17:61906477-61906478 4;231 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 14;228 N alternative_donor CUFF.623 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 46;12 K intron_retention CUFF.625 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 943;272 N alternative_acceptor CUFF.550 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 551;15 K intron_retention CUFF.618 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 214;157 K intron_retention CUFF.568 chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 495;22 N alternative_acceptor CUFF.550 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 258;211 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 326;273 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 3;44 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 78;119 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 293;98 N cassette CUFF.585 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 49;45 K coord_cassette CUFF.610 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66281685;chr17:66281784-66287226 chr17:66279138-66279264;chr17:66281686-66281783 45;25 N jcn_only_AA CUFF.603 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 339;78 N alternative_acceptor CUFF.611 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 460;68 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 98;72 N alternative_acceptor CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 396;73 N jcn_only_AA CUFF.568 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 672;32 N alternative_acceptor CUFF.594 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 89;113 K intron_retention CUFF.603 chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 56;62 N cassette CUFF.623 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 96;437 N jcn_only_AD chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 231;22 N jcn_only_AD CUFF.585 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 chr17:40739852-40744073 chr17:40744073-40744074 179;88 N jcn_only_AA CUFF.623 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 59;1080 N jcn_only_AA CUFF.594 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 121;113 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 24;132 N cassette CUFF.607 chr17 + chr17:61905570-61907211 chr17:61905570-61906853;chr17:61906924-61907211 chr17:61906854-61906923 43;625 N alternative_acceptor chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 64;330 K intron_retention CUFF.625 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 1351;138 K cassette CUFF.587 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 72;129 N alternative_acceptor CUFF.625 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 1088;124 N jcn_only_AA CUFF.550 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 629;49 N jcn_only_AD CUFF.623 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 852;27 N cassette CUFF.626 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 387;405 N alternative_donor CUFF.626 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 831;122 N alternative_first_exon CUFF.549 chr17 - chr17:653150-654890;chr17:653150-655372 chr17:653150-655857 chr17:654891-655335;chr17:655373-655501 chr17:655858-655995 175;39 N alternative_acceptor CUFF.594 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 193;9 K intron_retention CUFF.625 chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 44;219 N jcn_only_AA CUFF.603 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 407;10 K jcn_only_AA CUFF.559 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 573;40 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 43;83 K intron_retention CUFF.620 chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 976;19 K alternative_first_exon CUFF.551 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945062-1945169 chr17:1945354-1945525 361;23 N cassette CUFF.551 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 95;263 N cassette CUFF.580 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 81;44 N alternative_acceptor CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 693;30 N alternative_donor CUFF.607 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 491;160 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 15;149 N coord_cassette CUFF.623 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 75;312 N cassette CUFF.559 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 140;181 N jcn_only_AA CUFF.573 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 64;18 K intron_retention chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 284;13 K intron_retention CUFF.622 chr17 - chr17:79478653-79478928 chr17:79478652-79478653;chr17:79478928-79478929 1029;45 K alternative_donor CUFF.550 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 90;589 K intron_retention CUFF.626 chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 356;90 N jcn_only_AA CUFF.625 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 433;316 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 28;142 N cassette CUFF.607 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 80;788 N jcn_only_AD CUFF.622 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478789-79478928 chr17:79478928-79478929 1029;103 N jcn_only_AA chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 32;784 N alternative_donor CUFF.597 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 370;30 N alternative_acceptor CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 294;272 K alternative_first_exon CUFF.571 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421945-29422387 chr17:29455480-29455525 116;26 K cassette CUFF.581 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 5;36 N intron_retention chr17 - chr17:79479142-79479257 chr17:79479141-79479142;chr17:79479257-79479258 48;260 N jcn_only_AD CUFF.573 chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 31;20 N jcn_only_AA CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 527;90 K alternative_first_exon CUFF.622 chr17 - chr17:79479387-79479489,chr17:79479387-79479640,chr17:79479387-79481572;chr17:79479387-79490667;chr17:79479387-79479759 chr17:79479387-79479631 chr17:79490668-79490764;chr17:79479760-79479900 chr17:79479632-79479632 559;6 K intron_retention CUFF.603 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 99;99 N intron_retention CUFF.585 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 88;24 N alternative_donor CUFF.618 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 54;22 N alternative_acceptor CUFF.578 chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 293;59 K intron_retention CUFF.607 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 931;38 K alternative_last_exon CUFF.618 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220685-79220861 chr17:79223893-79223893 139;24 N jcn_only_AA CUFF.573 chr17 + chr17:29592358-29652837 chr17:29592358-29626527 chr17:29626528-29652837 chr17:29652837-29652838 22;15 K coord_cassette CUFF.559 chr17 - chr17:15584268-15586349 chr17:15584268-15584364;chr17:15584537-15586167;chr17:15586266-15586349 chr17:15584365-15584536;chr17:15586168-15586265 301;19 K alternative_first_exon CUFF.622 chr17 - chr17:79479387-79479489,chr17:79479387-79479640,chr17:79479387-79481572;chr17:79479387-79479631;chr17:79479387-79490667 chr17:79479387-79479759 chr17:79479632-79479632;chr17:79490668-79490764 chr17:79479760-79479900 301;264 K intron_retention CUFF.607 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 945;49 N intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 117;140 K alternative_first_exon CUFF.592 chr17 + chr17:46986183-46993437 chr17:46990328-46993437,chr17:46990384-46993437 chr17:46985731-46986182 chr17:46990196-46990327 30;177 N jcn_only_AA chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 21;70 K cassette CUFF.618 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 144;53 K alternative_acceptor CUFF.578 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 71;104 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 39;839 N jcn_only_AA CUFF.597 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 52;111 N alternative_acceptor CUFF.618 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 24;122 K intron_retention CUFF.622 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 788;29 N coord_cassette CUFF.617 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 104;177 N alternative_acceptor CUFF.568 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 672;4 N jcn_only_AA CUFF.579 chr17 - chr17:34500807-34502089 chr17:34501989-34502089 chr17:34500807-34501988 chr17:34500806-34500807 3;13 K intron_retention CUFF.625 chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 1088;203 K intron_retention CUFF.590 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 21;19 K jcn_only_AA CUFF.558 chr17 - chr17:15498141-15499827 chr17:15498205-15499827 chr17:15498141-15498204 chr17:15498140-15498141 107;134 N cassette CUFF.617 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 776;204 N jcn_only_AA CUFF.559 chr17 - chr17:15546131-15562115;chr17:15557749-15562115 chr17:15555261-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 80;22 N jcn_only_AA CUFF.550 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 296;381 K alternative_first_exon CUFF.558 chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499976 chr17:15496651-15496809 36;95 N coord_cassette CUFF.573 chr17 + chr17:29664899-29667522 chr17:29664899-29665042;chr17:29665158-29665721;chr17:29665824-29667522 chr17:29665043-29665157;chr17:29665722-29665823 56;141 N jcn_only_AA CUFF.603 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 50;235 K intron_retention CUFF.573 chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 318;4 N cassette CUFF.559 chr17 - chr17:15584268-15586349;chr17:15584268-15586167 chr17:15584268-15584364;chr17:15584537-15586167,chr17:15584537-15586349 chr17:15584365-15584536 735;38 N alternative_acceptor CUFF.573 chr17 + chr17:29657517-29661855 chr17:29657517-29661681 chr17:29661682-29661855 chr17:29661855-29661856 64;6 N jcn_only_AA CUFF.550 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 497;32 N alternative_acceptor CUFF.559 chr17 - chr17:15555261-15562115;chr17:15557749-15562115 chr17:15546131-15562115 chr17:15546131-15555260;chr17:15555261-15557748 chr17:15546130-15546131;chr17:15555260-15555261 16;56 N alternative_donor CUFF.573 chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 chr17:29592358-29626624;chr17:29626625-29645582 chr17:29592357-29592358;chr17:29626624-29626625 0;22 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 83;305 K intron_retention CUFF.550 chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 276;526 N jcn_only_AA CUFF.594 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 140;94 N alternative_donor CUFF.603 chr17 + chr17:61562734-61563917 chr17:61563733-61563917 chr17:61562734-61563732 chr17:61562733-61562734 260;68 N alternative_donor CUFF.573 chr17 + chr17:29706376-29708890;chr17:29706042-29708890 chr17:29707246-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 37;10 K intron_retention CUFF.573 chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 298;3 K cassette CUFF.561 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 96;101 N alternative_donor CUFF.600 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 20;12 N alternative_donor CUFF.573 chr17 + chr17:29657517-29661855 chr17:29661749-29661855 chr17:29657517-29661748 chr17:29657516-29657517 64;13 N jcn_only_AA CUFF.554 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 38;241 N alternative_donor CUFF.551 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 315;20 N intron_retention chr17 - chr17:5487280-5487612 chr17:5487279-5487280;chr17:5487612-5487613 2;185 N jcn_only_AA CUFF.607 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 777;50 N intron_retention chr17 + chr17:61573785-61574893 chr17:61573784-61573785;chr17:61574893-61574894 11;181 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 22;4 N alternative_first_exon chr17 - chr17:76993727-77005745 chr17:76993727-76993921 chr17:77005746-77006021 chr17:76993922-76994045 18;795 N alternative_acceptor CUFF.603 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 295;7 N alternative_acceptor chr17 + chr17:80436795-80438282;chr17:80436795-80437813 chr17:80436795-80438957 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 22;784 K intron_retention CUFF.557 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 29;44 K intron_retention CUFF.573 chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 49;150 N cassette CUFF.573 chr17 + chr17:29580019-29585361;chr17:29576138-29585361 chr17:29580019-29584704,chr17:29576138-29584704;chr17:29584745-29585361 chr17:29584705-29584744 30;368 N alternative_donor CUFF.550 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 128;675 N jcn_only_AA CUFF.607 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 2193;128 K intron_retention CUFF.626 chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 396;136 K alternative_last_exon CUFF.611 chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66547225-66547319 chr17:66526418-66528912 24;391 K intron_retention CUFF.551 chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 18;64 N cassette CUFF.559 chr17 - chr17:15546131-15584178;chr17:15562191-15584178 chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178 chr17:15580490-15580594 270;72 K intron_retention CUFF.611 chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 468;52 N alternative_acceptor CUFF.603 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 334;60 N alternative_donor CUFF.556 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 202;361 N jcn_only_AD CUFF.607 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 491;293 N jcn_only_AA CUFF.603 chr17 + chr17:61562734-61563917;chr17:61562734-61563719 chr17:61562734-61563652 chr17:61563653-61563719;chr17:61563720-61563917 chr17:61563719-61563720;chr17:61563917-61563918 366;29 N jcn_only_AD CUFF.623 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 866;12 N alternative_acceptor CUFF.625 chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 433;312 K intron_retention CUFF.625 chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 259;269 N alternative_acceptor chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80443373-80446096 chr17:80446096-80446097 21;114 N intron_retention CUFF.607 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 74;73 K coord_cassette CUFF.561 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15603586;chr17:15603681-15604465 chr17:15603362-15603482;chr17:15603587-15603680 24;71 N alternative_first_exon CUFF.607 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61907631-61907861 chr17:61908029-61908295 45;1611 K intron_retention CUFF.622 chr17 - chr17:79479387-79479631 chr17:79479386-79479387;chr17:79479631-79479632 6;31 N cassette CUFF.559 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 324;320 N intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 36;132 N jcn_only_AA CUFF.550 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 663;14 N alternative_acceptor CUFF.550 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 379;90 N jcn_only_AA CUFF.622 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 48;819 K intron_retention chr17 - chr17:79994890-79995325 chr17:79994889-79994890;chr17:79995325-79995326 433;225 N intron_retention chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 128;618 N jcn_only_AA CUFF.626 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 796;20 N jcn_only_AA CUFF.573,CUFF.616 chr17 + chr17:29706042-29708890 chr17:29706042-29706123 chr17:29706124-29708890 chr17:29708890-29708891 26;13 K cassette CUFF.606 chr17 - chr17:61843555-61850771 chr17:61843555-61850136;chr17:61850224-61850771 chr17:61850137-61850223 107;37 K alternative_last_exon CUFF.563 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396540 chr17:17388614-17388879 8;46 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 135;395 K intron_retention CUFF.597 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 224;69 N jcn_only_AD CUFF.573 chr17 + chr17:29706376-29708890;chr17:29707246-29708890 chr17:29706042-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 62;26 K intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 230;114 N alternative_donor CUFF.573 chr17 + chr17:29706042-29708890;chr17:29707246-29708890 chr17:29706376-29708890 chr17:29706042-29706375;chr17:29706376-29707245 chr17:29706041-29706042;chr17:29706375-29706376 36;11 N jcn_only_AA CUFF.550 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 341;276 N alternative_acceptor CUFF.551 chr17 + chr17:80416385-80417867 chr17:80416385-80417150 chr17:80417151-80417867 chr17:80417867-80417868 86;12 K alternative_first_exon CUFF.591 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685758 chr17:46710876-46710954 77;18 N intron_retention CUFF.607 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 50;108 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 40;106 K intron_retention CUFF.587 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 113;78 K cassette CUFF.588 chr17 - chr17:42113669-42114779 chr17:42113669-42114229;chr17:42114471-42114779 chr17:42114230-42114470 77;139 K coord_cassette CUFF.507 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 643;84 K cassette CUFF.529 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 248;26 K cassette CUFF.487 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 65;131 K intron_retention CUFF.506 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 246;32 N alternative_acceptor CUFF.533,CUFF.539 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 228;88 N alternative_acceptor chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 102;212 K intron_retention CUFF.525 chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 27;28 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 133;3 N alternative_acceptor CUFF.543 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 5;50 K intron_retention CUFF.518 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 180;56 K intron_retention CUFF.522 chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 14;28 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 3;342 K intron_retention CUFF.489 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 878;170 N cassette CUFF.486 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 251;711 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 20;85 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 352;38 N alternative_donor chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 159;11 N alternative_acceptor CUFF.489 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 762;14 N jcn_only_AA CUFF.502 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 205;145 N alternative_acceptor CUFF.539 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 5;10 N jcn_only_AD CUFF.502 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 162;450 K intron_retention CUFF.547 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 596;101 K intron_retention CUFF.547 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 581;37 N alternative_first_exon CUFF.493 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4524849-4555484;chr16:4526419-4555484 chr16:4546029-4555484 chr16:4524691-4524848;chr16:4526294-4526418 chr16:4545786-4546028 422;53 N alternative_donor CUFF.533 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 72;81 K intron_retention CUFF.537 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 32;17 K alternative_first_exon CUFF.523 chr16 + chr16:56260484-56309842;chr16:56226529-56309842;chr16:56269297-56309842 chr16:56227625-56309842 chr16:56226486-56226528;chr16:56269198-56269296 chr16:56227531-56227624 72;255 K alternative_acceptor CUFF.545 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 31;10 K intron_retention CUFF.513 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 735;27 K intron_retention CUFF.518 chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 34;191 N jcn_only_AD CUFF.473 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 154;44 N cassette CUFF.489 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 119;398 K intron_retention chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 140;88 N coord_cassette CUFF.502 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 48;649 N intron_retention chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 13;67 N jcn_only_AA CUFF.538 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 7;92 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 92;183 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 170;0 N jcn_only_AA CUFF.489 chr16 - chr16:4458199-4462356 chr16:4458253-4462356 chr16:4458199-4458252 chr16:4458198-4458199 46;905 K intron_retention CUFF.513 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 220;269 N alternative_acceptor CUFF.506 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 356;1 K intron_retention CUFF.539 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 157;63 N jcn_only_AA CUFF.502 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 396;100 K cassette CUFF.539 chr16 + chr16:70380952-70384459 chr16:70380952-70381777;chr16:70381894-70384459 chr16:70381778-70381893 222;30 N mutually_exclusive CUFF.486 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 76;44 N jcn_only_AA CUFF.476,CUFF.486 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 45;97 N jcn_only_AA CUFF.530 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 68;78 K jcn_only_AD CUFF.489 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 512;426 N alternative_acceptor CUFF.525 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1870;9 N intron_retention chr16 - chr16:57513601-57521042 chr16:57513600-57513601;chr16:57521042-57521043 40;93 K intron_retention CUFF.518 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 391;76 N coord_cassette CUFF.502 chr16 + chr16:19621738-19637498 chr16:19621738-19623049;chr16:19623121-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19623050-19623120;chr16:19627436-19627513;chr16:19628008-19628130 61;403 N alternative_acceptor chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 50;469 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 113;57 N alternative_donor CUFF.489 chr16 - chr16:4463406-4466785 chr16:4463406-4466459 chr16:4466460-4466785 chr16:4466785-4466786 11;602 N jcn_only_AD CUFF.473 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 660;36 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1110;27 N cassette CUFF.518 chr16 - chr16:30005130-30006423 chr16:30005130-30005968;chr16:30006165-30006423 chr16:30005969-30006164 210;30 K cassette CUFF.489 chr16 - chr16:4411471-4411985 chr16:4411471-4411749;chr16:4411805-4411985 chr16:4411750-4411804 603;145 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77775866 chr16:77769725-77770146 79;319 N alternative_acceptor CUFF.538 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 7;42 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 184;130 N jcn_only_AA CUFF.473 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 660;39 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 599;37 N cassette CUFF.502 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 21;210 N alternative_donor CUFF.474 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 35;0 N alternative_donor CUFF.506 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 356;2 N alternative_acceptor CUFF.523 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 22;0 K intron_retention CUFF.518 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 603;19 K alternative_donor CUFF.547 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 350;110 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 175;139 K jcn_only_AD CUFF.531,CUFF.545 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 85;114 N jcn_only_AD CUFF.474 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 35;5 K jcn_only_AD CUFF.541 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 143;45 K cassette CUFF.533 chr16 + chr16:67233660-67234094 chr16:67233660-67233853;chr16:67233905-67234094 chr16:67233854-67233904 45;432 N cassette CUFF.541 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 48;54 N alternative_donor CUFF.502 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 162;212 N alternative_donor CUFF.489,CUFF.541 chr16 - chr16:4466963-4475478 chr16:4466963-4470359 chr16:4470360-4475478 chr16:4475478-4475479 57;3 K intron_retention CUFF.478 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 151;89 N jcn_only_AD CUFF.533 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 72;162 K intron_retention CUFF.541 chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 113;52 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1096;40 N jcn_only_AA CUFF.523 chr16 + chr16:56226529-56309842;chr16:56226529-56247183 chr16:56226529-56268924 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 175;39 K intron_retention CUFF.507 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 152;8 K intron_retention CUFF.476 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 22;83 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 chr16:57513601-57520216 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1132;4 N alternative_first_exon CUFF.493 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4524849-4555484;chr16:4546029-4555484 chr16:4526419-4555484 chr16:4524691-4524848;chr16:4545786-4546028 chr16:4526294-4526418 388;87 N intron_retention CUFF.520 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 9;21 K intron_retention CUFF.547 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 356;44 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 chr16:57513601-57520216 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 170;0 N mutually_exclusive CUFF.486 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 34;261 N coord_cassette CUFF.486 chr16 + chr16:3117417-3118180 chr16:3117417-3117554;chr16:3117615-3117984;chr16:3118012-3118180 chr16:3117555-3117614;chr16:3117985-3118011 62;1267 K jcn_only_AA CUFF.545 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 31;22 N alternative_donor CUFF.541 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 123;3 K alternative_first_exon CUFF.486 chr16 + chr16:3115689-3115784,chr16:3115712-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115298-3115495 chr16:3115596-3115656 1030;229 N coord_cassette CUFF.507 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 35;39 K alternative_first_exon CUFF.545 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812593-87812980 chr16:87812414-87812490 89;17 K cassette CUFF.539 chr16 + chr16:70390151-70394679;chr16:70390151-70395320 chr16:70390151-70390748;chr16:70390810-70394679,chr16:70390810-70395320 chr16:70390749-70390809 246;69 N cassette CUFF.501 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 54;139 N alternative_donor CUFF.473 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 660;138 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 56;133 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 59;201 K jcn_only_AD CUFF.506 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 6;10 N mutually_exclusive CUFF.533 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 41;26 N alternative_donor chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 320;293 N intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 307;86 N cassette CUFF.522 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 9;35 N jcn_only_AA CUFF.474 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 176;16 N cassette CUFF.501 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 19;181 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 66;164 K alternative_acceptor CUFF.539 chr16 + chr16:70390151-70390748 chr16:70390151-70390725 chr16:70390726-70390748 chr16:70390748-70390749 41;22 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 167;3 K cassette CUFF.522 chr16 + chr16:31374696-31382404 chr16:31374696-31381301;chr16:31381420-31382404 chr16:31381302-31381419 16;2 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521007 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 936;201 N alternative_acceptor CUFF.476,CUFF.486 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 45;180 N alternative_donor CUFF.506 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 282;55 N alternative_acceptor CUFF.530 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 68;4 N alternative_donor CUFF.506 chr16 + chr16:21716359-21716489;chr16:21712391-21716489 chr16:21712349-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 4;246 K cassette CUFF.531 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 186;129 N cassette CUFF.543 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 177;28 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 50;31 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:104907-105549;chr16:105794-105882 44;743 K alternative_acceptor CUFF.531 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 118;254 N jcn_only_AD CUFF.506 chr16 + chr16:21716359-21716489;chr16:21712391-21716489 chr16:21712349-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 16;246 K alternative_donor CUFF.513,CUFF.518 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 429;127 K alternative_first_exon CUFF.502 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19612986-19613045 chr16:19619079-19619183 329;608 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 193;21 N cassette CUFF.493 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 22;300 K intron_retention CUFF.531 chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 368;42 N intron_retention chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 chr16:106539-106613 36;117 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;130 K intron_retention CUFF.506 chr16 + chr16:21730513-21730707 chr16:21730512-21730513;chr16:21730707-21730708 360;3 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 21;91 N jcn_only_AD CUFF.525 chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 197;49 N jcn_only_AD chr16 - chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57514241 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 829;307 N cassette CUFF.486 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 121;1551 N cassette CUFF.539 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 122;228 N cassette CUFF.512 chr16 + chr16:22448814-22466022 chr16:22448814-22462940;chr16:22462980-22466022 chr16:22462941-22462979 3;132 K intron_retention CUFF.489 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 1192;82 N alternative_donor CUFF.537,CUFF.538 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 138;4 K intron_retention CUFF.534 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 54;53 K jcn_only_AA CUFF.483 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 22;204 N jcn_only_AD CUFF.537,CUFF.538 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 138;9 N coord_cassette CUFF.539 chr16 + chr16:70390151-70398445 chr16:70390151-70394679;chr16:70394798-70395320;chr16:70395414-70398445 chr16:70394680-70394797;chr16:70395321-70395413 22;74 K intron_retention CUFF.507 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 14;45 K jcn_only_AA CUFF.531 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 118;368 N alternative_acceptor CUFF.520 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 118;15 N coord_cassette CUFF.507 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 197;330 N coord_cassette CUFF.539 chr16 + chr16:70380952-70389387 chr16:70380952-70381777;chr16:70381894-70384459;chr16:70384509-70389387 chr16:70381778-70381893;chr16:70384460-70384508 79;35 K jcn_only_AD CUFF.489 chr16 - chr16:4407261-4408367 chr16:4407261-4407968 107;1028 K jcn_only_AA CUFF.539 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 35;352 K jcn_only_AD CUFF.533 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 795;196 N cassette CUFF.539 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 22;133 N jcn_only_AA CUFF.525 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1870;27 N jcn_only_AA chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 102;385 K intron_retention chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 385;11 K jcn_only_AA CUFF.489 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 105;881 N jcn_only_AA CUFF.513 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 835;429 N jcn_only_AA CUFF.489 chr16 - chr16:4445341-4455491 chr16:4447452-4455491 chr16:4445341-4447451 chr16:4445340-4445341 762;130 N alternative_donor chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 66;418 N intron_retention CUFF.473 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 chr16:105794-105882 39;97 K intron_retention CUFF.534 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 72;60 N coord_cassette CUFF.489 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458199-4462356 chr16:4457502-4457685;chr16:4458182-4458198 157;335 K alternative_first_exon CUFF.513,CUFF.541 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521871 255;847 N jcn_only_AD CUFF.489,CUFF.541 chr16 - chr16:4466963-4475478 chr16:4466963-4470359 chr16:4470360-4475478 chr16:4475478-4475479 57;58 N intron_retention chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 56;88 N jcn_only_AA CUFF.539 chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 5;9 N jcn_only_AA CUFF.531 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 813;21 N jcn_only_AD CUFF.506 chr16 + chr16:21712349-21716489;chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 250;13 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756 chr16:57513601-57514206 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 169;1 K intron_retention CUFF.507 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 655;30 K intron_retention chr16 + chr16:1369864-1370174 chr16:1369863-1369864;chr16:1370174-1370175 10;271 K intron_retention CUFF.486 chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 779;1339 K jcn_only_AA CUFF.531 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 85;545 K cassette CUFF.483 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 203;119 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 67;108 K intron_retention CUFF.531 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 118;141 K intron_retention CUFF.489 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 178;115 N jcn_only_AD chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 5;88 K alternative_last_exon CUFF.489 chr16 - chr16:4407261-4408367 chr16:4408105-4408367 chr16:4407169-4407260 chr16:4407765-4408104 72;837 N cassette CUFF.502 chr16 + chr16:19659205-19663297 chr16:19659205-19661703;chr16:19661782-19663297 chr16:19661704-19661781 84;192 N cassette CUFF.486 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 151;1447 N jcn_only_AD CUFF.513 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 649;777 K cassette CUFF.485 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 187;16 N intron_retention chr16 + chr16:1370285-1370438 chr16:1370284-1370285;chr16:1370438-1370439 4;188 N alternative_acceptor CUFF.502 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 396;129 N jcn_only_AD CUFF.541 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589117-75589701 chr16:75589701-75589702 123;16 N alternative_donor CUFF.488,CUFF.538 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 71;4 N jcn_only_AA CUFF.533,CUFF.539 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 228;93 N coord_cassette CUFF.489 chr16 - chr16:4455569-4462356 chr16:4455569-4457562;chr16:4457686-4458181;chr16:4458199-4462356 chr16:4457563-4457685;chr16:4458182-4458198 157;282 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 1;21 N coord_cassette CUFF.502 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 61;177 K alternative_first_exon CUFF.483 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190717-2190950 chr16:2198793-2198979 68;243 K jcn_only_AD CUFF.518 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 20;21 N jcn_only_AD CUFF.512 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 168;34 N jcn_only_AA CUFF.543 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 5;282 N jcn_only_AA CUFF.506 chr16 + chr16:21737980-21739561 chr16:21737980-21738432 chr16:21738433-21739561 chr16:21739561-21739562 356;9 N jcn_only_AD CUFF.513 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 1376;50 N intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 777;38 N jcn_only_AA CUFF.474 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 52;141 K alternative_first_exon CUFF.513,CUFF.537 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255157-70255304 chr16:70255153-70255153 28;12 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 1884;205 K alternative_last_exon CUFF.515 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25096913-25097093 chr16:25111883-25112006 116;366 N mutually_exclusive CUFF.502 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 49;105 N alternative_first_exon chr16 - chr16:4445341-4447318;chr16:4445341-4466785,chr16:4445341-4466459 chr16:4445341-4455491 chr16:4466786-4466962 chr16:4455492-4455568 184;541 K cassette CUFF.539 chr16 + chr16:70390151-70394679;chr16:70390151-70395320 chr16:70390151-70390725;chr16:70390810-70394679,chr16:70390810-70395320 chr16:70390726-70390809 246;65 K cassette CUFF.507 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 643;82 K jcn_only_AD CUFF.513,CUFF.518 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 429;220 N alternative_acceptor chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 49;86 N alternative_acceptor chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 150;31 K cassette CUFF.539 chr16 + chr16:70390151-70395320;chr16:70390810-70395320 chr16:70390151-70394679,chr16:70390810-70394679;chr16:70394798-70395320 chr16:70394680-70394797 201;108 K alternative_first_exon CUFF.530 chr16 + chr16:66613796-66620899 chr16:66614088-66620899 chr16:66613351-66613795 chr16:66614042-66614087 chr16:66620900-66621001 212;673 N jcn_only_AA CUFF.523 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 60;154 N cassette CUFF.523 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 28;22 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 160;10 K alternative_donor CUFF.533 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 795;98 K alternative_last_exon CUFF.496 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660297-5660675 36;261 N jcn_only_AA CUFF.525 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 140;272 N cassette CUFF.525 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 138;935 K alternative_first_exon CUFF.531,CUFF.541 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75636983-75636984 chr16:75589969-75590222 3;178 N jcn_only_AD CUFF.506 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 282;39 K coord_cassette CUFF.539 chr16 + chr16:70390151-70395320 chr16:70390151-70390725;chr16:70390810-70394679;chr16:70394798-70395320 chr16:70390726-70390809;chr16:70394680-70394797 113;16 K alternative_first_exon CUFF.517 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523406 chr16:28518102-28518155 28;41 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 370;305 N jcn_only_AA CUFF.520 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 118;9 K cassette CUFF.507 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 69;72 K intron_retention CUFF.522 chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 19;18 K alternative_acceptor CUFF.539 chr16 + chr16:70389439-70390031 chr16:70389439-70390014 chr16:70390015-70390031 chr16:70390031-70390032 35;223 N intron_retention chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 102;34 N cassette CUFF.533 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 49;772 N coord_cassette CUFF.539 chr16 + chr16:70390151-70398919 chr16:70390151-70394679;chr16:70394798-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70394680-70394797;chr16:70395321-70395413;chr16:70398446-70398548 76;126 N jcn_only_AA CUFF.506 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 6;7 N alternative_acceptor CUFF.523 chr16 + chr16:56226529-56309842;chr16:56226529-56268924 chr16:56226529-56247183 chr16:56247184-56268924;chr16:56268925-56309842 chr16:56268924-56268925;chr16:56309842-56309843 21;1 K intron_retention CUFF.531 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 86;115 K alternative_donor CUFF.489 chr16 - chr16:4455569-4457562 chr16:4455569-4457501 chr16:4457502-4457562 chr16:4457562-4457563 512;339 N alternative_acceptor CUFF.513 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 865;69 K intron_retention CUFF.497 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 43;172 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57515373 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1061;76 K intron_retention CUFF.539 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 218;32 N alternative_acceptor CUFF.525 chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 140;216 K alternative_donor CUFF.541 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 143;24 K intron_retention CUFF.489 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 1162;31 K intron_retention CUFF.518 chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 91;33 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 100;233 N jcn_only_AA chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 50;997 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 3;313 K coord_cassette CUFF.489 chr16 - chr16:4455569-4462356 chr16:4455569-4457562;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457563-4457685;chr16:4458182-4458252 157;660 N alternative_acceptor CUFF.502 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19663677-19680481 chr16:19680481-19680482 205;6 N cassette CUFF.539 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 76;127 K intron_retention chr16 + chr16:89804996-89805703 chr16:89804995-89804996;chr16:89805703-89805704 5;41 K alternative_first_exon CUFF.523 chr16 + chr16:56260484-56309842;chr16:56227625-56309842;chr16:56269297-56309842 chr16:56226529-56309842 chr16:56227531-56227624;chr16:56269198-56269296 chr16:56226486-56226528 310;17 K intron_retention CUFF.513 chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 129;38 N jcn_only_AD chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 66;568 N alternative_donor CUFF.489 chr16 - chr16:4445341-4466785 chr16:4445341-4466459 chr16:4466460-4466785 chr16:4466785-4466786 20;529 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 62;256 K intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 35;62 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 464;115 N alternative_acceptor CUFF.474 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 40;141 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 20;45 K intron_retention CUFF.489 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 584;70 N jcn_only_AA chr16 + chr16:583999-586028;chr16:583999-597558 chr16:583999-596816 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 157;35 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 272;90 K intron_retention CUFF.473 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 660;85 K alternative_first_exon CUFF.523 chr16 + chr16:56260484-56309842;chr16:56227625-56309842;chr16:56226529-56309842 chr16:56269297-56309842 chr16:56227531-56227624;chr16:56226486-56226528 chr16:56269198-56269296 302;25 K intron_retention CUFF.513 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 429;269 N alternative_acceptor CUFF.489 chr16 - chr16:4466963-4475478 chr16:4470555-4475478 chr16:4466963-4470554 chr16:4466962-4466963 57;6 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57513772 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 864;272 N alternative_donor chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 5;5 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 62;194 N coord_cassette CUFF.539 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 76;143 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 133;3 N cassette CUFF.539 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 79;237 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:104907-105549;chr16:105794-105882 44;379 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 1413;430 N jcn_only_AD chr16 - chr16:23505700-23507009;chr16:23505700-23507034 chr16:23505700-23507014 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 827;599 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521042 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 154;16 N alternative_donor CUFF.525 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 61;5 K alternative_acceptor CUFF.487 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 15;108 N jcn_only_AD CUFF.506 chr16 + chr16:21737980-21739561 chr16:21738481-21739561 chr16:21737980-21738480 chr16:21737979-21737980 356;7 K jcn_only_AA CUFF.534 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 164;116 K intron_retention CUFF.493 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 454;107 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 11;63 K alternative_acceptor CUFF.534 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 164;60 K cassette CUFF.507 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 47;92 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 31;1903 K intron_retention CUFF.489 chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 154;208 N jcn_only_AD chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 106;140 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 33;81 N jcn_only_AA CUFF.513 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 1163;100 N alternative_donor CUFF.513 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 563;50 K intron_retention CUFF.483 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 204;49 K alternative_donor CUFF.518 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 20;22 K coord_cassette CUFF.489 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 157;682 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 57;334 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 133;89 K cassette CUFF.507 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 466;169 K alternative_first_exon CUFF.501 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15188002-15188174 chr16:15187809-15187872 102;77 N alternative_donor CUFF.525 chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 17;49 N jcn_only_AD CUFF.489,CUFF.525 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1870;21 N alternative_acceptor CUFF.506 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21758619-21763255 chr16:21763255-21763256 6;1 N alternative_acceptor CUFF.513 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 505;429 N jcn_only_AA CUFF.513 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 529;735 N jcn_only_AD CUFF.525 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 190;56 K intron_retention CUFF.501 chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 17;124 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1069;67 N coord_cassette CUFF.539 chr16 + chr16:70390151-70398919 chr16:70390151-70390725;chr16:70390810-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70390726-70390809;chr16:70395321-70395413;chr16:70398446-70398548 76;106 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 1353;42 N coord_cassette CUFF.507 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 197;448 N jcn_only_AA chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 49;10 N alternative_donor CUFF.537 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 37;6 N alternative_donor CUFF.473 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 154;21 K jcn_only_AD CUFF.547 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 350;239 N cassette CUFF.486 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 166;1062 N alternative_donor CUFF.512 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 168;20 K intron_retention chr16 + chr16:19584564-19586419 chr16:19584563-19584564;chr16:19586419-19586420 384;19 N alternative_first_exon CUFF.493 chr16 + chr16:4552961-4555484,chr16:4533756-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526489-4555484,chr16:4526667-4555484;chr16:4526419-4555484;chr16:4546029-4555484 chr16:4524849-4555484 chr16:4526294-4526418;chr16:4545786-4546028 chr16:4524691-4524848 399;76 N cassette CUFF.502 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 209;708 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 62;142 N alternative_donor chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 54;12 K alternative_donor CUFF.482 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 129;242 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 31;1008 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 269;45 N cassette CUFF.522 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 6;18 K intron_retention CUFF.483 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 128;127 N alternative_acceptor CUFF.489 chr16 - chr16:4458199-4462356 chr16:4458253-4462356 chr16:4458199-4458252 chr16:4458198-4458199 46;396 K intron_retention CUFF.539 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 119;30 N alternative_acceptor CUFF.531 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 813;10 N alternative_first_exon CUFF.489 chr16 - chr16:4463406-4465715,chr16:4463406-4465766;chr16:4463406-4466785,chr16:4463406-4466459 chr16:4463406-4464307 chr16:4466786-4466962 chr16:4464308-4464406 681;24 N jcn_only_AD CUFF.489 chr16 - chr16:4463406-4466785 chr16:4463406-4466459 chr16:4466460-4466785 chr16:4466785-4466786 11;499 K coord_cassette CUFF.518 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 91;266 K intron_retention CUFF.487 chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 22;40 N alternative_donor CUFF.513 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 343;270 N jcn_only_AD CUFF.488,CUFF.538 chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 71;7 N cassette CUFF.489 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 49;602 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 256;65 K intron_retention CUFF.483 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 293;88 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 165;5 K intron_retention CUFF.489 chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 135;476 K intron_retention CUFF.486 chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 304;255 N alternative_donor chr16 - chr16:57513601-57514241;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57521157 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 103;67 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 56;147 K alternative_first_exon CUFF.488 chr16 - chr16:4254636-4289634;chr16:4254636-4292007 chr16:4254636-4256727 chr16:4292008-4292076 chr16:4256728-4258105 23;33 N alternative_donor CUFF.506 chr16 + chr16:21716359-21716489;chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 248;2 K intron_retention CUFF.483 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 22;96 K alternative_last_exon CUFF.542 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170047-76170263 chr16:76174260-76174301 105;650 N alternative_acceptor CUFF.513 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 498;436 N mutually_exclusive CUFF.486 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 34;261 N cassette CUFF.541 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 20;65 N jcn_only_AD CUFF.537 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 37;13 K intron_retention CUFF.534 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 222;57 N cassette CUFF.543 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 41;215 N alternative_acceptor CUFF.502 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 178;206 N jcn_only_AD CUFF.489 chr16 - chr16:4445341-4466785 chr16:4445341-4466459 chr16:4466460-4466785 chr16:4466785-4466786 20;229 K jcn_only_AD CUFF.482 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 129;491 N alternative_acceptor CUFF.474 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 172;9 N coord_cassette CUFF.539 chr16 + chr16:70390151-70398919 chr16:70390151-70390748;chr16:70390810-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70390749-70390809;chr16:70395321-70395413;chr16:70398446-70398548 76;108 K cassette CUFF.531 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 105;50 K alternative_first_exon CUFF.506 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695670-21695873 21;174 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 62;225 K coord_cassette CUFF.539 chr16 + chr16:70390151-70395320 chr16:70390151-70390748;chr16:70390810-70394679;chr16:70394798-70395320 chr16:70390749-70390809;chr16:70394680-70394797 113;17 N cassette CUFF.502 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 69;269 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 89;146 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57513756;chr16:57513601-57514206 chr16:57513601-57517869 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1126;10 N jcn_only_AA CUFF.489 chr16 - chr16:4466963-4475478 chr16:4470555-4475478 chr16:4466963-4470554 chr16:4466962-4466963 57;49 K intron_retention CUFF.489 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 603;105 K intron_retention CUFF.541 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 143;25 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 231;41 K jcn_only_AA CUFF.539 chr16 + chr16:70390151-70390748 chr16:70390151-70390725 chr16:70390726-70390748 chr16:70390748-70390749 41;39 N jcn_only_AD chr16 - chr16:57513601-57514241;chr16:57513601-57521157;chr16:57513601-57513772;chr16:57513601-57517869;chr16:57513601-57515373;chr16:57513601-57521042;chr16:57513601-57520216;chr16:57513601-57521007;chr16:57513601-57514206 chr16:57513601-57513756 chr16:57513757-57513772;chr16:57513773-57514206;chr16:57514207-57514241;chr16:57514242-57515373;chr16:57515374-57517869;chr16:57517870-57520216;chr16:57520217-57521007;chr16:57521008-57521042;chr16:57521043-57521157 chr16:57513772-57513773;chr16:57514206-57514207;chr16:57514241-57514242;chr16:57515373-57515374;chr16:57517869-57517870;chr16:57520216-57520217;chr16:57521007-57521008;chr16:57521042-57521043;chr16:57521157-57521158 1003;133 K intron_retention CUFF.530 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 660;110 K intron_retention CUFF.520 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 118;22 N jcn_only_AA CUFF.502 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 178;416 N alternative_acceptor CUFF.473 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 660;96 N intron_retention chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 69;51 K alternative_acceptor CUFF.483 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 22;162 K jcn_only_AA CUFF.487 chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 15;141 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 9;16 N alternative_donor CUFF.489,CUFF.525 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 1870;4 N jcn_only_AD CUFF.506 chr16 + chr16:21716359-21716489;chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 259;4 N intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 130;124 N alternative_donor CUFF.506 chr16 + chr16:21712349-21716489;chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712349-21712390;chr16:21712391-21716358 chr16:21712348-21712349;chr16:21712390-21712391 248;2 K alternative_first_exon CUFF.547 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89787895-89788253 230;190 N cassette CUFF.518 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 210;29 N cassette CUFF.498 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 49;163 N cassette CUFF.539 chr16 + chr16:70389439-70395320 chr16:70389439-70390031;chr16:70390151-70395320 chr16:70390032-70390150 122;92 K cassette CUFF.422 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 355;80 K jcn_only_AD CUFF.470 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 169;53 N alternative_donor CUFF.433 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 228;4 K cassette CUFF.406 chr15 + chr15:40558697-40564424 chr15:40558697-40559123;chr15:40559199-40564424 chr15:40559124-40559198 99;18 K alternative_last_exon CUFF.446 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779627-75780118 35;60 K intron_retention CUFF.449 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 59;99 N jcn_only_AD CUFF.426 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 1315;51 N alternative_donor CUFF.415 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 222;1 K alternative_acceptor CUFF.402,CUFF.426 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 53;701 N jcn_only_AD chr15 + chr15:24820151-24832713 chr15:24825478-24832713 69;12 K alternative_acceptor CUFF.464 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 51;392 N jcn_only_AA CUFF.456 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 2068;228 N jcn_only_AD CUFF.395 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 338;1719 N alternative_donor CUFF.443 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 103;6 N cassette CUFF.415 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 26;205 N cassette CUFF.451 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 21;104 N alternative_donor CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 20;326 K cassette CUFF.421 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 chr15:47651627-47652294;chr15:47687758-47687885 20;50 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 10;9 N jcn_only_AD CUFF.464 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 203;134 N alternative_acceptor CUFF.416 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 8;268 N jcn_only_AD CUFF.395 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 74;146 N jcn_only_AA CUFF.456 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 130;93 N jcn_only_AA CUFF.416 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 33;268 N cassette CUFF.415 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 122;192 K coord_cassette CUFF.421 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47685518;chr15:47685683-47687757 chr15:47672654-47672792;chr15:47685519-47685682 chr15:47651627-47652294;chr15:47687758-47687885 20;15 N jcn_only_AD CUFF.443 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 103;23 N alternative_donor CUFF.443 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 142;8 N alternative_donor chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 34;2 N alternative_last_exon chr15 + chr15:30771397-30776704 chr15:30771397-30772944 chr15:30776705-30776892 chr15:30772945-30773272 14;103 N jcn_only_AD CUFF.415,CUFF.438 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 149;118 N alternative_donor CUFF.443 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 46;104 K cassette CUFF.406 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 1703;107 N cassette CUFF.437 chr15 - chr15:64669105-64673524 chr15:64669105-64673156;chr15:64673238-64673524 chr15:64673157-64673237 chr15:64668942-64669104 63;143 N alternative_acceptor chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 38;7 N alternative_acceptor CUFF.416 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 274;2 K intron_retention CUFF.470 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 136;48 N jcn_only_AA CUFF.426 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 341;79 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 46;22 K alternative_first_exon CUFF.406 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530868-40531336 40;443 K alternative_first_exon CUFF.456 chr15 - chr15:83358206-83358514,chr15:83358206-83366608;chr15:83358206-83378345 chr15:83358206-83377523 chr15:83378346-83378728 chr15:83377524-83377611 1989;21 N cassette CUFF.437 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 chr15:64657183-64658274;chr15:64673157-64673237 11;297 N jcn_only_AD CUFF.456 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 91;21 N alternative_acceptor CUFF.415 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 222;1 K intron_retention CUFF.435 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 9;24 N alternative_donor CUFF.435 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 72;10 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 43;48 N alternative_donor CUFF.465 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 32;6 K cassette CUFF.411 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 252;107 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 12;213 K cassette CUFF.406 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 52;168 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 314;74 K jcn_only_AD CUFF.397 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 95;163 K cassette CUFF.406 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 48;96 N jcn_only_AA chr15 - chr15:85752806-85777709 chr15:85753150-85777709 9;23 N cassette CUFF.456 chr15 - chr15:83350333-83357909 chr15:83350333-83357487;chr15:83357584-83357909 chr15:83357488-83357583 9;618 N jcn_only_AD CUFF.424 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 357;34 K alternative_acceptor CUFF.407,CUFF.418 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 13;20 N jcn_only_AD chr15 + chr15:63047893-63053879 chr15:63050859-63053879 20;20 N jcn_only_AD CUFF.426 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 2001;158 N cassette CUFF.399 chr15 + chr15:29131425-29213842 chr15:29131425-29140665;chr15:29140756-29213842 chr15:29140666-29140755 9;269 N alternative_donor CUFF.416 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 155;25 N jcn_only_AD CUFF.410 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 11;65 K alternative_donor CUFF.449 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 260;577 K alternative_first_exon CUFF.393 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115256 chr15:23114586-23114683 207;96 K cassette CUFF.424 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 49;249 N jcn_only_AD CUFF.435 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 72;10 N alternative_donor chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 4;32 N cassette CUFF.439 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 122;521 K cassette CUFF.426 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 785;183 N alternative_donor CUFF.423,CUFF.464 chr15 - chr15:90432373-90437112;chr15:90432373-90446447 chr15:90432373-90437108 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 23;0 N jcn_only_AD CUFF.418 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 19;18 N alternative_donor CUFF.410 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 11;1 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 1;74 K intron_retention CUFF.406 chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 669;15 N alternative_donor CUFF.472 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 103;3 N jcn_only_AD CUFF.464 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 722;25 N alternative_acceptor CUFF.447 chr15 - chr15:77578847-77712347 chr15:77657568-77712347 chr15:77578847-77657567 chr15:77578846-77578847 74;1 K alternative_last_exon CUFF.405 chr15 + chr15:33026870-33028647 chr15:33026870-33027974 chr15:33028648-33028653 chr15:33027975-33027988 3;9 K intron_retention CUFF.412 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 44;52 K intron_retention CUFF.456 chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 38;366 N jcn_only_AD CUFF.426 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 365;185 K jcn_only_AA CUFF.464 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 51;530 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 82;665 N jcn_only_AA chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 159;28 N alternative_donor CUFF.464 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 667;1 N alternative_donor CUFF.464 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 203;38 K alternative_acceptor CUFF.435 chr15 + chr15:64444050-64444836 chr15:64444050-64444441 chr15:64444442-64444836 chr15:64444836-64444837 6;68 N alternative_acceptor CUFF.456 chr15 - chr15:83358206-83378345 chr15:83358687-83378345 chr15:83358206-83358686 chr15:83358205-83358206 2068;84 N alternative_donor CUFF.464 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 667;1 N alternative_donor chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 69;0 N jcn_only_AD CUFF.464 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 712;35 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 15;430 N cassette CUFF.415 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 83;194 K alternative_last_exon CUFF.418 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753590 chr15:45752644-45752767 160;15 N alternative_acceptor CUFF.443 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 103;17 N jcn_only_AD CUFF.423,CUFF.464 chr15 - chr15:90432373-90437112;chr15:90432373-90446447 chr15:90432373-90437108 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 533;12 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 15;210 N alternative_last_exon CUFF.424 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722504-55722977 44;29 N jcn_only_AA CUFF.447 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 46;611 K jcn_only_AA CUFF.397 chr15 + chr15:25207357-25222924 chr15:25207357-25213078 76;132 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 355;226 K alternative_first_exon CUFF.429 chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:62007314-62007469 chr15:61945388-61945400 236;102 N alternative_donor CUFF.451,CUFF.472 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102196070-102197124 chr15:102197124-102197125 127;7 N jcn_only_AA CUFF.461 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 6;180 N alternative_donor CUFF.426 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 1315;20 N jcn_only_AD CUFF.416 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 155;170 N jcn_only_AD CUFF.451,CUFF.472 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102196070-102197124 chr15:102197124-102197125 127;38 N alternative_first_exon chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78537611-78538087 chr15:78504891-78505068 40;30 N alternative_acceptor CUFF.456 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 91;6 K jcn_only_AD CUFF.416,CUFF.423 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 33;41 N alternative_acceptor CUFF.395 chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 13;32 N alternative_donor CUFF.426 chr15 + chr15:57490024-57523349;chr15:57506595-57523349 chr15:57511789-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 313;9 K intron_retention CUFF.426 chr15 + chr15:57578659-57580220 chr15:57578658-57578659;chr15:57580220-57580221 72;306 K intron_retention CUFF.412 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 46;66 N jcn_only_AA CUFF.449,CUFF.469 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1078;15 K intron_retention CUFF.406 chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 111;22 N mutually_exclusive CUFF.437 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 chr15:64657183-64658274 9;58 K cassette CUFF.397 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 101;264 N alternative_donor CUFF.416,CUFF.447 chr15 - chr15:45464201-45464346 chr15:45464201-45464344 chr15:45464345-45464346 chr15:45464346-45464347 157;79 N jcn_only_AD chr15 + chr15:24819892-24820053 chr15:24819961-24820053 49;33 N jcn_only_AD CUFF.461 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 43;21 K intron_retention CUFF.415 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 212;7 N jcn_only_AD CUFF.465 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91304486-91305652 chr15:91304485-91304486 32;41 K intron_retention CUFF.435 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 103;9 K alternative_last_exon CUFF.422 chr15 - chr15:50793249-50821993;chr15:50805710-50821993 chr15:50793035-50821993 chr15:50793081-50793248;chr15:50805613-50805709 chr15:50792759-50793034 291;98 N cassette CUFF.406 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 117;418 K alternative_acceptor CUFF.426,CUFF.449 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 895;203 K cassette CUFF.426 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 98;800 N coord_cassette CUFF.415 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 106;173 N jcn_only_AA chr15 + chr15:24825478-24869114 chr15:24825478-24832713 14;12 N jcn_only_AD CUFF.426 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 255;1029 N cassette CUFF.438 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 85;80 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 3;665 N alternative_donor CUFF.395 chr15 + chr15:24780954-24811802;chr15:24803469-24811802 chr15:24811360-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 23;12 N jcn_only_AD CUFF.426 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 497;54 K alternative_acceptor CUFF.407 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 41;34 N jcn_only_AD CUFF.464 chr15 - chr15:90432373-90437112;chr15:90432373-90437108 chr15:90432373-90446447 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 543;3 K alternative_last_exon CUFF.452 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826005 42;121 K coord_cassette CUFF.423 chr15 - chr15:55485032-55488550 chr15:55485032-55486350;chr15:55486382-55486493;chr15:55486558-55488550 chr15:55486351-55486381;chr15:55486494-55486557 30;28 N jcn_only_AA CUFF.447 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 24;123 N jcn_only_AA CUFF.461 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 43;54 N alternative_acceptor CUFF.461 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 43;29 N jcn_only_AD CUFF.447,CUFF.461 chr15 - chr15:77578847-77657504;chr15:77578847-77712347 chr15:77578847-77638883 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 345;43 K alternative_donor CUFF.416,CUFF.423 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 33;47 N jcn_only_AA CUFF.443,CUFF.449 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 213;37 N jcn_only_AD CUFF.426 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 2137;22 N alternative_donor CUFF.464 chr15 - chr15:90432373-90437112;chr15:90432373-90437108 chr15:90432373-90446447 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 20;3 N intron_retention chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 8;656 N jcn_only_AD CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 73;647 N jcn_only_AD CUFF.426 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 1374;121 N jcn_only_AD chr15 - chr15:84874072-84898653 chr15:84874072-84898603 51;53 K alternative_donor CUFF.439 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 391;385 N coord_cassette CUFF.415 chr15 - chr15:44865019-44876011 chr15:44865019-44865744;chr15:44865944-44867099;chr15:44867240-44876011 chr15:44865745-44865943;chr15:44867100-44867239 52;427 N intron_retention CUFF.461 chr15 - chr15:84873269-84873351 chr15:84873268-84873269;chr15:84873351-84873352 21;17 N intron_retention chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 21;27 K intron_retention CUFF.450 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 113;53 N jcn_only_AD CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 689;31 K intron_retention CUFF.406 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 42;133 N alternative_acceptor CUFF.395 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 43;2 N alternative_donor CUFF.426 chr15 + chr15:57490024-57523349;chr15:57511789-57523349 chr15:57506595-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 321;1 N alternative_donor CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29213922-29287955 chr15:29253788-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 346;0 N alternative_donor CUFF.447 chr15 - chr15:77578847-77638883;chr15:77578847-77712347 chr15:77578847-77657504 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 74;1 N alternative_donor CUFF.415 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 65;16 N jcn_only_AD chr15 - chr15:64658275-64665896 chr15:64658275-64665354 chr15:64657183-64658274 15;37 K cassette CUFF.426 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 151;248 N alternative_donor CUFF.426 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 10;312 N alternative_last_exon CUFF.416 chr15 - chr15:45464277-45467416,chr15:45465915-45467416,chr15:45466643-45467416;chr15:45460332-45467416 chr15:45464517-45467416 chr15:45459401-45460331 chr15:45464347-45464516 227;149 N alternative_first_exon CUFF.438 chr15 - chr15:66645294-66678944;chr15:66645294-66648976;chr15:66645294-66678987 chr15:66645294-66678757 chr15:66648977-66649054;chr15:66678988-66679140 chr15:66678758-66678883 107;23 N jcn_only_AA CUFF.424 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 34;253 N alternative_last_exon CUFF.438 chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645153-66645293 chr15:66671590-66672278 19;138 K jcn_only_AD CUFF.470 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 189;33 N jcn_only_AD CUFF.440 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 3;31 N jcn_only_AD CUFF.399 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 487;63 N alternative_acceptor CUFF.443,CUFF.449 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 213;19 N coord_cassette CUFF.460 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 77;44 N jcn_only_AD CUFF.464 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 726;22 K cassette CUFF.423 chr15 - chr15:55485032-55486493 chr15:55485032-55486350;chr15:55486382-55486493 chr15:55486351-55486381 23;39 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 663;408 N cassette CUFF.472 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 102;36 N jcn_only_AD CUFF.426 chr15 + chr15:57506595-57523349;chr15:57511789-57523349 chr15:57490024-57523349 chr15:57490024-57506594;chr15:57506595-57511788 chr15:57490023-57490024;chr15:57506594-57506595 239;312 K cassette CUFF.423 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 30;21 K intron_retention CUFF.435 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 6;32 K cassette CUFF.446 chr15 - chr15:75762341-75766029 chr15:75762341-75763020;chr15:75763172-75766029 chr15:75763021-75763171 149;91 N cassette CUFF.464 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 409;364 N jcn_only_AD CUFF.454 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 37;19 N alternative_acceptor CUFF.424 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 34;176 N alternative_acceptor CUFF.447 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544869-77576372 chr15:77544868-77544869 46;9 N cassette CUFF.465 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 17;52 K jcn_only_AA CUFF.426 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 96;1029 N alternative_donor CUFF.440 chr15 - chr15:67700814-67713672 chr15:67700814-67705840 chr15:67705841-67713672 chr15:67713672-67713673 3;8 N jcn_only_AD CUFF.415 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 297;84 N jcn_only_AA CUFF.395 chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 85;32 N alternative_donor CUFF.418 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 19;2 N alternative_donor CUFF.395 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 34;1 N jcn_only_AA CUFF.424 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 357;34 K coord_cassette CUFF.464 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 390;260 K alternative_last_exon CUFF.422 chr15 - chr15:50793249-50821993;chr15:50793035-50821993 chr15:50805710-50821993 chr15:50793081-50793248;chr15:50792759-50793034 chr15:50805613-50805709 366;23 K alternative_last_exon CUFF.464 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408766-90408925 469;119 K intron_retention CUFF.443 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 170;107 N intron_retention chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 27;43 K jcn_only_AA CUFF.407 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 41;31 N alternative_donor CUFF.447,CUFF.461 chr15 - chr15:77578847-77657504;chr15:77578847-77712347 chr15:77578847-77638883 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 75;0 K intron_retention CUFF.415 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 89;46 N jcn_only_AD CUFF.399 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 698;22 K alternative_last_exon CUFF.469 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527110 chr15:94512823-94512924 22;24 N jcn_only_AD CUFF.447 chr15 - chr15:77578847-77638883;chr15:77578847-77712347 chr15:77578847-77657504 chr15:77638884-77657504;chr15:77657505-77712347 chr15:77657504-77657505;chr15:77712347-77712348 116;271 N jcn_only_AD CUFF.443 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 212;38 K alternative_last_exon CUFF.456 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83350172-83350332 chr15:83355673-83355771 425;25 N alternative_donor chr15 - chr15:45464277-45467416 chr15:45464277-45464344 chr15:45464345-45467416 chr15:45467416-45467417 47;17 N jcn_only_AD chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 37;32 N coord_cassette CUFF.399 chr15 + chr15:29131425-29213842 chr15:29131425-29139019;chr15:29139191-29140665;chr15:29140756-29213842 chr15:29139020-29139190;chr15:29140666-29140755 9;494 N jcn_only_AA CUFF.415 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 149;137 N jcn_only_AD CUFF.443 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 235;15 K jcn_only_AA CUFF.402,CUFF.426 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 53;1315 N alternative_first_exon CUFF.438 chr15 - chr15:66645294-66678944;chr15:66645294-66648976;chr15:66645294-66678757 chr15:66645294-66678987 chr15:66648977-66649054;chr15:66678758-66678883 chr15:66678988-66679140 112;18 N jcn_only_AD CUFF.472 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 24;58 K alternative_first_exon CUFF.403 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294151-31294233 chr15:31327773-31327859 24;55 N jcn_only_AA CUFF.416 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 291;9 N cassette CUFF.460 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 61;71 K intron_retention CUFF.406 chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 386;50 N alternative_donor chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 34;2 N jcn_only_AA CUFF.415 chr15 - chr15:44892831-44898222 chr15:44896396-44898222 chr15:44892831-44896395 chr15:44892830-44892831 222;23 N cassette CUFF.460 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 77;58 K intron_retention CUFF.443 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 86;149 K intron_retention CUFF.415 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 28;28 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 69;53 K cassette CUFF.465 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 96;18 N alternative_donor CUFF.435 chr15 + chr15:64444050-64444836 chr15:64444526-64444836 chr15:64444050-64444525 chr15:64444049-64444050 6;19 K cassette CUFF.466 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 88;22 N jcn_only_AD CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 701;20 N alternative_donor CUFF.395 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 13;22 N jcn_only_AD chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 69;51 N alternative_donor CUFF.454 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 37;3 N coord_cassette CUFF.415 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 122;200 N jcn_only_AD CUFF.395 chr15 + chr15:24811360-24811802;chr15:24780954-24811802 chr15:24803469-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 168;53 N jcn_only_AD CUFF.415 chr15 - chr15:44892831-44898222 chr15:44892831-44896302 chr15:44896303-44898222 chr15:44898222-44898223 222;15 N jcn_only_AA chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 72;45 K intron_retention CUFF.435 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 104;7 N intron_retention chr15 - chr15:84869629-84871621 chr15:84869628-84869629;chr15:84871621-84871622 6;19 K alternative_donor CUFF.470 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 79;136 K cassette CUFF.421 chr15 - chr15:47672793-47687757 chr15:47672793-47685518;chr15:47685683-47687757 chr15:47685519-47685682 chr15:47672654-47672792;chr15:47687758-47687885 45;15 N alternative_first_exon CUFF.439 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789980-66790197 chr15:66789828-66789898 658;18 N jcn_only_AA CUFF.447 chr15 - chr15:77578847-77712347 chr15:77657568-77712347 chr15:77578847-77657567 chr15:77578846-77578847 74;480 K alternative_last_exon CUFF.446 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801258-75801368 chr15:75805532-75805779 21;96 K cassette CUFF.471 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 9;46 N jcn_only_AD chr15 - chr15:45464277-45467416 chr15:45464277-45464344 chr15:45464345-45467416 chr15:45467416-45467417 47;28 N jcn_only_AA CUFF.416 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 277;24 K alternative_last_exon CUFF.418 chr15 + chr15:45768751-45769966;chr15:45768751-45804570 chr15:45768751-45789310 chr15:45804571-45804647 chr15:45789311-45789408 105;25 K intron_retention CUFF.435 chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 93;32 N intron_retention chr15 - chr15:63134568-63136578 chr15:63134567-63134568;chr15:63136578-63136579 2;52 K alternative_first_exon CUFF.418 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742392-45742488 chr15:45752644-45752767 85;21 N jcn_only_AD CUFF.465 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 9;22 K jcn_only_AA CUFF.407,CUFF.418 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 13;41 N alternative_acceptor CUFF.426 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 341;4 N alternative_donor CUFF.425 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 45;4 N alternative_acceptor CUFF.415 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 149;8 K jcn_only_AD CUFF.439 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 391;185 N alternative_acceptor chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 159;34 N alternative_donor CUFF.399 chr15 + chr15:29213953-29287955;chr15:29213922-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 346;0 N alternative_first_exon CUFF.438 chr15 - chr15:66645294-66678944;chr15:66645294-66678987;chr15:66645294-66678757 chr15:66645294-66648976 chr15:66678988-66679140;chr15:66678758-66678883 chr15:66648977-66649054 54;76 N alternative_acceptor CUFF.464 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 28;197 N coord_cassette CUFF.451 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 26;92 K cassette CUFF.440 chr15 - chr15:67713837-67752029 chr15:67713837-67722658;chr15:67722739-67752029 chr15:67722659-67722738 2;190 N jcn_only_AD CUFF.426 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 375;1784 K alternative_donor CUFF.470 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 184;31 K cassette CUFF.422 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 368;33 N jcn_only_AD CUFF.426 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 1964;195 N jcn_only_AD CUFF.425 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 45;30 K alternative_first_exon CUFF.426 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535670-57535748 chr15:57540154-57540279 226;600 N jcn_only_AA CUFF.443 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 103;24 N alternative_donor CUFF.399 chr15 + chr15:29283000-29287955;chr15:29213953-29287955;chr15:29253788-29287955 chr15:29213922-29287955 chr15:29213922-29213952;chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213921-29213922;chr15:29213952-29213953;chr15:29253787-29253788 326;20 N alternative_donor CUFF.415,CUFF.438 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 149;21 N alternative_acceptor CUFF.449,CUFF.469 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 1078;0 K alternative_first_exon CUFF.423 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55488551-55488702 chr15:55487502-55487789 19;43 K cassette CUFF.399 chr15 + chr15:29131425-29140665 chr15:29131425-29139019;chr15:29139191-29140665 chr15:29139020-29139190 36;537 K coord_cassette CUFF.422 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 21;62 N jcn_only_AA CUFF.472 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 127;33 K intron_retention CUFF.470 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 33;44 N jcn_only_AA CUFF.456 chr15 - chr15:83333696-83334208 chr15:83334056-83334208 chr15:83333696-83334055 chr15:83333695-83333696 91;24 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 69;14 N jcn_only_AA CUFF.395 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 97;20 K alternative_first_exon CUFF.416 chr15 - chr15:45470505-45473304,chr15:45470505-45490969;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45492925-45493409 chr15:45479652-45480154 414;220 N jcn_only_AD CUFF.443 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 53;197 N alternative_donor CUFF.472 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 24;5 N jcn_only_AA CUFF.395 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 97;20 N alternative_donor CUFF.426 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 1374;8 N jcn_only_AD CUFF.415 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 65;24 N cassette CUFF.399 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 56;66 K cassette CUFF.452 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 196;21 K alternative_last_exon CUFF.422 chr15 - chr15:50793035-50821993;chr15:50805710-50821993 chr15:50793249-50821993 chr15:50792759-50793034;chr15:50805613-50805709 chr15:50793081-50793248 121;268 N mutually_exclusive CUFF.415 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 49;22 N alternative_donor CUFF.461 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 43;7 K alternative_last_exon CUFF.472 chr15 - chr15:102239639-102241288;chr15:102226266-102241288 chr15:102236243-102241288 chr15:102226099-102226265 chr15:102235957-102236242 73;569 K intron_retention CUFF.435 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 72;11 K intron_retention CUFF.456 chr15 - chr15:83348982-83349223 chr15:83348981-83348982;chr15:83349223-83349224 32;11 N alternative_donor CUFF.465 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 9;17 N alternative_donor CUFF.424 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 357;2 N alternative_donor chr15 - chr15:90432373-90437108;chr15:90432373-90446447 chr15:90432373-90437112 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 3;20 N intron_retention chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 123;22 K intron_retention CUFF.435 chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 16;50 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 9;279 N jcn_only_AD chr15 + chr15:24825478-24869114 chr15:24832883-24869114 14;35 N jcn_only_AD chr15 - chr15:90432373-90437108;chr15:90432373-90446447 chr15:90432373-90437112 chr15:90437109-90437112;chr15:90437113-90446447 chr15:90437112-90437113;chr15:90446447-90446448 15;530 N jcn_only_AD chr15 - chr15:84871773-84873177 chr15:84871773-84872928 430;4 N cassette CUFF.447 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577421-77578764 chr15:77577300-77577420 4;244 N cassette CUFF.464 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 546;322 N jcn_only_AD chr15 + chr15:24793618-24811235 chr15:24803469-24811235 78;20 K intron_retention CUFF.435 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 62;10 N jcn_only_AD chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 54;14 N jcn_only_AD chr15 - chr15:85752347-85752703 chr15:85752347-85752616 4;5 N jcn_only_AD CUFF.472 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 103;46 K jcn_only_AA CUFF.426,CUFF.449 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 895;307 N alternative_donor CUFF.464 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 667;1 N jcn_only_AA chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 53;20 N jcn_only_AA chr15 + chr15:24820151-24832713 chr15:24820151-24825373 69;40 N cassette CUFF.424 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 177;41 N alternative_donor CUFF.395 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758885-24766977 chr15:24758884-24758885 338;110 N jcn_only_AD CUFF.402 chr15 + chr15:30771397-30776704 chr15:30773111-30776704 16;60 K alternative_acceptor CUFF.426 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 96;510 K jcn_only_AD CUFF.449 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 260;1036 K jcn_only_AA CUFF.435 chr15 + chr15:64444050-64444836 chr15:64444050-64444441 chr15:64444442-64444836 chr15:64444836-64444837 6;62 K intron_retention CUFF.456 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 160;74 N alternative_donor CUFF.399 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 487;0 K coord_cassette CUFF.426 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 151;613 K coord_cassette CUFF.465 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 13;224 K intron_retention CUFF.470 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 53;23 N alternative_acceptor CUFF.461 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 6;53 N coord_cassette CUFF.415 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 26;384 K cassette CUFF.460 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 51;49 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 61;169 K alternative_last_exon CUFF.451 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471296-78471322 93;2 N alternative_acceptor CUFF.456 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 130;74 N alternative_acceptor CUFF.416 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 270;6 K intron_retention CUFF.449 chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 895;112 N jcn_only_AD CUFF.433 chr15 + chr15:63128273-63131054 chr15:63128318-63131054 chr15:63128273-63128317 chr15:63128272-63128273 228;7 K intron_retention CUFF.463 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 31;60 N jcn_only_AD chr15 - chr15:85752806-85777709 chr15:85752806-85753060 9;3 K alternative_last_exon CUFF.426 chr15 + chr15:57574797-57591423;chr15:57574797-57583026 chr15:57574797-57578354 chr15:57583027-57583323 chr15:57578355-57580713 615;639 N cassette CUFF.426 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 251;276 N intron_retention chr15 + chr15:24819892-24820053 chr15:24819891-24819892;chr15:24820053-24820054 49;11 N jcn_only_AD CUFF.407 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 4;6 N jcn_only_AD CUFF.399 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 96;10 K intron_retention CUFF.449 chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 101;134 N alternative_acceptor chr15 + chr15:24803469-24811802 chr15:24803469-24811235 chr15:24811236-24811802 chr15:24811802-24811803 53;13 N jcn_only_AD CUFF.416,CUFF.447 chr15 - chr15:45464201-45464346 chr15:45464201-45464344 chr15:45464345-45464346 chr15:45464346-45464347 157;159 N alternative_acceptor CUFF.424 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 357;1 N alternative_acceptor CUFF.472 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 127;6 K coord_cassette CUFF.406 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 1703;148 K alternative_last_exon CUFF.442 chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69587412-69587660 chr15:69580747-69580903 90;35 K alternative_first_exon CUFF.449 chr15 + chr15:77713437-77750745,chr15:77740154-77750745,chr15:77750627-77750745;chr15:77713080-77750745 chr15:77713347-77750745 chr15:77712754-77713079 chr15:77713178-77713346 163;792 N alternative_donor CUFF.415 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 297;18 K intron_retention CUFF.405 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 152;24 K jcn_only_AD CUFF.470 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 86;136 N jcn_only_AA CUFF.464 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 28;322 N jcn_only_AD CUFF.395 chr15 + chr15:24811360-24811802;chr15:24803469-24811802 chr15:24780954-24811802 chr15:24780954-24803468;chr15:24803469-24811359 chr15:24780953-24780954;chr15:24803468-24803469 198;22 N alternative_donor CUFF.443 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 112;38 N jcn_only_AD CUFF.435 chr15 + chr15:64444050-64444836 chr15:64444526-64444836 chr15:64444050-64444525 chr15:64444049-64444050 6;27 K intron_retention CUFF.456 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 889;581 N cassette CUFF.451 chr15 - chr15:78500445-78537610 chr15:78500445-78501486;chr15:78501592-78537610 chr15:78501487-78501591 142;32 N alternative_acceptor CUFF.395 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 41;4 N alternative_acceptor CUFF.447 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77451039-77470365 chr15:77451038-77451039 24;2 K alternative_donor CUFF.470 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 167;48 N alternative_donor CUFF.399 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 96;1 N mutually_exclusive CUFF.464 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 19;123 N alternative_donor CUFF.407 chr15 + chr15:40732165-40750649 chr15:40733468-40750649 chr15:40732165-40733467 chr15:40732164-40732165 4;1 N alternative_donor CUFF.456 chr15 - chr15:83333696-83334208 chr15:83333696-83333998 chr15:83333999-83334208 chr15:83334208-83334209 91;7 K cassette CUFF.364 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 30;30 K intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 69;15 K intron_retention chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 365;15 K alternative_acceptor CUFF.345 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 41;464 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 23;26 N jcn_only_AD CUFF.358 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 534;32 K cassette CUFF.370 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 6;88 K alternative_acceptor CUFF.347 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 231;102 N cassette CUFF.384 chr14 - chr14:104251252-104263707 chr14:104251252-104260913;chr14:104261001-104263707 chr14:104260914-104261000 438;610 K alternative_first_exon CUFF.355 chr14 - chr14:59946070-59950207;chr14:59946070-59950526 chr14:59946070-59950397 chr14:59950527-59951199 chr14:59950398-59950525 173;70 N jcn_only_AA CUFF.371 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 171;65 K cassette CUFF.349 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 45;86 N alternative_donor CUFF.357 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60011881-60018072 chr14:60018072-60018073 113;2 K cassette CUFF.361 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 15;262 N alternative_acceptor CUFF.384 chr14 - chr14:104208629-104212709 chr14:104209161-104212709 chr14:104208629-104209160 chr14:104208628-104208629 28;73 K intron_retention CUFF.346 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 10;8 K intron_retention CUFF.370 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 79;13 K cassette CUFF.366 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 29;25 N jcn_only_AD CUFF.358 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 502;64 K alternative_first_exon CUFF.350 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50234326-50235339 chr14:50235519-50235809 643;174 N cassette CUFF.345 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 21;487 N alternative_donor CUFF.366 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 248;3 K jcn_only_AD CUFF.364 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 55;116 N cassette CUFF.353 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 122;12 N alternative_donor CUFF.358 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 74;430 K jcn_only_AA CUFF.364 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 39;58 K cassette CUFF.363 chr14 - chr14:71200060-71201102 chr14:71200060-71200473;chr14:71200516-71201102 chr14:71200474-71200515 6;27 N jcn_only_AD CUFF.384 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 457;209 N alternative_donor CUFF.371 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924326-77924612 chr14:77924325-77924326 10;103 K jcn_only_AD CUFF.347 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 380;23 K cassette CUFF.348 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 195;1753 N jcn_only_AA chr14 - chr14:104213110-104213269;chr14:104213198-104213269 chr14:104212891-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 64;30 N alternative_acceptor chr14 + chr14:23390330-23392180;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392177 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 95;25 K intron_retention CUFF.346 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 10;9 N jcn_only_AA CUFF.388 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 26;77 N jcn_only_AA ENSG00000259508.1 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236793-103237910 chr14:103236792-103236793 20;20 N alternative_donor CUFF.358 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 239;39 N jcn_only_AA CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 215;18 N jcn_only_AA CUFF.366 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 62;29 N intron_retention chr14 + chr14:31355519-31358821 chr14:31355518-31355519;chr14:31358821-31358822 5;187 K jcn_only_AA CUFF.358 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 61;357 K alternative_first_exon CUFF.347,CUFF.364 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354619-31355532 chr14:31354174-31354425 405;195 N jcn_only_AA chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 29;54 N alternative_donor CUFF.363 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 19;0 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 23;47 N jcn_only_AA chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 7;43 N jcn_only_AD CUFF.374 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 154;202 K cassette CUFF.358 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 105;236 N cassette CUFF.345 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 264;373 K alternative_first_exon CUFF.344 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457946-24458284 45;1071 N alternative_donor CUFF.384 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 399;2 K alternative_first_exon CUFF.353 chr14 + chr14:58894532-58896080,chr14:58894576-58896080 chr14:58895182-58896080 chr14:58894103-58894531 chr14:58894956-58895181 236;5 N jcn_only_AD chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 26;58 K alternative_donor CUFF.347 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 380;15 N jcn_only_AA CUFF.357 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 126;51 N alternative_acceptor chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 29;27 K alternative_acceptor CUFF.358 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 61;176 K intron_retention CUFF.351 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 176;25 N alternative_donor CUFF.374 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 chr14:81743245-81745083;chr14:81837332-81837529 170;0 N alternative_donor CUFF.358 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 494;10 K intron_retention CUFF.384 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 21;291 N alternative_acceptor chr14 - chr14:104213110-104213269;chr14:104213198-104213269 chr14:104212891-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 25;30 K intron_retention CUFF.344 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 91;20 N alternative_donor CUFF.374 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81884507-81893445 chr14:81893445-81893446 chr14:81864639-81864924;chr14:81893446-81893556 154;6 N mutually_exclusive CUFF.348 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 158;140 N intron_retention chr14 - chr14:105055678-105055961 chr14:105055677-105055678;chr14:105055961-105055962 10;314 N alternative_acceptor chr14 - chr14:104212891-104213269;chr14:104213110-104213269 chr14:104213198-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 45;10 N alternative_acceptor CUFF.366 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 74;4 N jcn_only_AA CUFF.380 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 234;87 N jcn_only_AA CUFF.352 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 84;13 K intron_retention CUFF.350 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 529;340 K alternative_last_exon CUFF.364 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152303-75152363 chr14:75157758-75157853 52;121 K cassette CUFF.363 chr14 - chr14:71227900-71249939 chr14:71227900-71232158;chr14:71232205-71249939 chr14:71232159-71232204 5;11 K alternative_first_exon CUFF.388 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046021-105046340 chr14:105047418-105047962 80;274 K intron_retention chr14 - chr14:75136830-75137464 chr14:75136829-75136830;chr14:75137464-75137465 39;15 N jcn_only_AA CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 91;141 K cassette CUFF.366 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 25;20 N coord_cassette CUFF.371 chr14 + chr14:77929103-77935419 chr14:77929103-77930940;chr14:77931030-77931881;chr14:77932011-77934425;chr14:77934528-77935419 chr14:77930941-77931029;chr14:77931882-77932010;chr14:77934426-77934527 249;117 N jcn_only_AD CUFF.366 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 248;91 N jcn_only_AD CUFF.358 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 526;40 N alternative_donor CUFF.384 chr14 - chr14:104208629-104212709 chr14:104208629-104208990 chr14:104208991-104212709 chr14:104212709-104212710 28;48 N cassette CUFF.384 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104263707 chr14:104251132-104251251 135;699 N coord_cassette CUFF.345 chr14 + chr14:24563464-24566100 chr14:24563464-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 185;338 N jcn_only_AD chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 110;18 K cassette CUFF.353 chr14 + chr14:58899176-58909423 chr14:58899176-58906787;chr14:58906879-58909423 chr14:58906788-58906878 484;39 N jcn_only_AD chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 128;56 N mutually_exclusive CUFF.350 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 74;16 K jcn_only_AD CUFF.353 chr14 + chr14:58894532-58896080 chr14:58894576-58896080 chr14:58894532-58894575 chr14:58894531-58894532 291;190 N alternative_acceptor ENSG00000259508.1 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236793-103237910 chr14:103236792-103236793 20;19 K intron_retention CUFF.345 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 504;72 K intron_retention CUFF.345 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 281;110 N cassette CUFF.344 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 61;239 K alternative_acceptor CUFF.361 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 120;225 K intron_retention chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 261;59 N alternative_donor CUFF.355,CUFF.384 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 115;17 N alternative_acceptor CUFF.388 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 26;3 K coord_cassette CUFF.353 chr14 + chr14:58899176-58909423 chr14:58899176-58899829;chr14:58900063-58907938;chr14:58908062-58909423 chr14:58899830-58900062;chr14:58907939-58908061 484;80 N alternative_acceptor CUFF.371 chr14 + chr14:77934852-77935419 chr14:77934852-77934932 chr14:77934933-77935419 chr14:77935419-77935420 171;33 N coord_cassette CUFF.353 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59010600;chr14:59010686-59014498 chr14:59006789-59006854;chr14:59010601-59010685 307;9 N jcn_only_AD CUFF.358 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 136;430 N cassette CUFF.366 chr14 + chr14:76219299-76230957 chr14:76219299-76224173;chr14:76224213-76230957 chr14:76224174-76224212 36;59 K intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 675;79 K alternative_first_exon CUFF.349 chr14 + chr14:50070337-50074117;chr14:50067416-50074117 chr14:50069187-50074117 chr14:50067188-50067415 chr14:50069088-50069186 52;69 K jcn_only_AA CUFF.345 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 41;648 N jcn_only_AD CUFF.374 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81772976-81837331 chr14:81837331-81837332 chr14:81743245-81745083;chr14:81837332-81837529 170;48 N cassette CUFF.364 chr14 - chr14:75127644-75130601 chr14:75127644-75130214;chr14:75130526-75130601 chr14:75130215-75130525 12;130 N alternative_donor CUFF.384 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 74;0 N alternative_donor CUFF.374 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 43;31 N alternative_donor CUFF.384 chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 397;4 K intron_retention CUFF.371 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 10;14 K cassette CUFF.378 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 105;275 N jcn_only_AD CUFF.380 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 107;142 K alternative_last_exon CUFF.384 chr14 - chr14:104225643-104245081;chr14:104224089-104245081 chr14:104230817-104245081 chr14:104223987-104224088 chr14:104230726-104230816 503;27 K mutually_exclusive CUFF.364 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 114;45 K intron_retention CUFF.364 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 76;227 N alternative_acceptor chr14 - chr14:104212891-104213269;chr14:104213198-104213269 chr14:104213110-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 40;15 K intron_retention CUFF.358 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 430;43 N alternative_donor chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 6;395 N alternative_acceptor CUFF.366 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 62;17 K cassette CUFF.345 chr14 + chr14:24564055-24566100 chr14:24564055-24564351;chr14:24564588-24566100 chr14:24564352-24564587 190;472 K mutually_exclusive CUFF.378 chr14 - chr14:92195824-92245318,chr14:92245415-92246919 chr14:92195824-92203037,chr14:92203194-92246919 chr14:92245319-92245414 chr14:92203038-92203193 34;65 N jcn_only_AD CUFF.384 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 146;30 K jcn_only_AA CUFF.391 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 76;82 N alternative_donor CUFF.380 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 106;63 N jcn_only_AD CUFF.384 chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 604;62 K coord_cassette CUFF.344 chr14 + chr14:24459569-24470071 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24470071 chr14:24459984-24460161;chr14:24464241-24464342 38;49 K jcn_only_AA CUFF.354 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 39;133 N jcn_only_AD CUFF.384 chr14 - chr14:81893557-81902664;chr14:81893557-81902431 chr14:81893557-81893644 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 89;2 N alternative_acceptor CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 109;11 N alternative_donor CUFF.380 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 143;26 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213110-104213269 chr14:104213198-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 69;26 N jcn_only_AA CUFF.384 chr14 - chr14:104208629-104212709 chr14:104209161-104212709 chr14:104208629-104209160 chr14:104208628-104208629 28;128 N intron_retention chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 38;179 N alternative_first_exon chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204197 42;341 K cassette CUFF.353 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 310;87 N intron_retention chr14 + chr14:31354827-31355001 chr14:31354826-31354827;chr14:31355001-31355002 7;227 N alternative_donor CUFF.366 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 56;15 N alternative_donor CUFF.358 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 461;43 K cassette CUFF.364 chr14 - chr14:75143456-75149998 chr14:75143456-75144881;chr14:75145033-75149998 chr14:75144882-75145032 38;30 N jcn_only_AA CUFF.384 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 52;359 N jcn_only_AD CUFF.358 chr14 + chr14:61497242-61503776 chr14:61500832-61503776 chr14:61497242-61500831 chr14:61497241-61497242 239;160 K cassette CUFF.358 chr14 + chr14:61518854-61545527 chr14:61518854-61519066;chr14:61519704-61545527 chr14:61519067-61519703 85;297 N cassette CUFF.355 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 111;395 K intron_retention CUFF.384 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 24;186 N alternative_acceptor CUFF.357 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 113;5 K coord_cassette CUFF.358 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 21;609 N alternative_donor CUFF.366 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 66;0 N jcn_only_AD CUFF.355,CUFF.384 chr14 - chr14:104212891-104216130;chr14:104212891-104213269 chr14:104212891-104212988 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 132;44 N cassette CUFF.353 chr14 + chr14:58979346-59014498 chr14:58979346-59006788;chr14:59006855-59014498 chr14:59006789-59006854 307;77 N jcn_only_AD chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 26;127 K intron_retention CUFF.358 chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 146;243 N cassette CUFF.353 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 4;43 N cassette CUFF.382 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 34;12 N coord_cassette CUFF.364 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635 chr14:75158744-75159031;chr14:75165467-75165559 15;68 N alternative_acceptor CUFF.374 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 9;5 K intron_retention CUFF.384 chr14 - chr14:104204198-104205015 chr14:104204197-104204198;chr14:104205015-104205016 359;21 K cassette CUFF.364 chr14 - chr14:75138187-75139533 chr14:75138187-75138671;chr14:75138724-75139533 chr14:75138672-75138723 87;50 K intron_retention CUFF.358 chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 385;425 N jcn_only_AA CUFF.374 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81728276-81734841 chr14:81728275-81728276 chr14:81737014-81737216;chr14:81727000-81728275 9;49 K intron_retention CUFF.350 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 672;146 K cassette CUFF.363 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 32;6 N jcn_only_AA CUFF.366 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 74;9 K cassette CUFF.358 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 511;253 N jcn_only_AD chr14 - chr14:104212891-104212988;chr14:104212891-104213269 chr14:104212891-104216130 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 74;102 K intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 40;81 N alternative_donor chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 26;4 N jcn_only_AD CUFF.374 chr14 - chr14:81893557-81893644;chr14:81893557-81902431 chr14:81893557-81902664 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 60;31 K alternative_acceptor CUFF.364 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 39;30 N intron_retention chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 52;29 N coord_cassette CUFF.345 chr14 + chr14:24564055-24567411 chr14:24564055-24564351;chr14:24564588-24566100;chr14:24566347-24567411 chr14:24564352-24564587;chr14:24566101-24566346 112;441 K cassette CUFF.358 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 111;291 N jcn_only_AD CUFF.384 chr14 - chr14:104208629-104212709 chr14:104208629-104208990 chr14:104208991-104212709 chr14:104212709-104212710 28;472 N jcn_only_AD CUFF.374 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 33;58 K alternative_first_exon CUFF.345 chr14 + chr14:24563464-24563974 chr14:24563644-24563974 chr14:24563349-24563463 chr14:24563466-24563643 29;566 K jcn_only_AA CUFF.347 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 231;184 K intron_retention CUFF.346 chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 9;3 N alternative_last_exon CUFF.364 chr14 - chr14:75136830-75138110 chr14:75137575-75138110 chr14:75136650-75136829 chr14:75137345-75137574 17;83 K cassette CUFF.364 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 137;72 N jcn_only_AD CUFF.366 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 56;59 K cassette CUFF.375 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 14;264 N alternative_donor chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 26;36 K alternative_first_exon CUFF.355,CUFF.384 chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942724 chr14:59941446-59941981 163;295 K jcn_only_AA CUFF.384 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 24;365 K intron_retention CUFF.380 chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 26;44 N jcn_only_AA chr14 - chr14:104212891-104213269;chr14:104213198-104213269 chr14:104213110-104213269 chr14:104212891-104213109;chr14:104213110-104213197 chr14:104212890-104212891;chr14:104213109-104213110 56;38 K alternative_donor CUFF.364 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 55;65 K mutually_exclusive CUFF.344 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 12;63 K cassette CUFF.344 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 22;794 K alternative_last_exon CUFF.349 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50080974-50081390 chr14:50079190-50079276 196;10 N jcn_only_AD CUFF.357 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60011881-60018072 chr14:60018072-60018073 113;37 K intron_retention CUFF.384 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 24;219 K alternative_first_exon CUFF.380 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874700-92874778 53;31 N alternative_acceptor CUFF.366,CUFF.391 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 81;2 N jcn_only_AD chr14 - chr14:75136830-75138110 chr14:75136830-75137464 13;39 N mutually_exclusive CUFF.350 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 15;118 K cassette CUFF.364 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 48;117 K alternative_first_exon CUFF.380 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92790152-92790304 2;73 N alternative_donor CUFF.363 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 20;6 N jcn_only_AD CUFF.363 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71219655-71227718 chr14:71227718-71227719 19;12 N cassette CUFF.350 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 19;554 N jcn_only_AA CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 207;26 N alternative_donor chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 110;113 N jcn_only_AD CUFF.363 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 20;5 N cassette CUFF.345 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 112;676 N jcn_only_AD CUFF.380 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 168;81 K intron_retention CUFF.390 chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 chr14:106208230-106208296;chr14:106208402-106208559 306;189 K cassette CUFF.364 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 163;46 K coord_cassette CUFF.354 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 154;324 N jcn_only_AD chr14 + chr14:23392414-23395669 chr14:23393651-23395669 26;73 K alternative_last_exon CUFF.361 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542062-69542128 chr14:69557785-69557873 337;21 N cassette CUFF.345 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 14;368 N cassette CUFF.361 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 206;205 N alternative_acceptor CUFF.380 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 234;3 K cassette CUFF.370 chr14 - chr14:77275987-77279106 chr14:77275987-77276431;chr14:77276598-77279106 chr14:77276432-77276597 3;99 N cassette CUFF.364 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75179635 chr14:75158744-75159031 15;284 K intron_retention CUFF.351 chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 64;27 K coord_cassette CUFF.358 chr14 + chr14:61451522-61497162 chr14:61451522-61453769;chr14:61453876-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61453770-61453875;chr14:61482622-61482674;chr14:61486259-61486298 21;448 K intron_retention CUFF.355 chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 181;71 K cassette CUFF.378 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 93;33 N alternative_donor chr14 - chr14:104212891-104212988;chr14:104212891-104213269 chr14:104212891-104216130 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 30;102 K cassette CUFF.349 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 20;195 K cassette CUFF.380 chr14 + chr14:92958585-92959819 chr14:92958585-92959170;chr14:92959269-92959819 chr14:92959171-92959268 253;16 N alternative_acceptor CUFF.352 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 chr14:55498581-55498606 chr14:55498606-55498607 84;7 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 15;21 N cassette CUFF.371 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 23;177 K alternative_donor CUFF.353 chr14 + chr14:58894532-58896080 chr14:58894576-58896080 chr14:58894532-58894575 chr14:58894531-58894532 291;145 N cassette CUFF.344 chr14 + chr14:24459569-24464240 chr14:24459569-24459983;chr14:24460162-24464240 chr14:24459984-24460161 265;52 N coord_cassette CUFF.384 chr14 - chr14:104245159-104263707 chr14:104245159-104251131;chr14:104251252-104260913;chr14:104261001-104263707 chr14:104251132-104251251;chr14:104260914-104261000 135;577 K alternative_last_exon CUFF.366 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76368485-76368848 chr14:76353043-76353634 230;111 K jcn_only_AA CUFF.361 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 120;454 K coord_cassette CUFF.364 chr14 - chr14:75143456-75151156 chr14:75143456-75144881;chr14:75145033-75149998;chr14:75150237-75151156 chr14:75144882-75145032;chr14:75149999-75150236 137;39 N alternative_acceptor CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 94;26 K cassette CUFF.350 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 89;582 N jcn_only_AD CUFF.380 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 223;26 K cassette CUFF.358 chr14 + chr14:61512886-61517229 chr14:61512886-61514965;chr14:61515016-61517229 chr14:61514966-61515015 406;87 N intron_retention chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 249;25 K jcn_only_AA CUFF.388 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 54;229 K cassette CUFF.350 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 148;548 N coord_cassette CUFF.345 chr14 + chr14:24563644-24566100 chr14:24563644-24563974;chr14:24564055-24564351;chr14:24564588-24566100 chr14:24563975-24564054;chr14:24564352-24564587 79;405 K intron_retention CUFF.350 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 620;163 N coord_cassette CUFF.344 chr14 + chr14:24459569-24473545 chr14:24459569-24459983;chr14:24460162-24464240;chr14:24464343-24473545 chr14:24459984-24460161;chr14:24464241-24464342 22;36 N alternative_donor CUFF.358 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 483;21 N jcn_only_AD CUFF.366 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 chr14:76187047-76198576 chr14:76187046-76187047 66;24 N jcn_only_AA chr14 + chr14:23390330-23392180;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392177 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 185;48 K coord_cassette CUFF.344 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 981;101 N alternative_donor CUFF.374 chr14 - chr14:81893557-81902664;chr14:81893557-81893644 chr14:81893557-81902431 chr14:81893645-81902431;chr14:81902432-81902664 chr14:81902431-81902432;chr14:81902664-81902665 chr14:81893446-81893556 31;43 K alternative_acceptor CUFF.388 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 54;147 K coord_cassette CUFF.364 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 163;32 K cassette CUFF.378 chr14 - chr14:92195824-92246919 chr14:92195824-92203037;chr14:92203194-92246919 chr14:92203038-92203193 93;65 N jcn_only_AA CUFF.357 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 113;41 N alternative_acceptor chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 7;16 K cassette CUFF.378 chr14 - chr14:92105595-92136157 chr14:92105595-92126180;chr14:92126326-92136157 chr14:92126181-92126325 45;242 N jcn_only_AA chr14 + chr14:23392414-23395669 chr14:23392414-23393509 26;58 N alternative_donor CUFF.384 chr14 - chr14:104212891-104216130;chr14:104212891-104212988 chr14:104212891-104213269 chr14:104212989-104213269;chr14:104213270-104216130 chr14:104213269-104213270;chr14:104216130-104216131 119;13 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 chr14:104225528-104230199;chr14:104230200-104245081 chr14:104230199-104230200;chr14:104245081-104245082 271;395 N alternative_donor chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 128;9 N jcn_only_AA CUFF.366,CUFF.391 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 81;265 K intron_retention CUFF.345 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 274;269 K cassette CUFF.361 chr14 - chr14:69589078-69619481 chr14:69589078-69616147;chr14:69616221-69619481 chr14:69616148-69616220 44;29 K jcn_only_AA CUFF.358 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 607;310 K alternative_acceptor CUFF.358 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 607;177 N cassette CUFF.366 chr14 + chr14:76368568-76420766 chr14:76368568-76407766;chr14:76407838-76420766 chr14:76407767-76407837 16;55 N alternative_acceptor CUFF.357 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 126;24 N alternative_acceptor CUFF.341 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 62;58 K coord_cassette CUFF.358 chr14 + chr14:61518854-61545547 chr14:61518854-61519066;chr14:61519704-61540565;chr14:61540660-61545547 chr14:61519067-61519703;chr14:61540566-61540659 146;222 N jcn_only_AD CUFF.371 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924326-77924612 chr14:77924325-77924326 10;156 N alternative_donor CUFF.380 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 89;80 K cassette CUFF.351 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 64;13 K alternative_first_exon CUFF.384 chr14 - chr14:104263856-104306415,chr14:104263856-104313111;chr14:104263856-104313635 chr14:104263856-104313344 chr14:104313636-104314002 chr14:104313345-104313475 819;308 N cassette CUFF.678 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 31;543 N jcn_only_AD CUFF.669 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 283;23 K intron_retention CUFF.737 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 232;18 N alternative_donor chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 131;166 N intron_retention chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 21;134 K cassette CUFF.740 chr19 + chr19:52264484-52271897 chr19:52264484-52266614;chr19:52266771-52271897 chr19:52266615-52266770 204;22 N cassette CUFF.689 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 20;194 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 127;133 K intron_retention CUFF.733 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 1194;52 N alternative_donor CUFF.692 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 90;178 N alternative_donor CUFF.745 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 77;19 K intron_retention CUFF.682 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 32;120 K alternative_last_exon CUFF.728 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116165-49116564 chr19:49117425-49117884 92;143 N alternative_acceptor chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 56;208 K cassette CUFF.685 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 110;99 K jcn_only_AD CUFF.741 chr19 + chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157 chr19:52901153-52901154 302;114 K intron_retention CUFF.692 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 25;15 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 60;65 N alternative_acceptor CUFF.668 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 17;61 N alternative_acceptor CUFF.709 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 478;2 N jcn_only_AD CUFF.709,CUFF.714 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 649;30 K alternative_first_exon CUFF.697 chr19 + chr19:17447967-17448816,chr19:17448457-17448816,chr19:17447844-17448816,chr19:17445921-17448816;chr19:17445932-17448816;chr19:17448079-17448816 chr19:17448386-17448816,chr19:17448474-17448816 chr19:17445644-17445931;chr19:17447529-17448078 chr19:17448334-17448385 1074;587 N alternative_donor chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 672;635 N jcn_only_AA CUFF.697 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 651;131 N alternative_acceptor CUFF.724 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 59;170 N jcn_only_AD CUFF.692 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 276;82 K alternative_acceptor CUFF.720 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 14;19 K alternative_first_exon CUFF.751 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56348076-56348166 chr19:56347702-56347954 101;55 K coord_cassette CUFF.689 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866657-14867049 chr19:14865766-14865939;chr19:14866466-14866656 50;225 N alternative_acceptor CUFF.662 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 879;38 K cassette CUFF.749 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 81;111 K intron_retention CUFF.684 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 32;64 N jcn_only_AA CUFF.698 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 100;81 K intron_retention CUFF.721 chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 210;601 N jcn_only_AA CUFF.697 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 653;129 N intron_retention chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 13;69 K coord_cassette CUFF.737 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 28;130 N alternative_donor CUFF.662 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 251;469 K intron_retention CUFF.724 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 66;35 N alternative_donor CUFF.669 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 35;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 110;196 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 chr19:17447967-17448473 chr19:17447966-17447967 131;131 K jcn_only_AA CUFF.684 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 78;134 N jcn_only_AA chr19 - chr19:21632180-21636351 chr19:21636082-21636351 13;78 N jcn_only_AA chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 56;114 K intron_retention CUFF.729 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 127;13 N alternative_acceptor CUFF.745 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 130;13 K alternative_first_exon CUFF.723 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725074 46;34 K intron_retention CUFF.733 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 1091;13 N intron_retention CUFF.662 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 251;389 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 174;522 K intron_retention CUFF.733 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 1246;22 K intron_retention CUFF.716 chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 4;3 N alternative_acceptor chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 55;90 N jcn_only_AA CUFF.738 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 73;61 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 261;522 K cassette CUFF.685 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 90;132 N jcn_only_AA CUFF.730 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 63;30 K intron_retention CUFF.714 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 1283;41 N alternative_donor CUFF.689 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 349;15 N alternative_donor chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 146;416 K intron_retention CUFF.733 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 1382;31 N alternative_acceptor CUFF.698 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 21;16 N jcn_only_AD CUFF.665 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 285;41 N alternative_donor CUFF.709 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 663;644 K intron_retention ENSG00000269399.1 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 231;10 K intron_retention CUFF.714 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 24;49 N intron_retention CUFF.745 chr19 + chr19:54657578-54658995 chr19:54657577-54657578;chr19:54658995-54658996 29;57 K intron_retention CUFF.697 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 1643;219 K alternative_last_exon CUFF.703 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243270-20243396 chr19:20338830-20339292 81;131 N jcn_only_AD CUFF.709 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 4118;644 N cassette CUFF.678 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 68;928 N jcn_only_AA chr19 - chr19:33984244-34003498 chr19:34002062-34003498 88;382 K intron_retention CUFF.733 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 67;26 K alternative_first_exon CUFF.697 chr19 + chr19:17447967-17448816,chr19:17448457-17448816,chr19:17447844-17448816,chr19:17445921-17448816;chr19:17448386-17448816,chr19:17448474-17448816;chr19:17448079-17448816 chr19:17445932-17448816 chr19:17448334-17448385;chr19:17447529-17448078 chr19:17445644-17445931 1635;26 K cassette CUFF.669 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 87;18 K intron_retention CUFF.733 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 1309;23 N jcn_only_AA CUFF.665 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 615;40 K alternative_first_exon CUFF.724 chr19 + chr19:44764092-44768466;chr19:44764156-44768466 chr19:44764362-44768466 chr19:44763977-44764155 chr19:44764165-44764361 131;93 K intron_retention CUFF.687 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 4287;30 N jcn_only_AA CUFF.662 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 52;251 N intron_retention chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 34;106 K intron_retention CUFF.692 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 505;34 K coord_cassette CUFF.689 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 50;228 N jcn_only_AD CUFF.692 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 327;117 K jcn_only_AA CUFF.724,CUFF.745 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 174;77 N cassette CUFF.696 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 13;26 K intron_retention CUFF.668 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 589;11 N alternative_donor CUFF.684 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 49;1188 N coord_cassette CUFF.689 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 20;91 K intron_retention CUFF.672 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 64;76 N cassette CUFF.692 chr19 + chr19:16186983-16197232 chr19:16186983-16192722;chr19:16192857-16197232 chr19:16192723-16192856 110;483 N jcn_only_AD CUFF.737 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 343;172 K alternative_donor CUFF.741 chr19 + chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157 chr19:52901153-52901154 302;95 K alternative_first_exon CUFF.703 chr19 - chr19:20243397-20349096;chr19:20243397-20351308 chr19:20243397-20261169 chr19:20349097-20349343;chr19:20351309-20351446 chr19:20261170-20261357 110;20 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 31;153 K intron_retention CUFF.697 chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 211;139 K cassette CUFF.669 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 354;185 K intron_retention CUFF.733 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 171;35 K alternative_first_exon CUFF.703,CUFF.751 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 148;92 K jcn_only_AA CUFF.703 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 21;187 K intron_retention CUFF.741 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 13;6 K jcn_only_AD CUFF.710 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 368;340 N alternative_acceptor CUFF.724 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 133;8 N alternative_acceptor CUFF.662 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 814;103 N alternative_first_exon CUFF.721 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41946386-41946691;chr19:41945787-41945815 chr19:41945379-41945477 968;144 N cassette CUFF.689 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 75;66 K intron_retention CUFF.687 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 6856;20 K alternative_first_exon CUFF.726 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254484-45254637 chr19:45258423-45258731 154;29 K cassette CUFF.669 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 280;344 K jcn_only_AA CUFF.697 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 118;572 K intron_retention CUFF.721 chr19 - chr19:41938314-41939176 chr19:41938313-41938314;chr19:41939176-41939177 624;190 N jcn_only_AD CUFF.662 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 113;1234 N jcn_only_AA CUFF.662 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 1240;171 N jcn_only_AD CUFF.680 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 34;53 N alternative_donor CUFF.698 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 81;1 N mutually_exclusive CUFF.669 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 105;11 N cassette CUFF.669 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 15;411 K intron_retention CUFF.701 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 252;68 N jcn_only_AA CUFF.662 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 1380;31 K intron_retention CUFF.717 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 18;26 N jcn_only_AA CUFF.745 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 88;98 N jcn_only_AD CUFF.692 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 265;178 K cassette CUFF.753 chr19 + chr19:58963072-58965062 chr19:58963072-58963494;chr19:58964150-58965062 chr19:58963495-58964149 159;1980 K intron_retention CUFF.715 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 179;145 K alternative_donor CUFF.726 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 250;131 N cassette CUFF.689 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 184;218 K intron_retention CUFF.728 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 87;72 N intron_retention chr19 - chr19:41531963-41531964 chr19:41531962-41531963;chr19:41531964-41531965 1;24 N jcn_only_AA CUFF.709 chr19 - chr19:33882386-33892626 chr19:33887062-33892626 chr19:33882386-33887061 chr19:33882385-33882386 478;60 N jcn_only_AA CUFF.689 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 289;64 N alternative_first_exon CUFF.721 chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41946386-41946691;chr19:41945379-41945477 chr19:41945787-41945815 189;923 N jcn_only_AD CUFF.714 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 122;1283 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 100;151 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 45;199 K intron_retention CUFF.738 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 118;22 N jcn_only_AD chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 75;478 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 131;116 N alternative_acceptor chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 75;66 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 307;610 K alternative_last_exon CUFF.668 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894684-5894865 30;552 N jcn_only_AD CUFF.668 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 61;548 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 43;15 N alternative_donor CUFF.692 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 183;85 N intron_retention chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 24;174 N cassette CUFF.698 chr19 + chr19:17611686-17615263 chr19:17611686-17612081;chr19:17612229-17615263 chr19:17612082-17612228 82;111 K jcn_only_AD CUFF.717 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 12;155 N alternative_donor CUFF.737 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 343;121 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 36;20 N cassette CUFF.697 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 15;369 K alternative_first_exon CUFF.729 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314374 chr19:49314066-49314205 80;26 N jcn_only_AD chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 74;11 N jcn_only_AA chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 30;178 N alternative_acceptor CUFF.665 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 210;19 K intron_retention CUFF.726 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 250;225 K cassette CUFF.717 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 20;108 K intron_retention CUFF.745 chr19 + chr19:54647486-54647741 chr19:54647485-54647486;chr19:54647741-54647742 148;6 N alternative_donor CUFF.692 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 276;4 K intron_retention CUFF.729 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 291;134 N alternative_donor CUFF.665 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 204;34 K cassette CUFF.736 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 124;109 N intron_retention CUFF.741 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 16;4 K alternative_acceptor CUFF.703 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 21;139 N jcn_only_AD CUFF.709 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 513;40 N jcn_only_AA CUFF.668 chr19 - chr19:5901466-5903622;chr19:5902651-5903622 chr19:5897009-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 320;61 N alternative_donor CUFF.680 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 34;29 N jcn_only_AA CUFF.737 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 68;245 N jcn_only_AA CUFF.716 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 3;19 K intron_retention CUFF.692 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 178;62 N jcn_only_AA chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 116;70 K intron_retention CUFF.697 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 122;66 N jcn_only_AD CUFF.662 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 251;409 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 65;20 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 14;145 K jcn_only_AA CUFF.751 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 193;65 N alternative_acceptor CUFF.729 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 202;54 N cassette CUFF.689 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866657-14867049 chr19:14866466-14866656 184;210 K cassette CUFF.721 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 788;675 K cassette CUFF.741 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 12;640 K jcn_only_AD CUFF.680 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 11;102 N jcn_only_AA CUFF.698 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 21;36 K intron_retention CUFF.733 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 1321;41 K intron_retention CUFF.674 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 chr19:6375159-6375627;chr19:6375713-6379069 26;57 N coord_cassette CUFF.698 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17612081;chr19:17612229-17615263 chr19:17611521-17611685;chr19:17612082-17612228 24;102 N cassette CUFF.689 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 38;384 N jcn_only_AD chr19 - chr19:51537897-51538061 chr19:51537897-51538050 517;35 N alternative_acceptor CUFF.737 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 140;11 N intron_retention chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 152;61 N alternative_acceptor CUFF.724 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 74;67 N alternative_donor CUFF.662 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 113;660 K alternative_last_exon CUFF.692 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206226 325;66 K mutually_exclusive CUFF.736 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 123;73 K alternative_first_exon CUFF.741 chr19 + chr19:52901154-52901619,chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901039-52901153 chr19:52901158-52901273 276;96 K alternative_acceptor CUFF.733 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 1194;103 N jcn_only_AD CUFF.669 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 276;30 N jcn_only_AD chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 146;876 N jcn_only_AA CUFF.729 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 202;53 K cassette CUFF.730 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 47;46 N alternative_acceptor chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 48;165 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 56;243 N coord_cassette CUFF.689 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 25;264 N alternative_acceptor CUFF.685 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 142;3 N jcn_only_AD CUFF.664 chr19 - chr19:42744295-42759129 chr19:42744295-42746334 chr19:42746335-42759129 chr19:42759129-42759130 2;25 N cassette CUFF.678 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 37;290 K alternative_acceptor CUFF.675,CUFF.741 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 10;11 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 31;42 N jcn_only_AA CUFF.685 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 142;25 K intron_retention CUFF.665 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 220;114 K cassette CUFF.726 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 72;72 N intron_retention CUFF.697 chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 131;20 N cassette CUFF.689 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 58;391 N jcn_only_AA CUFF.724 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 140;26 K cassette CUFF.712 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 229;307 N alternative_acceptor chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 73;70 K intron_retention CUFF.697 chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 228;354 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-33991843 chr19:33984244-34001933 460;46 N alternative_acceptor CUFF.668 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 75;3 K alternative_first_exon CUFF.688 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 21;49 N jcn_only_AD CUFF.709 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 518;35 N jcn_only_AA CUFF.662 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 1366;45 N jcn_only_AD CUFF.680,CUFF.709 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 4851;23 N jcn_only_AD CUFF.751 chr19 - chr19:6176455-6199490 chr19:6176455-6199486 11;14 K alternative_donor CUFF.680 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 11;69 N alternative_acceptor CUFF.662 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 895;22 K intron_retention CUFF.697 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 309;200 N alternative_acceptor CUFF.741 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 13;8 K intron_retention CUFF.662 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 52;389 N cassette CUFF.698 chr19 + chr19:17611442-17615263 chr19:17611442-17611520;chr19:17611686-17615263 chr19:17611521-17611685 24;129 N alternative_donor chr19 - chr19:33882386-33886995;chr19:33882386-33886015 chr19:33882386-33892626 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 2;478 K cassette CUFF.730 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 21;57 N jcn_only_AD CUFF.692 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 295;148 N jcn_only_AA CUFF.668 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 101;280 N jcn_only_AA CUFF.697,CUFF.698 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 162;19 N alternative_donor CUFF.665 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 435;10 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 1046;186 K cassette CUFF.706 chr19 + chr19:32851525-32873372 chr19:32851525-32871514;chr19:32871527-32873372 chr19:32871515-32871526 26;6 N jcn_only_AD CUFF.665 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 435;22 N coord_cassette CUFF.729 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 88;223 N alternative_donor CUFF.669 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 36;0 N jcn_only_AA chr19 - chr19:33984244-34001933 chr19:33991908-34001933 46;445 K alternative_donor CUFF.696 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 19;64 K intron_retention CUFF.733 chr19 + chr19:50304879-50304978 chr19:50304878-50304879;chr19:50304978-50304979 1019;13 K intron_retention CUFF.733 chr19 + chr19:50304257-50304659 chr19:50304256-50304257;chr19:50304659-50304660 904;16 N alternative_acceptor chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 30;176 K alternative_donor CUFF.717 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 12;77 N jcn_only_AD CUFF.662 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1046;151 N alternative_donor CUFF.669,CUFF.729 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 36;0 K alternative_last_exon CUFF.745 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54659047-54659419 chr19:54657681-54658205 410;85 N jcn_only_AD CUFF.665 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 118;208 N cassette CUFF.741 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 24;24 N alternative_acceptor CUFF.668 chr19 - chr19:5897009-5903622;chr19:5902651-5903622 chr19:5901466-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 64;14 N jcn_only_AD CUFF.745 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656737-54656819 chr19:54656736-54656737 77;37 K alternative_last_exon CUFF.704 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637185-21637274 chr19:21638139-21638406 251;104 K alternative_acceptor CUFF.684 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 78;74 N cassette CUFF.669 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 224;267 K intron_retention CUFF.665 chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 42;139 K cassette CUFF.721 chr19 - chr19:41938314-41939441 chr19:41938314-41939176;chr19:41939340-41939441 chr19:41939177-41939339 328;833 N alternative_donor CUFF.692 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 263;5 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 68;48 K intron_retention CUFF.745 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 188;55 N jcn_only_AA chr19 + chr19:17597767-17597982 chr19:17597767-17597908 53;31 K alternative_first_exon CUFF.692 chr19 + chr19:16187508-16192722;chr19:16191886-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16191725-16191885;chr19:16186857-16186982 chr19:16191051-16191252 470;91 N cassette CUFF.721 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 313;670 K intron_retention CUFF.701 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 191;88 N jcn_only_AD chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 26;38 N alternative_donor CUFF.680,CUFF.709 chr19 - chr19:33954969-33968951 chr19:33954969-33967985 chr19:33967986-33968951 chr19:33968951-33968952 4851;9 K jcn_only_AD CUFF.729 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 202;60 K alternative_donor CUFF.697 chr19 + chr19:17448386-17448816 chr19:17448474-17448816 chr19:17448386-17448473 chr19:17448385-17448386 228;413 N cassette CUFF.745 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 42;184 K jcn_only_AD CUFF.712 chr19 + chr19:36139796-36142134 chr19:36139811-36142134 chr19:36139796-36139810 chr19:36139795-36139796 40;300 N jcn_only_AA CUFF.684 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 157;36 N intron_retention chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 37;69 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 35;2081 N jcn_only_AD chr19 - chr19:33984244-33991843;chr19:33984244-34001933 chr19:33984244-34003498 418;88 N intron_retention CUFF.714 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 98;43 N jcn_only_AD CUFF.665 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 249;77 N alternative_acceptor CUFF.738 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52089880-52092800 chr19:52092800-52092801 73;69 K intron_retention CUFF.680 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 34;11 K intron_retention CUFF.697 chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 496;334 N alternative_donor CUFF.662 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 1046;238 N alternative_acceptor CUFF.745 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 83;60 N alternative_acceptor CUFF.716 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909770-40913626 chr19:40909769-40909770 3;3 N intron_retention chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 78;135 N jcn_only_AA chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 67;127 K intron_retention CUFF.701 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 166;66 N alternative_first_exon CUFF.721,CUFF.737 chr19 - chr19:41944320-41945786;chr19:41944320-41945378 chr19:41944320-41946385 chr19:41945787-41945815;chr19:41945379-41945477 chr19:41946386-41946691 1067;45 K alternative_first_exon CUFF.697 chr19 + chr19:17447967-17448816,chr19:17448457-17448816,chr19:17447844-17448816,chr19:17445921-17448816;chr19:17448386-17448816,chr19:17448474-17448816;chr19:17445932-17448816 chr19:17448079-17448816 chr19:17448334-17448385;chr19:17445644-17445931 chr19:17447529-17448078 1062;599 K intron_retention CUFF.662 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 409;170 K jcn_only_AA CUFF.675,CUFF.741 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 10;23 K alternative_first_exon CUFF.673 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217007 175;83 N jcn_only_AD CUFF.709,CUFF.714 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 1381;24 N alternative_donor CUFF.714 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 1298;54 N alternative_donor CUFF.668 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 61;48 K intron_retention CUFF.721 chr19 - chr19:41938314-41939441 chr19:41938313-41938314;chr19:41939441-41939442 328;39 K alternative_first_exon CUFF.683 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11039690-11041000 chr19:11042741-11042936 778;122 K mutually_exclusive CUFF.749 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 137;12 N alternative_donor CUFF.665 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 161;77 N jcn_only_AA CUFF.741 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 13;16 K alternative_acceptor CUFF.689 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 120;82 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 365;1046 N cassette CUFF.689 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 25;367 N jcn_only_AA chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 37;13 N jcn_only_AA CUFF.724 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 82;573 K intron_retention CUFF.733 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 1296;40 N alternative_acceptor CUFF.684 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 109;36 K cassette CUFF.741 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 367;98 K cassette CUFF.751 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 154;31 N coord_cassette CUFF.709 chr19 - chr19:33904550-33968951 chr19:33904550-33953900;chr19:33953948-33954892;chr19:33954969-33968951 chr19:33953901-33953947;chr19:33954893-33954968 356;5687 K intron_retention CUFF.697 chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 522;113 K alternative_first_exon CUFF.737 chr19 - chr19:51528923-51530712,chr19:51528923-51531199;chr19:51528923-51529793 chr19:51528923-51529011 chr19:51529794-51529858 chr19:51529012-51529102 230;44 K intron_retention CUFF.692 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 101;119 K cassette CUFF.686 chr19 + chr19:11888553-11889144 chr19:11888553-11888930;chr19:11888995-11889144 chr19:11888931-11888994 23;61 N jcn_only_AD CUFF.689 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 349;19 K intron_retention CUFF.710 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 420;102 N jcn_only_AA CUFF.665 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 613;42 K alternative_first_exon CUFF.685,CUFF.735 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11546511-11546601 chr19:11545594-11545925 50;159 N jcn_only_AA chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 48;263 N alternative_acceptor CUFF.662 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 872;45 N intron_retention chr19 - chr19:51537897-51538050 chr19:51537896-51537897;chr19:51538050-51538051 35;8 N jcn_only_AA CUFF.668 chr19 - chr19:5897009-5903622;chr19:5901466-5903622 chr19:5902651-5903622 chr19:5897009-5901465;chr19:5901466-5902650 chr19:5897008-5897009;chr19:5901465-5901466 341;40 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 71;14 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 50;36 K alternative_acceptor CUFF.724,CUFF.745 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 174;44 N cassette CUFF.701 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 27;1174 N jcn_only_AD CUFF.669,CUFF.729 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 299;7 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 31;5 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 53;54 N alternative_acceptor CUFF.697 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 20;328 N intron_retention chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 113;99 K jcn_only_AA CUFF.733 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 1194;171 K alternative_donor CUFF.710 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 368;170 N jcn_only_AA CUFF.698 chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 100;81 N intron_retention CUFF.697 chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 129;33 N jcn_only_AA CUFF.662 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 1393;19 N alternative_acceptor CUFF.662 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 818;99 K cassette CUFF.733 chr19 + chr19:50305399-50306205 chr19:50305399-50305790;chr19:50305857-50306205 chr19:50305791-50305856 1091;93 K intron_retention CUFF.714 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 457;798 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 35;51 K intron_retention CUFF.721 chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 458;183 N alternative_donor CUFF.665 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 111;127 K alternative_first_exon CUFF.735 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551342 47;53 N alternative_acceptor CUFF.697 chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 616;80 N alternative_donor CUFF.669 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 6;30 K jcn_only_AD CUFF.696 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 19;71 N intron_retention chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 377;356 N jcn_only_AD CUFF.669 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 257;49 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 19;141 N jcn_only_AA CUFF.737 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 140;23 N jcn_only_AA CUFF.697 chr19 + chr19:17445932-17448816 chr19:17445932-17447628 chr19:17447629-17448816 chr19:17448816-17448817 20;26 N jcn_only_AD chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 762;3999 N alternative_acceptor CUFF.662 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 52;264 N alternative_donor CUFF.709 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 1279;28 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 14;209 N alternative_donor chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 74;11 N intron_retention chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 53;191 N alternative_acceptor CUFF.730 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 63;14 N alternative_donor CUFF.709 chr19 - chr19:33882386-33892626;chr19:33882386-33886995 chr19:33882386-33886015 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 479;1 N coord_cassette CUFF.669 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 249;85 K intron_retention CUFF.753 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 359;93 N jcn_only_AD chr19 + chr19:8129070-8130279 chr19:8129234-8130279 36;47 N cassette CUFF.737 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 400;211 K alternative_donor CUFF.712 chr19 + chr19:36139796-36142134 chr19:36139811-36142134 chr19:36139796-36139810 chr19:36139795-36139796 40;156 K cassette CUFF.749 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 24;354 N alternative_donor CUFF.714 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 69;1283 N intron_retention chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 38;238 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 75;11 N intron_retention chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 517;9 K cassette CUFF.689 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 129;77 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 47;39 N jcn_only_AA CUFF.684 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 163;31 K alternative_last_exon CUFF.704 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21635836-21636579 57;257 N intron_retention chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 146;84 K alternative_first_exon CUFF.712 chr19 + chr19:36139306-36142134 chr19:36139796-36142134,chr19:36139811-36142134 chr19:36139125-36139305 chr19:36139585-36139795 44;206 N intron_retention chr19 - chr19:41531571-41531572 chr19:41531570-41531571;chr19:41531572-41531573 2;60 K alternative_donor CUFF.664 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 38;7 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 14;131 K intron_retention CUFF.692 chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 231;101 K alternative_first_exon CUFF.692 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16186983-16192722 chr19:16191886-16192722 chr19:16191051-16191252;chr19:16186857-16186982 chr19:16191725-16191885 362;199 N intron_retention chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 38;317 N alternative_donor chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445932-17447536 chr19:17445931-17445932 26;5 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 15;111 N jcn_only_AA CUFF.745 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 168;18 K intron_retention CUFF.741 chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 14;39 N jcn_only_AA CUFF.745 chr19 + chr19:8129070-8130279 chr19:8129070-8130274 36;36 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 573;46 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 20;25 K intron_retention CUFF.733 chr19 + chr19:50285228-50296292 chr19:50285227-50285228;chr19:50296292-50296293 545;6 N alternative_acceptor CUFF.684 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 126;19 N alternative_acceptor CUFF.737 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 68;144 K intron_retention CUFF.741 chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 11;37 N jcn_only_AD CUFF.714 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 1307;98 K cassette CUFF.751 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 58;117 K jcn_only_AD CUFF.664 chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 38;11 K intron_retention CUFF.726 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 60;228 K jcn_only_AA CUFF.689 chr19 - chr19:14866657-14867049 chr19:14866690-14867049 chr19:14866657-14866689 chr19:14866656-14866657 120;137 K intron_retention CUFF.704 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 257;10 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 171;156 K intron_retention CUFF.733 chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 860;25 K intron_retention CUFF.733 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 152;13 K intron_retention CUFF.733 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 1418;50 K intron_retention chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 876;59 K intron_retention CUFF.712 chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 40;61 N jcn_only_AD chr19 - chr19:33984244-34003498;chr19:33984244-34001933 chr19:33984244-33991843 135;372 N alternative_donor CUFF.709 chr19 - chr19:33882386-33892626;chr19:33882386-33886015 chr19:33882386-33886995 chr19:33886016-33886995;chr19:33886996-33892626 chr19:33886995-33886996;chr19:33892626-33892627 479;1 K intron_retention CUFF.684 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 49;2035 N jcn_only_AD CUFF.698 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 163;25 K intron_retention CUFF.665 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 177;80 K intron_retention CUFF.704 chr19 - chr19:21637275-21639262 chr19:21637274-21637275;chr19:21639262-21639263 371;5 K intron_retention CUFF.737 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 318;238 N alternative_acceptor CUFF.697 chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 602;94 K intron_retention CUFF.701 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 98;80 K jcn_only_AD CUFF.697 chr19 + chr19:17448386-17448816 chr19:17448474-17448816 chr19:17448386-17448473 chr19:17448385-17448386 228;522 K intron_retention CUFF.715 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 269;44 N cassette CUFF.669 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 149;558 K intron_retention CUFF.704 chr19 - chr19:21638407-21639262 chr19:21638406-21638407;chr19:21639262-21639263 102;2 N alternative_acceptor CUFF.665 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 189;40 K alternative_acceptor CUFF.697 chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 118;307 N alternative_acceptor CUFF.689 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 289;16 K jcn_only_AD CUFF.726 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 250;60 K intron_retention CUFF.701 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 213;53 N alternative_donor CUFF.698 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 163;183 K alternative_first_exon CUFF.703 chr19 - chr19:20243397-20349096;chr19:20243397-20261169 chr19:20243397-20351308 chr19:20349097-20349343;chr19:20261170-20261357 chr19:20351309-20351446 109;21 N jcn_only_AA CUFF.724 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 92;74 N alternative_donor CUFF.709,CUFF.714 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 1337;15 N coord_cassette CUFF.669 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 216;15 K cassette CUFF.698 chr19 + chr19:17598339-17599816 chr19:17598339-17599656;chr19:17599749-17599816 chr19:17599657-17599748 42;191 K alternative_first_exon CUFF.692 chr19 + chr19:16187508-16192722;chr19:16191253-16192722;chr19:16191886-16192722 chr19:16186983-16192722 chr19:16191051-16191252;chr19:16191725-16191885 chr19:16186857-16186982 363;198 K jcn_only_AA CUFF.720 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 14;39 N alternative_acceptor chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 37;9 K intron_retention CUFF.745 chr19 + chr19:54656737-54657451 chr19:54656736-54656737;chr19:54657451-54657452 77;109 N intron_retention CUFF.741 chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 13;36 N jcn_only_AA CUFF.662 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 1311;100 K alternative_first_exon CUFF.703 chr19 - chr19:20243397-20261169;chr19:20243397-20351308 chr19:20243397-20349096 chr19:20261170-20261357;chr19:20351309-20351446 chr19:20349097-20349343 41;89 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 22;72 K intron_retention CUFF.662 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 1234;78 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 151;199 N alternative_donor CUFF.709,CUFF.714 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 649;12 K intron_retention CUFF.687 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 4771;13 N jcn_only_AA chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 101;66 N jcn_only_AD CUFF.698 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 81;23 K intron_retention CUFF.724 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 123;45 N jcn_only_AD CUFF.684 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 49;35 K jcn_only_AA CUFF.750 chr19 + chr19:55255537-55275342 chr19:55255537-55258786 116;118 K intron_retention CUFF.745 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 22;42 K alternative_first_exon CUFF.698 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 chr19:17581281-17581516 chr19:17597372-17598144 88;156 N cassette CUFF.729 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 97;234 N jcn_only_AD CUFF.709 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33977809-33978155;chr19:33978156-33980901 chr19:33978155-33978156;chr19:33980901-33980902 4643;118 N alternative_donor CUFF.664 chr19 - chr19:42744295-42759129 chr19:42744295-42746334 chr19:42746335-42759129 chr19:42759129-42759130 2;2 K alternative_donor CUFF.729 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 202;162 N jcn_only_AA CUFF.655 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 51;94 N jcn_only_AD CUFF.637 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 351;12 K cassette CUFF.630 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 144;171 N intron_retention chr18 + chr18:44336588-44336745 chr18:44336587-44336588;chr18:44336745-44336746 7;130 N jcn_only_AD chr18 - chr18:44483597-44484064;chr18:44483597-44486189 chr18:44483597-44500021 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 174;71 N cassette CUFF.646 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895121-55912658 chr18:55895062-55895120 344;190 N alternative_donor CUFF.646 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 523;16 K jcn_only_AA CUFF.655 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 56;146 K intron_retention CUFF.630 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 252;109 N jcn_only_AA CUFF.636 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 211;41 K alternative_first_exon CUFF.659 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441436-77441517 22;37 N jcn_only_AD CUFF.643 chr18 - chr18:44483597-44486189;chr18:44483597-44500021 chr18:44483597-44484064 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 94;152 N alternative_acceptor chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 39;56 N alternative_first_exon CUFF.643 chr18 - chr18:44486279-44497284;chr18:44486279-44497964 chr18:44486279-44500021 chr18:44497285-44497516;chr18:44497965-44498048 chr18:44500022-44500105 195;20 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 9;91 N jcn_only_AA CUFF.652 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 chr18:63429883-63430288;chr18:63476940-63477234 236;23 N coord_cassette CUFF.646 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 11;295 K intron_retention CUFF.641 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 81;107 N jcn_only_AA CUFF.634 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 562;31 N alternative_acceptor CUFF.646 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 297;41 K intron_retention CUFF.634 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 461;297 K jcn_only_AA CUFF.655 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 22;214 K intron_retention CUFF.651 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 230;38 K mutually_exclusive CUFF.630 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 58;140 K cassette CUFF.648 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 81;12 N mutually_exclusive CUFF.643 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 84;10 N alternative_donor CUFF.643 chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 91;1 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 15;39 K alternative_acceptor CUFF.655 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 22;205 N jcn_only_AD CUFF.646 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 562;29 N cassette CUFF.646 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 9;223 N alternative_donor CUFF.646 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 23;22 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 266;16 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 17;174 K alternative_last_exon CUFF.650 chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61390229-61391126 chr18:61378569-61378628 40;262 K cassette CUFF.634 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 198;480 N alternative_donor CUFF.646 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 601;8 K cassette CUFF.634 chr18 + chr18:12014373-12028041 chr18:12014373-12021700;chr18:12021822-12028041 chr18:12021701-12021821 755;65 N jcn_only_AA CUFF.641 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 17;81 K alternative_first_exon CUFF.634 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11980944-11981204 chr18:11981397-11981764 77;312 N alternative_first_exon chr18 - chr18:44486279-44497284;chr18:44486279-44500021 chr18:44486279-44497964 chr18:44497285-44497516;chr18:44500022-44500105 chr18:44497965-44498048 137;78 N jcn_only_AD CUFF.634 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 562;28 N alternative_first_exon CUFF.646 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 218;530 N jcn_only_AD CUFF.646 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 601;28 K cassette CUFF.630 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-180235 chr18:166787-166819 72;139 N jcn_only_AD CUFF.646 chr18 + chr18:55833094-55895061;chr18:55862966-55895061 chr18:55888990-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 216;23 N jcn_only_AA CUFF.655 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 105;40 N alternative_donor CUFF.652 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417617-63418386 chr18:63417616-63417617 chr18:63429883-63430288;chr18:63417488-63417616 5;174 N jcn_only_AD CUFF.646 chr18 + chr18:55888990-55895061;chr18:55862966-55895061 chr18:55833094-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 48;192 N coord_cassette CUFF.641 chr18 - chr18:44284628-44338957 chr18:44284628-44301324;chr18:44301433-44310168;chr18:44310325-44311643;chr18:44311807-44338957 chr18:44301325-44301432;chr18:44310169-44310324;chr18:44311644-44311806 17;145 N alternative_acceptor CUFF.637 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 chr18:14799100-14808549 chr18:14808549-14808550 10;2 K cassette CUFF.660 chr18 + chr18:77891076-77893494 chr18:77891076-77891574;chr18:77891690-77893494 chr18:77891575-77891689 182;22 K jcn_only_AD CUFF.650 chr18 + chr18:61377596-61390228 chr18:61388221-61390228 21;255 N alternative_donor CUFF.646 chr18 + chr18:55888990-55895061;chr18:55833094-55895061 chr18:55862966-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 193;1 N jcn_only_AD CUFF.652 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417617-63418386 chr18:63417616-63417617 chr18:63429883-63430288;chr18:63417488-63417616 5;180 N alternative_donor CUFF.637 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 chr18:14797854-14803823 chr18:14797853-14797854 10;4 N jcn_only_AA chr18 - chr18:44483599-44497284 chr18:44486279-44497284 chr18:44483599-44486278 chr18:44483598-44483599 39;143 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 9;15 N jcn_only_AD CUFF.637 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 chr18:14797854-14803823 chr18:14797853-14797854 10;122 K mutually_exclusive CUFF.659 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 11;10 N jcn_only_AA chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 52;71 N cassette CUFF.650 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 16;220 K alternative_first_exon CUFF.637 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728271-14728513 chr18:14796342-14796414 34;84 N alternative_first_exon CUFF.643 chr18 - chr18:44486279-44497964;chr18:44486279-44500021 chr18:44486279-44497284 chr18:44497965-44498048;chr18:44500022-44500105 chr18:44497285-44497516 98;117 N alternative_donor CUFF.636 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 41;71 N alternative_acceptor CUFF.652 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63470351-63476939 chr18:63476939-63476940 chr18:63429883-63430288;chr18:63476940-63477234 236;5 N jcn_only_AD CUFF.646 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 507;59 K intron_retention CUFF.649 chr18 - chr18:61060783-61064266 chr18:61060782-61060783;chr18:61064266-61064267 351;20 N alternative_donor CUFF.646 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 507;0 N cassette CUFF.646 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 11;300 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 266;15 K cassette CUFF.630 chr18 + chr18:163454-180235 chr18:163454-178932;chr18:179038-180235 chr18:178933-179037 72;58 N alternative_donor CUFF.646 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 562;5 N alternative_donor chr18 - chr18:44483597-44484064;chr18:44483597-44486189 chr18:44483597-44500021 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 21;71 K alternative_first_exon CUFF.645 chr18 - chr18:47329224-47340051,chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47339838;chr18:47329224-47337765 chr18:47329224-47339094 chr18:47339839-47340330;chr18:47337766-47337891 chr18:47339095-47339480 146;230 K jcn_only_AA CUFF.654 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 52;23 N alternative_donor CUFF.634 chr18 + chr18:11999187-12009881 chr18:12008591-12009881 chr18:11999187-12008590 chr18:11999186-11999187 562;2 K intron_retention CUFF.634 chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 36;136 N alternative_acceptor CUFF.637 chr18 + chr18:14791491-14796341 chr18:14791491-14796219 chr18:14796220-14796341 chr18:14796341-14796342 351;4 N alternative_acceptor chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 23;2 K alternative_donor CUFF.660 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 28;92 N intron_retention CUFF.643 chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 22;79 N jcn_only_AD CUFF.636 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658205-12658342 chr18:12658204-12658205 41;52 N cassette CUFF.646 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 19;425 N alternative_donor CUFF.643 chr18 - chr18:44483597-44486189;chr18:44483597-44500021 chr18:44483597-44484064 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 72;20 K alternative_first_exon CUFF.658 chr18 - chr18:76737430-76738785;chr18:76737430-76738462 chr18:76737430-76737554 chr18:76738463-76738843 chr18:76737555-76737924 98;91 K jcn_only_AD CUFF.660 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 28;167 N jcn_only_AD CUFF.646 chr18 + chr18:55888990-55895061;chr18:55833094-55895061 chr18:55862966-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 215;24 N jcn_only_AA CUFF.646 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 297;82 K cassette CUFF.643 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 6;427 N alternative_acceptor CUFF.641 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 17;154 K cassette CUFF.649 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 306;52 K alternative_first_exon CUFF.656 chr18 - chr18:72914296-72920374;chr18:72914296-72920315 chr18:72914296-72917147 chr18:72920316-72920477 chr18:72917148-72917225 224;23 K intron_retention CUFF.636 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 41;41 N alternative_acceptor chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 52;37 N cassette CUFF.643 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 64;154 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 266;87 K jcn_only_AA CUFF.659 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 53;60 K alternative_last_exon CUFF.643 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398158-44398410 58;44 K cassette CUFF.659 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 5;26 N cassette CUFF.641 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 31;74 K alternative_last_exon CUFF.632 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807935-4807994 50;25 K cassette CUFF.649 chr18 - chr18:61071060-61077522 chr18:61071060-61074664;chr18:61074733-61077522 chr18:61074665-61074732 268;36 N alternative_first_exon CUFF.646 chr18 + chr18:55758860-55833019,chr18:55816802-55833019,chr18:55816792-55833019,chr18:55713251-55833019,chr18:55712848-55833019,chr18:55722109-55833019,chr18:55714743-55833019;chr18:55711941-55833019 chr18:55713021-55833019 chr18:55711599-55711940 chr18:55712859-55713020 432;62 K alternative_first_exon CUFF.648 chr18 - chr18:57147471-57363860 chr18:57147471-57333307 chr18:57363861-57363941 chr18:57333308-57333479 2;21 N alternative_acceptor CUFF.634 chr18 + chr18:11999187-12009881 chr18:11999187-12008331 chr18:12008332-12009881 chr18:12009881-12009882 562;20 N coord_cassette CUFF.641 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 31;90 N alternative_donor CUFF.646 chr18 + chr18:55888990-55895061;chr18:55862966-55895061 chr18:55833094-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 2;192 K alternative_first_exon CUFF.645 chr18 - chr18:47329224-47340051,chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47339094;chr18:47329224-47337765 chr18:47329224-47339838 chr18:47339095-47339480;chr18:47337766-47337891 chr18:47339839-47340330 329;47 K alternative_first_exon CUFF.645 chr18 - chr18:47329224-47340051,chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47339094;chr18:47329224-47339838 chr18:47329224-47337765 chr18:47339095-47339480;chr18:47339839-47340330 chr18:47337766-47337891 348;28 K alternative_first_exon CUFF.655 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67623991-67624473 chr18:67623850-67623928 146;49 N jcn_only_AA CUFF.637 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 chr18:14799100-14808549 chr18:14808549-14808550 10;99 N alternative_donor CUFF.637 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 351;0 N jcn_only_AD CUFF.646 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 523;90 N alternative_first_exon CUFF.630 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158342-158714 chr18:158811-159021 51;105 N alternative_donor CUFF.646 chr18 + chr18:55833094-55895061;chr18:55862966-55895061 chr18:55888990-55895061 chr18:55833094-55862965;chr18:55862966-55888989 chr18:55833093-55833094;chr18:55862965-55862966 193;1 K alternative_last_exon CUFF.649 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060642-61060782 chr18:61060783-61060799 233;46 K alternative_acceptor CUFF.654 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 52;12 N jcn_only_AA CUFF.655 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 134;11 N intron_retention chr18 - chr18:56066577-56067228 chr18:56066576-56066577;chr18:56067228-56067229 3;52 K intron_retention CUFF.643 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 303;153 K intron_retention CUFF.646 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 752;41 N cassette CUFF.630 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 172;161 N jcn_only_AA CUFF.637 chr18 + chr18:14791491-14796341 chr18:14791491-14796219 chr18:14796220-14796341 chr18:14796341-14796342 351;10 N jcn_only_AA chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77890986-77905317 chr18:77905317-77905318 23;167 N cassette CUFF.643 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 40;306 N jcn_only_AD CUFF.646 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 23;362 K cassette CUFF.655 chr18 - chr18:67563282-67613969 chr18:67563282-67611719;chr18:67611805-67613969 chr18:67611720-67611804 62;15 N jcn_only_AD CUFF.643 chr18 - chr18:44483597-44484064;chr18:44483597-44500021 chr18:44483597-44486189 chr18:44484065-44486189;chr18:44486190-44500021 chr18:44486189-44486190;chr18:44500021-44500022 223;22 K jcn_only_AD CUFF.650 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 27;365 N cassette CUFF.641 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 12;99 K alternative_first_exon CUFF.660 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867518-77867905 26;179 N cassette CUFF.1442 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 15;66 K alternative_first_exon CUFF.1473 chrX + chrX:153238312-153247300;chrX:153246075-153247300 chrX:153238338-153247300 chrX:153237778-153238311;chrX:153245990-153246074 chrX:153238314-153238337 chrX:153247301-153248646 148;67 N jcn_only_AD CUFF.1469 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 89;66 K cassette CUFF.1439 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 55;76 K alternative_first_exon CUFF.1465 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250722-134250852 24;41 K cassette CUFF.1459 chrX + chrX:114536689-114540769 chrX:114536689-114537864;chrX:114537984-114540769 chrX:114537865-114537983 102;50 K alternative_acceptor CUFF.1426 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 12;44 K jcn_only_AD CUFF.1438 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 68;19 K intron_retention CUFF.1430 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 447;9 K intron_retention CUFF.1424 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 67;24 N jcn_only_AD CUFF.1469 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 118;37 K alternative_first_exon CUFF.1453 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185206-106185451 chrX:106185168-106185197 71;9 K intron_retention CUFF.1434 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 105;19 K alternative_last_exon CUFF.1429 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15711086-15711181 chrX:15709261-15709359 201;69 K intron_retention CUFF.1439 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 71;27 K intron_retention CUFF.1427 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 231;151 N jcn_only_AD CUFF.1428 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 64;5 N jcn_only_AD CUFF.1426 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 63;54 K cassette CUFF.1442 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 61;40 N alternative_donor CUFF.1430 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 120;17 N alternative_donor CUFF.1456 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 109;41 K cassette CUFF.1428 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 135;70 N jcn_only_AD CUFF.1456 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 109;52 N intron_retention CUFF.1437 chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 26;63 K jcn_only_AA CUFF.1443 chrX - chrX:85219058-85302487 chrX:85282562-85302487 71;27 K jcn_only_AD CUFF.1464 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 15;99 K alternative_first_exon CUFF.1429 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693902-15706783 chrX:15693092-15706783 chrX:15693598-15693695;chrX:15699124-15699170;chrX:15693813-15693901 chrX:15693055-15693091 180;30 N alternative_first_exon chrX + chrX:15693092-15782700 chrX:15693696-15782700 chrX:15693055-15693091 chrX:15693598-15693695 2;3 K jcn_only_AA CUFF.1426 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 12;60 K intron_retention CUFF.1464 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 15;80 N alternative_acceptor CUFF.1424 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 32;0 K cassette CUFF.1438 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 44;35 N alternative_donor CUFF.1443 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 27;5 N alternative_donor CUFF.1469 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 34;52 K jcn_only_AD CUFF.1435 chrX + chrX:45129987-45184737 chrX:45184464-45184737 29;155 K intron_retention CUFF.1474 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 921;198 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 66;7 K intron_retention CUFF.1453 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 37;43 K alternative_last_exon CUFF.1429 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721850;chrX:15713794-15713856 chrX:15715363-15715888 219;83 N cassette CUFF.1456 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 52;128 N jcn_only_AA CUFF.1430 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 49;87 K alternative_first_exon CUFF.1429 chrX + chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15693696-15706783 chrX:15699124-15699170;chrX:15693055-15693091;chrX:15693813-15693901 chrX:15693598-15693695 182;28 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 22;182 N jcn_only_AA CUFF.1432 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 26;73 N jcn_only_AD CUFF.1456 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 134;16 K alternative_last_exon CUFF.1429,CUFF.1464 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654543 chrX:133634060-133634698 83;29 N jcn_only_AD CUFF.1474 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 77;163 K intron_retention CUFF.1453 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 10;37 K alternative_last_exon CUFF.1429 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721850;chrX:15715363-15715888 chrX:15713794-15713856 214;88 K intron_retention CUFF.1424 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 93;19 K alternative_first_exon CUFF.1471 chrX - chrX:152988744-152989470,chrX:152988744-152989788,chrX:152988744-152989941;chrX:152988744-152989409;chrX:152988744-152988962 chrX:152988744-152989655 chrX:152989410-152989617;chrX:152988963-152989050 chrX:152989656-152989838 788;119 N alternative_donor CUFF.1474 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 77;194 N alternative_donor CUFF.1471 chrX - chrX:152964019-152965947 chrX:152964019-152965942 chrX:152965943-152965947 chrX:152965947-152965948 4;2 N jcn_only_AA CUFF.1451 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 39;3 N alternative_donor CUFF.1428 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 58;131 N cassette CUFF.1427 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 86;52 N jcn_only_AD CUFF.1428,CUFF.1455 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 4;18 K alternative_first_exon CUFF.1473 chrX + chrX:153238338-153247300;chrX:153246075-153247300 chrX:153238312-153247300 chrX:153238314-153238337;chrX:153245990-153246074 chrX:153237778-153238311 chrX:153247301-153248646 137;78 N jcn_only_AD CUFF.1471 chrX - chrX:152964019-152965947 chrX:152964019-152965942 chrX:152965943-152965947 chrX:152965947-152965948 4;5 N jcn_only_AA CUFF.1451 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 17;25 K intron_retention CUFF.1474 chrX + chrX:153608728-153609112 chrX:153608727-153608728;chrX:153609112-153609113 1078;52 K alternative_donor CUFF.1464 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594369-133594565 chrX:133594368-133594369 15;97 N alternative_donor CUFF.1424,CUFF.1437 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 157;27 K alternative_first_exon CUFF.1427,CUFF.1439 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13801484-13801640 chrX:13799034-13799131 630;97 N alternative_acceptor CUFF.1451 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 25;1 N intron_retention chrX - chrX:119374209-119378618 chrX:119374208-119374209;chrX:119378618-119378619 19;161 K alternative_first_exon CUFF.1473 chrX + chrX:153238312-153247300;chrX:153238338-153247300 chrX:153246075-153247300 chrX:153237778-153238311;chrX:153238314-153238337 chrX:153245990-153246074 chrX:153247301-153248646 145;70 N jcn_only_AD CUFF.1432 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20236918-20252875 chrX:20252875-20252876 93;178 K alternative_first_exon CUFF.1430 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955623-19955650 chrX:19955536-19955618 76;14 N jcn_only_AD CUFF.1469 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 103;52 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 66;22 K alternative_first_exon CUFF.1435 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042496-45042589 chrX:45182792-45182892 28;79 N alternative_acceptor CUFF.1432 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 33;25 N coord_cassette CUFF.1456 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 26;149 N alternative_donor CUFF.1428 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 149;40 K alternative_acceptor CUFF.1435 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 45;26 K cassette CUFF.1430 chrX - chrX:19935453-19947902 chrX:19935453-19941275;chrX:19941526-19947902 chrX:19941276-19941525 53;107 K intron_retention CUFF.1428 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 135;28 N intron_retention chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 77;147 K intron_retention CUFF.1449 chrX + chrX:103357693-103357885 chrX:103357692-103357693;chrX:103357885-103357886 1963;5 N alternative_acceptor chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 63;1 N alternative_acceptor CUFF.1430 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 49;5 N intron_retention chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 22;62 K intron_retention chrX - chrX:152988744-152989409 chrX:152988743-152988744;chrX:152989409-152989410 908;142 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 23;135 K jcn_only_AD CUFF.1429 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 12;86 N jcn_only_AA CUFF.1451 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 28;14 N alternative_acceptor CUFF.1451 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 1;25 N alternative_donor CUFF.1456 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 174;23 N cassette CUFF.1440 chrX - chrX:53652220-53654360 chrX:53652220-53652746;chrX:53652990-53654360 chrX:53652747-53652989 13;21 N alternative_donor CUFF.1424 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 31;0 K alternative_acceptor CUFF.1468 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 138;180 K intron_retention CUFF.1443 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 9;9 N alternative_donor CUFF.1426 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 63;0 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 34;117 K alternative_first_exon CUFF.1471 chrX - chrX:152988744-152989470,chrX:152988744-152989788,chrX:152988744-152989941;chrX:152988744-152989409;chrX:152988744-152989655 chrX:152988744-152988962 chrX:152989410-152989617;chrX:152989656-152989838 chrX:152988963-152989050 875;32 N jcn_only_AD CUFF.1456 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 174;15 N jcn_only_AA chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 63;21 N intron_retention chrX - chrX:134257303-134257418 chrX:134257302-134257303;chrX:134257418-134257419 14;103 N alternative_acceptor CUFF.1451 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 26;0 K alternative_last_exon CUFF.1429 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715888 chrX:15720905-15721850 171;131 K cassette CUFF.1448 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 61;36 K intron_retention CUFF.1430 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 248;119 N alternative_donor CUFF.1428,CUFF.1455 chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 4;1 N jcn_only_AD CUFF.1428 chrX - chrX:15344169-15349337;chrX:15344169-15349711 chrX:15344169-15349995 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 29;40 K alternative_donor CUFF.1438 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 68;9 K cassette CUFF.1458 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 34;6 K jcn_only_AA CUFF.1468 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 138;362 N jcn_only_AD CUFF.1427 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 32;76 N alternative_acceptor chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 2;0 N jcn_only_AA CUFF.1443 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 10;9 N jcn_only_AA CUFF.1432 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 33;39 N alternative_donor CUFF.1427 chrX - chrX:13825889-13834962 chrX:13825889-13830989 chrX:13830990-13834962 chrX:13834962-13834963 32;3 K cassette CUFF.1428 chrX - chrX:15344169-15353622 chrX:15344169-15349995;chrX:15350115-15353622 chrX:15349996-15350114 20;76 K intron_retention CUFF.1474 chrX + chrX:153607927-153608049 chrX:153607926-153607927;chrX:153608049-153608050 163;21 K alternative_first_exon CUFF.1471 chrX - chrX:152988744-152989470,chrX:152988744-152989788,chrX:152988744-152989941;chrX:152988744-152988962;chrX:152988744-152989655 chrX:152988744-152989409 chrX:152988963-152989050;chrX:152989656-152989838 chrX:152989410-152989617 232;675 N intron_retention chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 7;56 K jcn_only_AD CUFF.1438 chrX + chrX:47035986-47040613 chrX:47039906-47040613 15;111 N jcn_only_AD CUFF.1424,CUFF.1437 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 157;26 K intron_retention CUFF.1430 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 140;16 K mutually_exclusive CUFF.1428 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 176;21 N intron_retention chrX - chrX:119377887-119378618 chrX:119377886-119377887;chrX:119378618-119378619 15;56 N alternative_donor CUFF.1427,CUFF.1453 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 873;6 N cassette CUFF.1456 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 26;120 N alternative_donor CUFF.1432 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20236918-20252875 chrX:20252875-20252876 93;4 K intron_retention CUFF.1428 chrX - chrX:15338902-15339542 chrX:15338901-15338902;chrX:15339542-15339543 5;92 N intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 34;202 K alternative_first_exon CUFF.1426 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645779 chrX:10588330-10588650 40;76 K intron_retention CUFF.1456 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 109;31 N alternative_acceptor CUFF.1432 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 26;46 K jcn_only_AA CUFF.1438 chrX + chrX:47035986-47040613 chrX:47035986-47038501 15;45 N alternative_acceptor CUFF.1443 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85118100-85236813 chrX:85118099-85118100 10;3 K alternative_first_exon CUFF.1432 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20284682-20284958 chrX:20259711-20259833 14;12 N intron_retention chrX + chrX:103358265-103359942 chrX:103358264-103358265;chrX:103359942-103359943 30;693 N alternative_donor CUFF.1469 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 84;2 K intron_retention CUFF.1430 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 119;67 K intron_retention CUFF.1439 chrX - chrX:53569501-53570801 chrX:53569500-53569501;chrX:53570801-53570802 42;24 N alternative_first_exon CUFF.1442 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003149-78003531 chrX:78006707-78006808 28;22 K alternative_donor CUFF.1429 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 12;53 N jcn_only_AD CUFF.1427,CUFF.1453 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 873;27 K intron_retention CUFF.1439 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 73;30 K alternative_first_exon CUFF.1429 chrX + chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699171-15706783,chrX:15699311-15706783 chrX:15693598-15693695;chrX:15693055-15693091;chrX:15693813-15693901 chrX:15699124-15699170 132;78 K mutually_exclusive CUFF.1424 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 73;25 N cassette CUFF.1437 chrX - chrX:46360771-46387769 chrX:46360771-46382371;chrX:46382561-46387769 chrX:46382372-46382560 6;77 K intron_retention CUFF.1466 chrX - chrX:134290954-134291240 chrX:134290953-134290954;chrX:134291240-134291241 61;52 K alternative_acceptor CUFF.1427 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 231;550 K alternative_last_exon CUFF.1460 chrX - chrX:119355498-119378618,chrX:119377887-119378618,chrX:119374209-119378618;chrX:119271100-119378618 chrX:119312412-119378618 chrX:119270952-119271099 chrX:119312331-119312411 84;66 K jcn_only_AA CUFF.1435 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 45;30 N intron_retention chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 10;19 N jcn_only_AD CUFF.1443 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302251-85302487 chrX:85302487-85302488 27;13 K alternative_first_exon CUFF.1429 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693092-15706783 chrX:15693902-15706783 chrX:15693598-15693695;chrX:15699124-15699170;chrX:15693055-15693091 chrX:15693813-15693901 136;74 K jcn_only_AD CUFF.1439 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 73;42 N alternative_acceptor chrX + chrX:15693696-15782700 chrX:15693696-15706783 chrX:15706784-15782700 chrX:15782700-15782701 5;0 N jcn_only_AA chrX + chrX:15693696-15782700 chrX:15693696-15706783 chrX:15706784-15782700 chrX:15782700-15782701 5;43 N intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 24;345 N jcn_only_AD CUFF.1430 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 120;28 K intron_retention CUFF.1474 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 1158;138 N jcn_only_AA CUFF.1424 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 32;15 N alternative_donor CUFF.1428 chrX - chrX:15344169-15349995;chrX:15344169-15349711 chrX:15344169-15349337 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 171;18 K intron_retention CUFF.1437 chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 157;67 K alternative_first_exon CUFF.1424 chrX - chrX:9130946-9132333;chrX:9130946-9132573 chrX:9130946-9131117 chrX:9132574-9132772 chrX:9131118-9131167 35;9 K cassette CUFF.1474 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 996;201 N jcn_only_AD CUFF.1424 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9001893-9050619 chrX:9050619-9050620 31;24 N alternative_donor CUFF.1469 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 54;32 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 48;1493 N jcn_only_AA chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 2;36 N jcn_only_AD CUFF.1428 chrX - chrX:15344169-15349337;chrX:15344169-15349995 chrX:15344169-15349711 chrX:15349338-15349711;chrX:15349712-15349995 chrX:15349711-15349712;chrX:15349995-15349996 45;24 K jcn_only_AA CUFF.1427 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 231;613 K alternative_donor CUFF.1439 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 73;35 N alternative_donor CUFF.1456 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 134;10 K cassette CUFF.1438 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 26;5 K cassette CUFF.1428 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 43;305 K alternative_last_exon CUFF.952 chr22 + chr22:37695348-37696110;chr22:37695348-37696947 chr22:37695348-37696193 chr22:37696948-37697060 chr22:37696194-37696302 166;62 K intron_retention CUFF.949 chr22 - chr22:30741180-30742300 chr22:30741179-30741180;chr22:30742300-30742301 43;45 K cassette CUFF.957 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 chr22:45182337-45182486;chr22:45204187-45204318 10;599 N cassette CUFF.952 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 98;67 N alternative_acceptor CUFF.935 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 60;4 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 249;97 N alternative_donor chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 168;8 N alternative_donor chr22 - chr22:21829590-21830290 chr22:21829590-21830280 chr22:21830281-21830290 chr22:21830290-21830291 39;89 K intron_retention chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 chr22:29684595-29684775 79;16 N alternative_donor CUFF.935 chr22 - chr22:21846384-21868418;chr22:21846384-21868422 chr22:21846384-21871613 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 3;137 N jcn_only_AD CUFF.934 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 130;44 N intron_retention chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 18;55 N jcn_only_AD CUFF.934 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 962;18 K jcn_only_AA CUFF.957 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 chr22:45122457-45122514 194;11 K alternative_last_exon CUFF.949 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 chr22:30738543-30738868 chr22:30742301-30742508 365;76 K intron_retention CUFF.929 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 112;98 K intron_retention CUFF.946 chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 chr22:29684595-29684744 22;66 K jcn_only_AD CUFF.938 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 91;97 K cassette CUFF.929 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 24;233 K alternative_last_exon CUFF.940,CUFF.952 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25915890-25916129 chr22:25856834-25857645 chr22:25855383-25855482 50;171 N jcn_only_AA CUFF.929 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 362;21 K intron_retention CUFF.940 chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 chr22:25855383-25855482 18;19 N jcn_only_AA CUFF.934,CUFF.946 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 130;24 N alternative_donor CUFF.939 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 96;0 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 44;18 K alternative_acceptor CUFF.946 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 chr22:29668205-29668241;chr22:29668375-29668420 72;362 K intron_retention CUFF.940 chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 chr22:25855383-25855482;chr22:25856834-25857645 52;25 K jcn_only_AD CUFF.946 chr22 + chr22:29683124-29688125 chr22:29687589-29688125 6;176 N alternative_donor chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 249;72 K jcn_only_AA CUFF.952 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 106;74 K cassette CUFF.962 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 632;82 N mutually_exclusive CUFF.962 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 292;20 K alternative_first_exon CUFF.938 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700339-24700420 168;37 N alternative_acceptor CUFF.939 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 96;0 N alternative_acceptor chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 chr22:45182337-45182486 163;7 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 194;21 K intron_retention CUFF.964 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 413;64 K intron_retention CUFF.949 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 84;90 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51017464 276;19 N coord_cassette CUFF.933 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20755566;chr22:20755663-20759666 chr22:20754922-20755048;chr22:20755567-20755662 chr22:20748405-20748952;chr22:20759667-20761968 51;46 N jcn_only_AD CUFF.935 chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 18;146 K intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 142;39 N jcn_only_AD CUFF.952 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 104;49 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 28;90 K intron_retention CUFF.964 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 622;149 K cassette CUFF.938 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 99;15 K alternative_first_exon CUFF.939 chr22 - chr22:25155957-25158273;chr22:25155957-25158364 chr22:25155957-25157845 chr22:25158365-25158488 chr22:25157846-25157927 68;8 K intron_retention CUFF.935 chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 18;48 N jcn_only_AD chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 109;201 N intron_retention chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 chr22:29684595-29684775 77;15 N cassette CUFF.962 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 20;274 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 168;17 K intron_retention chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 chr22:29684595-29684775;chr22:29686402-29687020 207;30 K intron_retention CUFF.934 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 962;54 N cassette CUFF.946 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 chr22:29674019-29674205;chr22:29682912-29683123 59;457 K cassette CUFF.957 chr22 + chr22:45204319-45210551 chr22:45204319-45204551;chr22:45204613-45210551 chr22:45204552-45204612 chr22:45204187-45204318;chr22:45210552-45210638 390;23 N alternative_acceptor CUFF.946 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 145;10 N alternative_donor chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51020987-51039578 chr22:51039578-51039579 109;13 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51017464;chr22:51016364-51016814 chr22:51016364-51016977 156;139 N jcn_only_AA chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 chr22:45182337-45182486 163;20 K cassette CUFF.929 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 41;150 N jcn_only_AA CUFF.949 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 35;413 N intron_retention chr22 - chr22:51017888-51018219 chr22:51017887-51017888;chr22:51018219-51018220 30;29 N jcn_only_AD CUFF.935,CUFF.964 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 622;85 N jcn_only_AD chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 47;401 N jcn_only_AD chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 44;194 N cassette CUFF.964 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 38;226 K jcn_only_AA CUFF.939 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 41;156 N jcn_only_AA CUFF.946 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 507;131 N alternative_donor chr22 - chr22:21846384-21868418;chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 137;3 N alternative_acceptor CUFF.946 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 42;113 N jcn_only_AD chr22 - chr22:51016364-51016977;chr22:51016364-51017464;chr22:51016364-51016814 chr22:51016364-51016512 273;21 N jcn_only_AD chr22 + chr22:20379592-20379802 chr22:20379724-20379802 2;2 K jcn_only_AA CUFF.946 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 chr22:29668205-29668241;chr22:29668375-29668420 72;735 K jcn_only_AD CUFF.962 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 51;78 K intron_retention CUFF.946 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 268;38 N jcn_only_AA CUFF.935 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 79;18 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 chr22:20754922-20755048 10;16 K cassette CUFF.946 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 chr22:29669730-29669853;chr22:29674019-29674205 469;176 K alternative_first_exon CUFF.946 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29663998-29664338 chr22:29665553-29665651 chr22:29668205-29668241 441;17 K alternative_donor CUFF.945 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 20;19 N cassette CUFF.934 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 96;324 K alternative_first_exon CUFF.931 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19419425-19420130 chr22:19420301-19420382 428;26 K cassette CUFF.957 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 chr22:45204187-45204318;chr22:45210552-45210638 390;148 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 95;135 N alternative_donor CUFF.934 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 962;56 K cassette CUFF.962 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 338;150 N intron_retention chr22 - chr22:21831031-21832078 chr22:21831030-21831031;chr22:21832078-21832079 11;30 K intron_retention CUFF.935 chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 85;18 N alternative_acceptor CUFF.929 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 362;1 K intron_retention chr22 + chr22:21057981-21058106 chr22:21057980-21057981;chr22:21058106-21058107 221;136 N coord_cassette CUFF.964 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 156;591 K mutually_exclusive CUFF.957 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 chr22:45182337-45182486;chr22:45210552-45210638 8;7 N jcn_only_AA CUFF.946 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 525;113 N cassette CUFF.934 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 82;306 N alternative_donor chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158746-47159228 chr22:47158745-47158746 20;37 N alternative_acceptor CUFF.946 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 123;32 N alternative_acceptor CUFF.935 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 29;59 N intron_retention CUFF.964 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 85;148 K intron_retention CUFF.949 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 56;15 K alternative_last_exon CUFF.946,CUFF.957 chr22 + chr22:45244941-45258154 chr22:45244941-45255610 chr22:45258155-45258665 chr22:45255611-45255714 chr22:45244812-45244940 48;289 N jcn_only_AA CUFF.935 chr22 - chr22:21841217-21841853 chr22:21841265-21841853 chr22:21841217-21841264 chr22:21841216-21841217 60;10 N alternative_acceptor CUFF.939 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 83;1 K intron_retention CUFF.964 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 460;96 N intron_retention chr22 - chr22:51016364-51017464 chr22:51016363-51016364;chr22:51017464-51017465 19;305 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 41;111 N intron_retention chr22 - chr22:51016364-51016512 chr22:51016363-51016364;chr22:51016512-51016513 21;35 K intron_retention CUFF.964 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 869;110 N intron_retention chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 chr22:20748405-20748624;chr22:20748853-20748952 5;61 K coord_cassette CUFF.957 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45204551;chr22:45204613-45210551 chr22:45204187-45204318;chr22:45204552-45204612 chr22:45197957-45198044;chr22:45210552-45210638 9;24 K intron_retention CUFF.940 chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 23;39 N jcn_only_AA CUFF.964 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 41;869 N jcn_only_AD CUFF.939 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25165638-25170288 chr22:25170288-25170289 96;13 N coord_cassette CUFF.962 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 82;85 K alternative_first_exon CUFF.957 chr22 + chr22:45173110-45182336,chr22:45181982-45182336;chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45148508-45182336 chr22:45130907-45131042;chr22:45161745-45162069;chr22:45122457-45122514 chr22:45148411-45148507 chr22:45182337-45182486 668;219 K alternative_acceptor CUFF.945 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 185;65 N jcn_only_AA CUFF.935 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 86;11 N jcn_only_AD CUFF.934 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 46;51 N alternative_donor CUFF.935,CUFF.964 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 622;129 K intron_retention CUFF.964 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 669;440 K alternative_first_exon CUFF.957 chr22 + chr22:45173110-45182336,chr22:45181982-45182336;chr22:45148508-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45131043-45182336 chr22:45148411-45148507;chr22:45161745-45162069;chr22:45122457-45122514 chr22:45130907-45131042 chr22:45182337-45182486 877;10 K alternative_acceptor CUFF.946 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 chr22:29669730-29669853 46;92 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 18;185 N intron_retention chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 48;314 K cassette CUFF.946 chr22 + chr22:29669854-29674018 chr22:29669854-29670256;chr22:29670272-29674018 chr22:29670257-29670271 chr22:29669730-29669853;chr22:29674019-29674205 469;110 K cassette CUFF.962 chr22 + chr22:47158746-47188416 chr22:47158746-47184876;chr22:47184935-47188416 chr22:47184877-47184934 276;58 N jcn_only_AD CUFF.933 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 15;44 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 102;239 N intron_retention chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 chr22:20748405-20748624;chr22:20749623-20749708 15;26 N intron_retention chr22 + chr22:21057981-21058255 chr22:21057980-21057981;chr22:21058255-21058256 82;153 N cassette CUFF.933 chr22 + chr22:20755049-20759666 chr22:20755049-20755566;chr22:20755663-20759666 chr22:20755567-20755662 chr22:20754922-20755048;chr22:20759667-20761968 14;71 K intron_retention CUFF.957 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 chr22:45204187-45204318 26;30 K alternative_acceptor CUFF.946 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 239;95 N alternative_donor CUFF.962 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 14;1 N alternative_acceptor CUFF.934,CUFF.946 chr22 + chr22:21056998-21057293 chr22:21056998-21057117 chr22:21057118-21057293 chr22:21057293-21057294 130;99 K alternative_acceptor CUFF.952 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 106;46 N jcn_only_AD CUFF.962 chr22 + chr22:47309343-47393529 chr22:47370296-47393529 chr22:47309343-47370295 chr22:47309342-47309343 14;461 K cassette CUFF.964 chr22 - chr22:51012145-51012763 chr22:51012145-51012236;chr22:51012351-51012763 chr22:51012237-51012350 307;61 N jcn_only_AA CUFF.935 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 28;69 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21871613 chr22:21846384-21868422 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 141;50 N intron_retention chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 156;143 K intron_retention chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 201;513 N alternative_donor chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 47;232 K intron_retention CUFF.934 chr22 + chr22:21058040-21058255 chr22:21058039-21058040;chr22:21058255-21058256 236;222 K intron_retention chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 chr22:20754922-20755048;chr22:20755567-20755662 69;22 K intron_retention CUFF.946 chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 218;38 K intron_retention CUFF.964 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 228;103 N alternative_donor CUFF.934 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21056595-21056748 chr22:21056594-21056595 46;44 K intron_retention CUFF.957 chr22 + chr22:45148508-45182336 chr22:45148507-45148508;chr22:45182336-45182337 chr22:45182337-45182486 331;6 K intron_retention CUFF.933 chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 chr22:20748405-20748952;chr22:20749623-20749708 44;5 N jcn_only_AD CUFF.935 chr22 - chr22:21846384-21868418;chr22:21846384-21868422 chr22:21846384-21871613 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 54;137 K alternative_acceptor CUFF.939 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 41;90 N intron_retention CUFF.933 chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 chr22:20748405-20748952;chr22:20754922-20755048 12;15 K intron_retention CUFF.935 chr22 - chr22:21831054-21832078 chr22:21831053-21831054;chr22:21832078-21832079 69;32 N alternative_acceptor CUFF.964 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 41;432 N jcn_only_AA CUFF.939 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 96;5 K intron_retention CUFF.934 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 497;201 N jcn_only_AA chr22 - chr22:51016364-51017464 chr22:51017089-51017464 19;48 K cassette CUFF.952 chr22 + chr22:37699444-37705252 chr22:37699444-37700212;chr22:37700328-37705252 chr22:37700213-37700327 57;38 N jcn_only_AA CUFF.962 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 447;95 K jcn_only_AA CUFF.946 chr22 + chr22:29683124-29688125 chr22:29683124-29684594 chr22:29682912-29683123 6;430 K alternative_first_exon CUFF.957 chr22 + chr22:45173110-45182336,chr22:45181982-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45122515-45182336 chr22:45162070-45182336 chr22:45130907-45131042;chr22:45148411-45148507;chr22:45122457-45122514 chr22:45161745-45162069 chr22:45182337-45182486 554;333 N jcn_only_AD CUFF.935,CUFF.949 chr22 - chr22:21846384-21871613;chr22:21846384-21868422 chr22:21846384-21868418 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 187;4 K intron_retention CUFF.946 chr22 + chr22:29687589-29688125 chr22:29687588-29687589;chr22:29688125-29688126 176;5 N alternative_donor chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 44;34 N alternative_donor CUFF.935 chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 18;52 N jcn_only_AD chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 249;41 N jcn_only_AA CUFF.946 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 chr22:29668375-29668420;chr22:29674120-29674205 244;394 N alternative_donor CUFF.934 chr22 + chr22:21056998-21057293 chr22:21057182-21057293 chr22:21056998-21057181 chr22:21056997-21056998 130;16 N alternative_donor CUFF.933 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 15;84 N alternative_donor CUFF.952 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705365-37706073 chr22:37705364-37705365 104;11 K jcn_only_AD CUFF.949 chr22 - chr22:30738869-30748939 chr22:30738869-30740921 572;274 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 39;39 N alternative_donor CUFF.951 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 29;0 K cassette CUFF.962 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188565-47188701 632;98 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 chr22:21830281-21830290 chr22:21830290-21830291 39;142 N alternative_acceptor CUFF.962 chr22 + chr22:47308085-47370185 chr22:47308085-47309229 chr22:47309230-47370185 chr22:47370185-47370186 447;0 K intron_retention CUFF.957 chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 chr22:45244812-45244940;chr22:45255611-45255714 425;58 N alternative_acceptor CUFF.957 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 chr22:45182337-45182486 331;3 K alternative_donor CUFF.938 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 91;136 K alternative_donor CUFF.962 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 51;50 K alternative_first_exon CUFF.957 chr22 + chr22:45173110-45182336,chr22:45181982-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45162070-45182336 chr22:45122515-45182336 chr22:45130907-45131042;chr22:45148411-45148507;chr22:45161745-45162069 chr22:45122457-45122514 chr22:45182337-45182486 739;148 K intron_retention CUFF.946 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 239;60 K jcn_only_AA CUFF.945 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 185;70 K alternative_donor CUFF.946 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 218;134 K cassette CUFF.957 chr22 + chr22:45198045-45210551 chr22:45198045-45204186;chr22:45204319-45210551 chr22:45204187-45204318 chr22:45197957-45198044;chr22:45210552-45210638 9;538 N alternative_acceptor CUFF.964 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 80;219 K alternative_last_exon CUFF.935 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828886-21828969 chr22:21828992-21829089 93;12 K intron_retention CUFF.952 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 105;40 N cassette CUFF.962 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 82;394 K jcn_only_AA CUFF.946 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 239;159 N alternative_acceptor CUFF.935 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 77;11 N cassette CUFF.933 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 chr22:20748405-20748952;chr22:20754922-20755048 12;43 N jcn_only_AA CUFF.935 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 51;168 K intron_retention CUFF.946 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 159;68 K alternative_last_exon CUFF.946,CUFF.952 chr22 + chr22:29684776-29687553;chr22:29684776-29687550 chr22:29684776-29686401 chr22:29687551-29687588 chr22:29686402-29687020 chr22:29684595-29684775 143;202 N alternative_acceptor CUFF.935 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 70;18 N jcn_only_AD chr22 + chr22:21823352-21823562 chr22:21823484-21823562 2;4 N alternative_acceptor CUFF.949 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 chr22:30735169-30749061 chr22:30735168-30735169 35;32 N alternative_acceptor CUFF.935 chr22 - chr22:21832391-21832873 chr22:21832451-21832873 chr22:21832391-21832450 chr22:21832390-21832391 51;91 N alternative_donor CUFF.935,CUFF.949 chr22 - chr22:21846384-21871613;chr22:21846384-21868422 chr22:21846384-21868418 chr22:21868419-21868422;chr22:21868423-21871613 chr22:21868422-21868423;chr22:21871613-21871614 140;0 N cassette CUFF.933 chr22 + chr22:20748953-20759666 chr22:20748953-20754921;chr22:20755049-20759666 chr22:20754922-20755048 chr22:20748405-20748952;chr22:20759667-20761968 51;22 N intron_retention CUFF.935 chr22 - chr22:21830450-21830932 chr22:21830449-21830450;chr22:21830932-21830933 146;37 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 36;6 N jcn_only_AD CUFF.951 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 29;38 K intron_retention CUFF.931 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 298;22 K jcn_only_AD CUFF.946 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 218;268 N cassette CUFF.952 chr22 + chr22:37697061-37699294 chr22:37697061-37697921;chr22:37698073-37699294 chr22:37697922-37698072 98;61 N jcn_only_AD chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158746-47159228 chr22:47158745-47158746 20;131 K jcn_only_AD CUFF.945 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 20;38 K alternative_last_exon CUFF.945 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29563032-29564336 chr22:29550326-29550759 96;44 N coord_cassette CUFF.962 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188417-47188473;chr22:47188565-47188701 82;96 N jcn_only_AA CUFF.964 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 80;444 N intron_retention chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 44;123 K jcn_only_AA CUFF.946 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 chr22:29669730-29669853 46;186 N jcn_only_AA CUFF.939 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 83;16 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016977;chr22:51016364-51017464 chr22:51016364-51016814 179;116 N jcn_only_AA CUFF.957 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 chr22:45182337-45182486 331;168 K alternative_first_exon CUFF.957 chr22 + chr22:45244941-45258154 chr22:45255715-45258154 chr22:45244812-45244940 chr22:45255563-45255714 chr22:45258155-45258665 27;316 K alternative_donor CUFF.896 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 54;40 N intron_retention chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 17;13 N cassette CUFF.901 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 34;24 K coord_cassette CUFF.906 chr20 - chr20:31115717-31123243 chr20:31115717-31120119;chr20:31120220-31121178;chr20:31121289-31123243 chr20:31120120-31120219;chr20:31121179-31121288 111;11 K intron_retention CUFF.911 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 799;124 K jcn_only_AA CUFF.899 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 19;59 N cassette CUFF.903 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 82;336 K jcn_only_AA CUFF.912 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 78;28 N cassette CUFF.901 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 23;53 N alternative_acceptor CUFF.913 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 80;348 K cassette CUFF.915 chr20 - chr20:61982380-61987326 chr20:61982380-61986847;chr20:61986948-61987326 chr20:61986848-61986947 2;90 K cassette CUFF.908 chr20 + chr20:33114149-33122431 chr20:33114149-33117655;chr20:33118039-33122431 chr20:33117656-33118038 chr20:33114073-33114148;chr20:33122432-33122599 306;81 N alternative_donor chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 80;18 K jcn_only_AD CUFF.902 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 51;175 N jcn_only_AA CUFF.906 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 118;222 K alternative_last_exon CUFF.906 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052579-31052920 203;265 N intron_retention chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 103;651 K alternative_donor CUFF.911 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 1397;66 K jcn_only_AD CUFF.896,CUFF.915 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 31;2 K intron_retention CUFF.895 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 96;31 N jcn_only_AA CUFF.896 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3171466-3171884 chr20:3171465-3171466 54;17 N alternative_donor CUFF.912 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 28;17 K jcn_only_AD CUFF.895 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 25;120 K jcn_only_AD CUFF.911 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 1397;124 N intron_retention chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 80;312 K alternative_acceptor CUFF.903,CUFF.911 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 799;153 N coord_cassette CUFF.903 chr20 + chr20:30115386-30132749 chr20:30115386-30115724;chr20:30115854-30125981;chr20:30126065-30132749 chr20:30115725-30115853;chr20:30125982-30126064 61;284 N jcn_only_AD CUFF.912 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 28;26 K alternative_first_exon CUFF.911 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567464-33567607 chr20:33568282-33568282 101;15 K alternative_last_exon CUFF.897 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303634-14308204 chr20:14309558-14309973 80;105 K intron_retention CUFF.911 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 365;686 N jcn_only_AA CUFF.906 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 314;26 N jcn_only_AD chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135410-30135495 chr20:30135409-30135410 80;31 K alternative_acceptor CUFF.912 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 78;13 N alternative_acceptor chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 37;142 N alternative_donor CUFF.897 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 12;2 K jcn_only_AA CUFF.895 chr20 + chr20:2842351-2843710 chr20:2842351-2842450 25;161 K alternative_last_exon CUFF.913 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570178 17;89 K cassette CUFF.903 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 494;734 N alternative_acceptor CUFF.896 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3171466-3171884 chr20:3171465-3171466 54;4 K intron_retention CUFF.903 chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 895;24 N jcn_only_AA chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 105;40 K cassette CUFF.900 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 8;26 N jcn_only_AD CUFF.903 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 343;103 K alternative_first_exon CUFF.906 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071274 151;87 N cassette CUFF.903 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 88;775 N coord_cassette CUFF.901 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 23;27 N alternative_donor CUFF.894,CUFF.902 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 283;225 K cassette CUFF.903 chr20 + chr20:30115386-30125981 chr20:30115386-30115724;chr20:30115854-30125981 chr20:30115725-30115853 248;381 K intron_retention CUFF.911 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 212;116 K alternative_donor CUFF.908 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 chr20:33114073-33114148;chr20:33104128-33104266 306;131 K jcn_only_AD CUFF.908 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 chr20:33114073-33114148;chr20:33104128-33104266 306;109 K jcn_only_AD CUFF.896 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 54;43 N jcn_only_AA CUFF.906 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 247;92 N jcn_only_AD CUFF.894,CUFF.902 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 283;37 K intron_retention CUFF.911 chr20 + chr20:33588962-33589047 chr20:33588961-33588962;chr20:33589047-33589048 46;324 N alternative_acceptor chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 105;4 K alternative_donor CUFF.902 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 51;88 N jcn_only_AA CUFF.913 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 80;160 K jcn_only_AA CUFF.903,CUFF.911 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 799;212 N coord_cassette CUFF.903 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 82;528 N cassette CUFF.903 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 61;198 K cassette CUFF.903 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 788;95 N alternative_donor CUFF.903 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 chr20:30132839-30136596 chr20:30132838-30132839 343;47 K alternative_first_exon CUFF.900 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21283885-21284111 chr20:21284388-21284485 13;19 N coord_cassette CUFF.895 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 25;17 N cassette CUFF.903 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 483;709 N jcn_only_AD CUFF.897 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 12;9 K alternative_first_exon CUFF.902 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011730 72;147 K intron_retention CUFF.895 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 105;133 K alternative_donor CUFF.896,CUFF.915 chr20 - chr20:61991052-61992528 chr20:61991052-61992441 chr20:61992442-61992528 chr20:61992528-61992529 31;1 N jcn_only_AA chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 37;286 K alternative_first_exon CUFF.918 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642846-15642930 chr21:15646088-15646478 10;393 N jcn_only_AD CUFF.928 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 238;116 N cassette CUFF.918 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 14;112 N cassette CUFF.928 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 111;285 K jcn_only_AD CUFF.920,CUFF.925 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 268;299 N alternative_acceptor CUFF.919 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 270;3 N jcn_only_AA CUFF.918 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 76;12 K alternative_first_exon CUFF.928 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47570033-47570164 chr21:47566705-47566851 245;18 N jcn_only_AA CUFF.928 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 230;23 K jcn_only_AA CUFF.928 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556899-47556967 458;237 K alternative_acceptor CUFF.925 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 chr21:40981510-40981592;chr21:40977518-40977929 96;80 N jcn_only_AA CUFF.928 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 277;30 K intron_retention CUFF.918 chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 37;77 N alternative_first_exon CUFF.918 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646088-15646478 chr21:15651917-15651978 23;358 N alternative_first_exon CUFF.928 chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 chr21:40969074-40969916 14;49 K cassette CUFF.928 chr21 - chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558967-47565330 chr21:47558794-47558966 85;141 K intron_retention CUFF.918 chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 171;15 N alternative_first_exon chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47565331-47565492 chr21:47562023-47562121 253;12 N jcn_only_AD CUFF.918 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 16;70 N jcn_only_AD CUFF.920,CUFF.928 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 149;205 N alternative_last_exon chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 21;343 N alternative_acceptor CUFF.928 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 277;26 N alternative_donor CUFF.920,CUFF.928 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 160;290 N alternative_donor CUFF.918 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 61;30 K intron_retention CUFF.918 chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 321;15 N alternative_acceptor CUFF.918 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 76;1 N jcn_only_AD CUFF.926 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 205;11 N alternative_donor CUFF.926 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 205;0 K jcn_only_AA CUFF.925 chr21 - chr21:40977930-40981509 chr21:40978275-40981509 chr21:40977930-40978274 chr21:40977929-40977930 chr21:40981510-40981592;chr21:40977518-40977929 96;58 K alternative_last_exon CUFF.918 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15678017-15678163 chr21:15671759-15673717 56;188 K cassette CUFF.924 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 14;44 N alternative_donor CUFF.928 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 406;44 K alternative_acceptor CUFF.928 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 chr21:47557153-47557248;chr21:47556899-47556967 458;122 N jcn_only_AD CUFF.918 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 76;12 N alternative_last_exon CUFF.925 chr21 - chr21:40969917-40981509 chr21:40977930-40981509,chr21:40978275-40981509 chr21:40969074-40969916 chr21:40977518-40977929 chr21:40981510-40981592 32;215 K cassette CUFF.920 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 201;352 N jcn_only_AA CUFF.919 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981890-15984966 chr21:15981889-15981890 270;19 N jcn_only_AD CUFF.918 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 61;7 N alternative_donor CUFF.918 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 16;36 N alternative_acceptor CUFF.928 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 230;12 K alternative_last_exon CUFF.921 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39325124-39325308 chr21:39426849-39427075 124;87 K alternative_last_exon CUFF.918 chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663891-15664068 chr21:15663607-15663726 162;236 N alternative_donor CUFF.918 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 76;3 N jcn_only_AD CUFF.928 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 321;34 N cassette CUFF.920 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 64;39 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 15;74 N intron_retention chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 19;69 N alternative_donor CUFF.928 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 chr21:47556176-47556408;chr21:47556899-47556967 334;116 N jcn_only_AA CUFF.1270 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 88;491 N cassette CUFF.1269 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 3;274 N coord_cassette CUFF.1260 chr7 + chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925 chr7:73101329-73101425;chr7:73105246-73105342 195;429 N jcn_only_AD CUFF.1269 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 28;18 N alternative_acceptor chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 29;21 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 136;152 K jcn_only_AA CUFF.1269 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;100 N cassette CUFF.1305 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 8;254 K intron_retention CUFF.1266 chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 28;324 N jcn_only_AD CUFF.1280 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 179;19 N cassette CUFF.1247 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 81;95 N alternative_donor CUFF.1283 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 57;106 K cassette CUFF.1249 chr7 - chr7:37272800-37298785 chr7:37272800-37283960;chr7:37283997-37298785 chr7:37283961-37283996 34;60 K intron_retention CUFF.1254 chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 45;24 K alternative_acceptor CUFF.1243 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 173;94 N alternative_donor CUFF.1269,CUFF.1287 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 351;6 N cassette CUFF.1243 chr7 - chr7:22357657-22396448 chr7:22357657-22395596;chr7:22396231-22396448 chr7:22395597-22396230 51;110 K alternative_first_exon CUFF.1253 chr7 - chr7:38937730-38969071;chr7:38937730-38971877 chr7:38937730-38948753 chr7:38971878-38972078 chr7:38948754-38948866 chr7:38937691-38937729 60;100 K intron_retention CUFF.1292 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 200;74 N alternative_donor CUFF.1301 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 19;4 N jcn_only_AD CUFF.1283 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 57;106 N alternative_acceptor CUFF.1310 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 65;43 N jcn_only_AA chr7 - chr7:156589187-156619298 chr7:156616618-156619298 536;11 N jcn_only_AD CUFF.1269,CUFF.1287 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 351;35 N alternative_donor CUFF.1291 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 2;7 K intron_retention CUFF.1283 chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 26;36 K intron_retention CUFF.1281 chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 19;70 N jcn_only_AD chr7 + chr7:72476698-72479964 chr7:72477330-72479964 26;7 N jcn_only_AD chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 286;35 N jcn_only_AD CUFF.1283 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 139;25 K intron_retention CUFF.1310 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 16;44 N cassette CUFF.1283 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 89;663 N jcn_only_AA CUFF.1237,CUFF.1297 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 60;13 N alternative_donor CUFF.1279 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 47;15 K jcn_only_AA CUFF.1234,CUFF.1238 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 87;174 K alternative_first_exon CUFF.1238 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222183-7222451 51;97 N alternative_donor chr7 - chr7:156619439-156626432;chr7:156619439-156685621 chr7:156619439-156626446 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 310;2 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 26;24 K cassette CUFF.1294 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 18;126 K intron_retention CUFF.1283 chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 732;109 K alternative_acceptor CUFF.1269 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 19;189 N intron_retention chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 69;47 N alternative_donor CUFF.1288 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 74;0 K jcn_only_AD CUFF.1260 chr7 + chr7:73098135-73100965 chr7:73098254-73100965 chr7:73098135-73098253 chr7:73098134-73098135 440;1537 N jcn_only_AA CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156627290-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 4040;5 N cassette CUFF.1267 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 86;174 K cassette CUFF.1283 chr7 + chr7:107236448-107240841 chr7:107236448-107240676;chr7:107240748-107240841 chr7:107240677-107240747 617;167 N jcn_only_AA CUFF.1266 chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 3;3 N alternative_donor CUFF.1249 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 305;3 N jcn_only_AA CUFF.1245 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 31;18 K jcn_only_AA CUFF.1269 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 37;309 N cassette CUFF.1237 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 57;483 K jcn_only_AA CUFF.1283 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 162;106 K jcn_only_AA CUFF.1297 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 307;46 K alternative_first_exon CUFF.1272 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158087-92158238 chr7:92158253-92158497 53;43 N alternative_acceptor CUFF.1242 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 357;13 N jcn_only_AA chr7 + chr7:6630107-6631333 chr7:6630107-6631276 chr7:6631277-6631333 chr7:6631333-6631334 29;29 K alternative_last_exon CUFF.1237,CUFF.1255 chr7 + chr7:54617864-54621559,chr7:54617864-54636823;chr7:54617864-54636701 chr7:54617864-54618445 chr7:54636702-54638772 chr7:54618446-54620224 411;125 K cassette CUFF.1260 chr7 + chr7:73108381-73111934 chr7:73108381-73111795;chr7:73111847-73111934 chr7:73111796-73111846 322;17 N jcn_only_AD chr7 - chr7:117424509-117431344;chr7:117424509-117426439 chr7:117424509-117431181 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 9;5 K jcn_only_AD CUFF.1303 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 179;30 N alternative_acceptor CUFF.1266 chr7 + chr7:128865281-129019481 chr7:128865281-129019478 chr7:129019479-129019481 chr7:129019481-129019482 3;1 K jcn_only_AA CUFF.1280 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 chr7:102553533-102553662 97;219 N alternative_acceptor CUFF.1270 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 88;68 K alternative_last_exon CUFF.1234 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197578 22;751 N cassette CUFF.1258 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 91;64 K jcn_only_AA CUFF.1270 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 111;74 N jcn_only_AD chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 54;268 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 122;245 N intron_retention chr7 - chr7:75045735-75046702 chr7:75045734-75045735;chr7:75046702-75046703 9;93 N coord_cassette CUFF.1258 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 241;66 N jcn_only_AA CUFF.1287 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 351;62 N alternative_acceptor CUFF.1245 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 31;9 K jcn_only_AD CUFF.1301 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 143;163 N alternative_donor CUFF.1288 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 74;0 N jcn_only_AD chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 47;46 K alternative_acceptor CUFF.1270 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 111;72 N intron_retention chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 86;323 N alternative_first_exon CUFF.1258 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579591-65579957 chr7:65599267-65599361 115;300 K alternative_donor CUFF.1301 chr7 + chr7:136553865-136554007 chr7:136553921-136554007 chr7:136553865-136553920 chr7:136553864-136553865 143;99 K intron_retention CUFF.1292 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 309;30 N cassette CUFF.1266 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 42;239 K alternative_acceptor CUFF.1305 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 51;607 N jcn_only_AD CUFF.1279 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 63;30 N jcn_only_AA CUFF.1288 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 74;31 N alternative_donor CUFF.1249 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 2;2 N jcn_only_AD CUFF.1234 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 7;26 K alternative_first_exon CUFF.1301 chr7 + chr7:136553740-136554007 chr7:136553865-136554007,chr7:136553921-136554007 chr7:136553416-136553739 chr7:136553744-136553864 28;200 N jcn_only_AD CUFF.1267 chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 2;123 N cassette CUFF.1258 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 241;131 N mutually_exclusive CUFF.1260 chr7 + chr7:73101231-73105245,chr7:73105343-73106925 chr7:73101231-73101328,chr7:73101426-73106925 chr7:73105246-73105342 chr7:73101329-73101425 193;214 N intron_retention chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 54;45 N cassette CUFF.1288 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 66;1184 K alternative_last_exon CUFF.1283 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107255690 chr7:107253878-107262074,chr7:107253878-107258772 chr7:107269267-107269616;chr7:107255691-107256322 chr7:107262075-107262744 392;155 N alternative_donor CUFF.1266 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 13;6 N alternative_first_exon CUFF.1297 chr7 + chr7:128991503-129019478;chr7:129015768-129019478;chr7:129008393-129019478 chr7:128865281-129019478 chr7:129015675-129015767;chr7:129007900-129008392 chr7:128864864-128865280 139;3 N jcn_only_AA chr7 - chr7:156556490-156589082 chr7:156572427-156589082 532;20 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 192;74 K coord_cassette CUFF.1254 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845 chr7:44250441-44250530;chr7:44250622-44250723 82;27 K jcn_only_AD CUFF.1300 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 22;98 K intron_retention CUFF.1266 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 230;36 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 13;9 N cassette CUFF.1237 chr7 + chr7:6641772-6647590 chr7:6641772-6647167;chr7:6647229-6647590 chr7:6647168-6647228 89;286 K cassette CUFF.1269 chr7 - chr7:86539318-86541387 chr7:86539318-86540937;chr7:86541012-86541387 chr7:86540938-86541011 76;116 K alternative_first_exon CUFF.1255 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54612315-54612481 chr7:54613814-54613909 389;48 N alternative_donor chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 197;72 K intron_retention CUFF.1310 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 27;39 K cassette CUFF.1280 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 chr7:102667896-102668005;chr7:102669798-102669865 15;299 N jcn_only_AD CUFF.1279 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 76;17 K alternative_first_exon CUFF.1252 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 51;33 K alternative_acceptor CUFF.1235 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 37;140 N alternative_donor CUFF.1249 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 306;2 K intron_retention CUFF.1292 chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 40;30 K alternative_first_exon CUFF.1243,CUFF.1252 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22259485-22259610 chr7:22234188-22234273 168;19 K cassette CUFF.1294 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 30;12 N alternative_acceptor CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156627290-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 213;0 K intron_retention CUFF.1287 chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 31;51 K intron_retention CUFF.1260 chr7 + chr7:73108381-73111934 chr7:73108380-73108381;chr7:73111934-73111935 322;86 N alternative_donor CUFF.1234 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:193805-195327 chr7:193804-193805 7;4 N alternative_acceptor CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156627270-156629506 chr7:156626487-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 184;29 N jcn_only_AD CUFF.1249 chr7 - chr7:36934623-37025527;chr7:36934623-37052903 chr7:36934623-37024519 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 399;95 N intron_retention chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 113;18 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 39;195 K alternative_first_exon CUFF.1281 chr7 + chr7:107214267-107215632;chr7:107211712-107215632 chr7:107214329-107215632 chr7:107211590-107211711 chr7:107214268-107214328 1685;69 K alternative_first_exon CUFF.1240 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604053 37;606 N jcn_only_AD CUFF.1301 chr7 + chr7:136554166-136676933 chr7:136635828-136676933 chr7:136554166-136635827 chr7:136554165-136554166 19;10 N jcn_only_AD chr7 - chr7:156619439-156626432;chr7:156619439-156685621 chr7:156619439-156626446 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 492;497 N coord_cassette CUFF.1260 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 298;193 K alternative_first_exon CUFF.1256,CUFF.1269 chr7 - chr7:86548627-86550078;chr7:86548627-86554843 chr7:86548627-86549023 chr7:86554844-86554972 chr7:86549024-86549173 70;27 N alternative_acceptor chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 29;30 N cassette CUFF.1303 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 171;36 N coord_cassette CUFF.1260 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73108321;chr7:73108381-73111934 chr7:73107659-73107744;chr7:73107954-73107999;chr7:73108322-73108380 298;431 N cassette CUFF.1260 chr7 + chr7:73108000-73111934 chr7:73108000-73108321;chr7:73108381-73111934 chr7:73108322-73108380 20;414 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 67;171 N jcn_only_AA CUFF.1310 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 105;28 N cassette CUFF.1249 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 27;240 N alternative_donor CUFF.1280 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 chr7:102453308-102453978;chr7:102462487-102462650 396;3 K jcn_only_AD CUFF.1265 chr7 - chr7:74982650-74982815 chr7:74982650-74982811 chr7:74982812-74982815 chr7:74982815-74982816 6;132 N jcn_only_AA CUFF.1274,CUFF.1305 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 871;122 N jcn_only_AD CUFF.1279,CUFF.1310 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 4196;113 N jcn_only_AA CUFF.1242 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 357;25 K alternative_first_exon CUFF.1305 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150809332-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150813738-150813879;chr7:150783148-150813879 chr7:150784160-150813879 chr7:150813367-150813737;chr7:150782918-150783147 chr7:150783782-150784159 441;127 K cassette CUFF.1254 chr7 + chr7:44247798-44250621 chr7:44247798-44250440;chr7:44250531-44250621 chr7:44250441-44250530 245;44 N jcn_only_AD CUFF.1297 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 524;28 N alternative_donor CUFF.1240 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 15;9 K alternative_first_exon CUFF.1291 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117514055-117514287 chr7:117511644-117511740 198;23 K alternative_first_exon CUFF.1260 chr7 + chr7:73098232-73100965,chr7:73098331-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098254-73100965 chr7:73097355-73097713 chr7:73098097-73098134 274;1645 N alternative_acceptor CUFF.1297 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 72;12 N alternative_donor CUFF.1243 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 45;77 N jcn_only_AA chr7 + chr7:72476698-72479964 chr7:72476698-72477105 26;4 K intron_retention CUFF.1281 chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 2623;58 K intron_retention CUFF.1303 chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 179;19 K alternative_first_exon CUFF.1283 chr7 + chr7:107221023-107221203;chr7:107220747-107221203;chr7:107220812-107221203 chr7:107221091-107221203 chr7:107220422-107220746;chr7:107220762-107220811 chr7:107221038-107221090 243;20 N jcn_only_AD CUFF.1240,CUFF.1291 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 486;79 N alternative_first_exon CUFF.1315 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647221-157647567 chr7:157649982-157650240 52;96 K alternative_first_exon CUFF.1281 chr7 + chr7:107204505-107205032;chr7:107204693-107205032;chr7:107204655-107205032 chr7:107204192-107205032 chr7:107204681-107204692;chr7:107204320-107204654 chr7:107203929-107204191 2613;125 N alternative_donor CUFF.1240,CUFF.1291 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594319-7594786 chr7:7594786-7594787 486;22 K alternative_acceptor CUFF.1238,CUFF.1283 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 32;429 N intron_retention chr7 - chr7:73118587-73118679 chr7:73118586-73118587;chr7:73118679-73118680 4;94 N intron_retention chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 32;14 K cassette CUFF.1280 chr7 - chr7:102669866-102696090 chr7:102669866-102687255;chr7:102687468-102696090 chr7:102687256-102687467 chr7:102669798-102669865;chr7:102696091-102696194 140;27 N jcn_only_AA CUFF.1281 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 2186;63 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 9;40 N intron_retention chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 19;142 K cassette CUFF.1263 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 53;59 N coord_cassette CUFF.1270 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 5;27 N cassette CUFF.1247 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 81;123 N alternative_donor chr7 - chr7:36934623-37025527;chr7:36934623-37024519 chr7:36934623-37052903 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 5;303 K alternative_donor CUFF.1265 chr7 - chr7:74982650-74982815 chr7:74982650-74982811 chr7:74982812-74982815 chr7:74982815-74982816 6;66 N cassette CUFF.1279 chr7 - chr7:102240836-102246304 chr7:102240836-102242770;chr7:102242853-102246304 chr7:102242771-102242852 33;25 K intron_retention CUFF.1305 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 1189;266 N jcn_only_AD CUFF.1258 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 497;14 K intron_retention CUFF.1270 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 28;14 N intron_retention chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 52;20 N alternative_donor chr7 - chr7:156619439-156626432;chr7:156619439-156626446 chr7:156619439-156685621 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 6;306 N jcn_only_AD chr7 - chr7:74981241-74984789 chr7:74981241-74982536 52;12 K jcn_only_AA CUFF.1242 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 70;302 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;74 N jcn_only_AA chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 29;244 K cassette CUFF.1253 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 chr7:38766509-38766588;chr7:38768142-38768186 82;68 N jcn_only_AA CUFF.1303 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 65;28 N jcn_only_AA chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 7;2 N jcn_only_AA CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156627270-156629506 chr7:156626487-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 288;3757 N alternative_acceptor CUFF.1281 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 2043;6 K alternative_first_exon CUFF.1280 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715376 chr7:102714693-102715029 chr7:102696091-102696194 181;97 K alternative_donor CUFF.1303 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 179;34 K alternative_last_exon CUFF.1243 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206688-22206766 chr7:22231059-22231260 31;161 N cassette CUFF.1305 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 55;995 K coord_cassette CUFF.1254 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 82;130 N coord_cassette CUFF.1303 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 24;76 K cassette CUFF.1280 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 chr7:102462487-102462650 71;84 K cassette CUFF.1280 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 chr7:102566721-102566821;chr7:102603980-102604112 32;266 K cassette CUFF.1249 chr7 - chr7:37053041-37136223 chr7:37053041-37072951;chr7:37073018-37136223 chr7:37072952-37073017 140;124 K intron_retention CUFF.1287 chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 67;12 N jcn_only_AA CUFF.1247 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 219;71 K intron_retention CUFF.1283 chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 32;111 N jcn_only_AA chr7 - chr7:156526952-156549086 chr7:156529310-156549086 269;12 N jcn_only_AD CUFF.1288 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 128;139 N jcn_only_AD CUFF.1249 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 2;34 K jcn_only_AD CUFF.1249 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 174;38 N alternative_donor CUFF.1258 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 186;279 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 39;96 N alternative_acceptor CUFF.1247 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 72;71 N jcn_only_AA CUFF.1281 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 2043;20 N jcn_only_AA CUFF.1305 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 613;51 K cassette CUFF.1277 chr7 - chr7:100818093-100823322 chr7:100818093-100822377;chr7:100822418-100823322 chr7:100822378-100822417 46;396 K intron_retention CUFF.1281 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 2205;57 N alternative_acceptor chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 7;0 N alternative_acceptor CUFF.1281 chr7 + chr7:107211712-107215632 chr7:107211712-107214148 chr7:107214149-107215632 chr7:107215632-107215633 2186;11 N alternative_donor CUFF.1279 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 61;1 N alternative_donor CUFF.1269 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 28;3 N jcn_only_AD CUFF.1288 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 143;130 K cassette CUFF.1254 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 82;111 K cassette CUFF.1249 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 73;157 K cassette CUFF.1245 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 24;41 N alternative_donor CUFF.1279,CUFF.1310 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 4196;48 N cassette CUFF.1247 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 38;154 N alternative_acceptor CUFF.1237,CUFF.1297 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 60;6 N alternative_first_exon CUFF.1297 chr7 + chr7:129017465-129019481;chr7:129015768-129019481;chr7:129008393-129019481 chr7:128865281-129019481 chr7:129015675-129015767;chr7:129007900-129008392 chr7:128864864-128865280 513;4 K cassette CUFF.1280 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 chr7:102473287-102473421;chr7:102517914-102518040 27;123 K intron_retention CUFF.1305 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 55;19 N jcn_only_AA CUFF.1304 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 126;311 K alternative_acceptor CUFF.1283 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 162;53 N alternative_donor CUFF.1297 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 chr7:129019591-129028781 chr7:129019590-129019591 524;5 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 122;20 K alternative_last_exon CUFF.1283 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107269266;chr7:107253878-107262074,chr7:107253878-107258772 chr7:107253878-107255690 chr7:107269267-107269616;chr7:107262075-107262744 chr7:107255691-107256322 312;235 N cassette CUFF.1260 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 465;803 K alternative_first_exon CUFF.1305 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815592-150815719 chr7:150816248-150816341 1208;141 N intron_retention CUFF.1254 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 80;133 N cassette CUFF.1291 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 35;21 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 171;173 K alternative_first_exon CUFF.1281 chr7 + chr7:107204505-107205032;chr7:107204192-107205032;chr7:107204693-107205032 chr7:107204655-107205032 chr7:107203929-107204191;chr7:107204681-107204692 chr7:107204320-107204654 176;2562 K cassette CUFF.1280 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 chr7:102669798-102669865;chr7:102696091-102696194 140;134 N alternative_acceptor CUFF.1310 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 59;49 N jcn_only_AA CUFF.1310 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 44;89 K cassette CUFF.1247 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 127;17 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 22;211 K alternative_last_exon CUFF.1243 chr7 - chr7:22162140-22165221 chr7:22165040-22165221 chr7:22157856-22162139 chr7:22164846-22165039 32;30 K cassette CUFF.1253 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 chr7:38835065-38835211;chr7:38836345-38836464 61;129 N alternative_first_exon CUFF.1297 chr7 + chr7:129017465-129019481;chr7:129008393-129019481;chr7:128865281-129019481 chr7:129015768-129019481 chr7:129007900-129008392;chr7:128864864-128865280 chr7:129015675-129015767 469;48 N alternative_donor chr7 - chr7:102251590-102256969;chr7:102251590-102252518 chr7:102251590-102257071 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 16;46 K intron_retention CUFF.1260 chr7 + chr7:73111847-73111934 chr7:73111846-73111847;chr7:73111934-73111935 16;50 K alternative_first_exon CUFF.1241 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815297-16815509 10;248 K intron_retention CUFF.1266 chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 91;379 K mutually_exclusive CUFF.1280 chr7 - chr7:102669866-102695534,chr7:102695626-102696090 chr7:102669866-102687255,chr7:102687468-102696090 chr7:102695535-102695625 chr7:102687256-102687467 chr7:102669798-102669865;chr7:102696091-102696194 134;27 N jcn_only_AD CUFF.1258 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 199;311 N cassette CUFF.1253 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 chr7:38908746-38908853;chr7:38948754-38948866 22;169 K alternative_acceptor CUFF.1269 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 37;290 N jcn_only_AD CUFF.1291 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 12;2 N cassette CUFF.1310 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 221;3330 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 67;300 K cassette CUFF.1269 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 5;116 K cassette CUFF.1292 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 13;297 N jcn_only_AA CUFF.1279 chr7 - chr7:102228218-102232731 chr7:102230744-102232731 2;50 N alternative_donor CUFF.1253 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 chr7:38813715-38813844;chr7:38816279-38816376 53;28 K jcn_only_AA CUFF.1305 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 51;928 K cassette CUFF.1315 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 135;23 K alternative_acceptor CUFF.1297 chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 307;23 K alternative_first_exon CUFF.1249,CUFF.1280 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102665510-102665677 chr7:102613597-102613666 chr7:102608469-102608564 246;16 K alternative_donor CUFF.1249 chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 174;86 K alternative_acceptor CUFF.1292 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 272;105 N alternative_donor CUFF.1283 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 156;7 N jcn_only_AD CUFF.1243 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 94;10 K alternative_first_exon CUFF.1305 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150809332-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150784160-150813879;chr7:150783148-150813879 chr7:150813738-150813879 chr7:150783782-150784159;chr7:150782918-150783147 chr7:150813367-150813737 484;84 K alternative_last_exon CUFF.1265 chr7 - chr7:74953399-74982536 chr7:74981241-74982536 chr7:74953338-74953398 chr7:74981057-74981240 67;7 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 51;269 N coord_cassette CUFF.1305 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 26;172 K intron_retention CUFF.1260 chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 22;86 N jcn_only_AD CUFF.1253 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 chr7:38869854-38869928;chr7:38902145-38902222 287;26 N mutually_exclusive CUFF.1279 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 38;10 N cassette CUFF.1260 chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925 chr7:73105246-73105342 310;424 N alternative_acceptor CUFF.1281 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 2205;95 N jcn_only_AA chr7 + chr7:72482077-72483620 chr7:72482077-72482242 12;2 N alternative_acceptor CUFF.1305 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150828159-150831486 chr7:150831486-150831487 613;6 K intron_retention CUFF.1310 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 15;36 N jcn_only_AA CUFF.1247 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 224;65 N jcn_only_AA CUFF.1310 chr7 - chr7:156627290-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156556490-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 3862;183 K intron_retention chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 671;19 N jcn_only_AA CUFF.1297 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 72;24 N alternative_donor CUFF.1283 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 113;50 N intron_retention chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 23;166 N jcn_only_AA CUFF.1281 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 2205;150 N alternative_acceptor CUFF.1288 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603622-111123784 chr7:110603621-110603622 74;0 K intron_retention CUFF.1254 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 245;75 N alternative_acceptor CUFF.1310 chr7 - chr7:156627290-156629506;chr7:156627270-156629506;chr7:156626487-156629506 chr7:156556490-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 30;183 K alternative_first_exon CUFF.1305 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150809332-150813879,chr7:150783097-150813879,chr7:150787635-150813879;chr7:150784160-150813879;chr7:150813738-150813879 chr7:150783148-150813879 chr7:150783782-150784159;chr7:150813367-150813737 chr7:150782918-150783147 531;37 N cassette CUFF.1305 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 26;31 N alternative_acceptor CUFF.1310 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 92;16 N jcn_only_AD CUFF.1253 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 chr7:38813715-38813844;chr7:38816279-38816376 53;42 N intron_retention chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 28;120 K intron_retention chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 496;32 N alternative_donor chr7 - chr7:117424509-117431344;chr7:117424509-117426439 chr7:117424509-117431181 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 7;2 N cassette CUFF.1253 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 chr7:38860803-38860865;chr7:38902145-38902222 15;230 N jcn_only_AD CUFF.1281 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 2043;29 N jcn_only_AA CUFF.1269 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 28;16 N jcn_only_AA CUFF.1265 chr7 - chr7:74981241-74984789 chr7:74982903-74984789 52;32 K intron_retention CUFF.1291 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 91;85 N intron_retention chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 25;89 N alternative_first_exon CUFF.1297 chr7 + chr7:128991503-129019478;chr7:129015768-129019478;chr7:128865281-129019478 chr7:129008393-129019478 chr7:129015675-129015767;chr7:128864864-128865280 chr7:129007900-129008392 74;68 N alternative_donor CUFF.1243 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 94;4 N alternative_donor CUFF.1267 chr7 - chr7:75068503-75070231 chr7:75068503-75069883 chr7:75069884-75070231 chr7:75070231-75070232 2;43 K intron_retention chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 49;45 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 28;26 N jcn_only_AD CUFF.1258 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 631;255 N intron_retention chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 33;1044 K jcn_only_AA CUFF.1238,CUFF.1283 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 32;732 K intron_retention CUFF.1272 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 54;6 N jcn_only_AA CUFF.1247 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 136;153 K intron_retention CUFF.1283 chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 34;34 N intron_retention chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 197;114 N alternative_acceptor CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156626487-156629506 chr7:156627270-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 212;1 N jcn_only_AD CUFF.1266 chr7 + chr7:75040010-75040937 chr7:75040858-75040937 chr7:75040010-75040857 chr7:75040009-75040010 13;5 N cassette CUFF.1279 chr7 - chr7:102242853-102249207 chr7:102242853-102246304;chr7:102246435-102249207 chr7:102246305-102246434 19;76 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 24;17 N alternative_first_exon CUFF.1297 chr7 + chr7:129017465-129019481;chr7:129015768-129019481;chr7:128865281-129019481 chr7:129008393-129019481 chr7:129015675-129015767;chr7:128864864-128865280 chr7:129007900-129008392 61;456 N jcn_only_AA chr7 + chr7:75039744-75044162 chr7:75039744-75039888 74;49 K intron_retention CUFF.1254 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 63;71 K cassette CUFF.1254 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 23;255 N alternative_first_exon CUFF.1297 chr7 + chr7:128991503-129019478;chr7:128865281-129019478;chr7:129008393-129019478 chr7:129015768-129019478 chr7:128864864-128865280;chr7:129007900-129008392 chr7:129015675-129015767 126;16 K intron_retention CUFF.1305 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 871;67 K cassette CUFF.1275 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 86;33 K jcn_only_AA CUFF.1243 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 173;46 N jcn_only_AD CUFF.1288 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 213;53 K alternative_first_exon CUFF.1249 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 341;13 K cassette CUFF.1301 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 162;20 N alternative_acceptor CUFF.1247 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 71;72 N jcn_only_AA CUFF.1310 chr7 - chr7:156556490-156629506;chr7:156627290-156629506;chr7:156626487-156629506 chr7:156627270-156629506 chr7:156556490-156626486;chr7:156626487-156627269;chr7:156627270-156627289 chr7:156556489-156556490;chr7:156626486-156626487;chr7:156627269-156627270 3945;100 K alternative_last_exon CUFF.1270 chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 37;149 N cassette CUFF.1270 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 55;12 N alternative_donor CUFF.1249,CUFF.1291 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 81;0 N alternative_acceptor CUFF.1287 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 351;11 K jcn_only_AA CUFF.1292 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 309;40 K alternative_donor CUFF.1300 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 22;56 N jcn_only_AD CUFF.1280 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 304;16 K alternative_first_exon CUFF.1270 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 chr7:91731855-91732140 chr7:91737808-91737947 11;60 N jcn_only_AA CUFF.1310 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 116;16 K cassette CUFF.1266 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045049-75045258 chr7:75044870-75045048 110;85 N cassette CUFF.1305 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 254;1201 K jcn_only_AA CUFF.1292 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 272;111 K alternative_first_exon CUFF.1280 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102603980-102604112 chr7:102573768-102573865 chr7:102572328-102572380 217;32 K cassette CUFF.1287 chr7 - chr7:107642179-107643293 chr7:107642179-107642571;chr7:107642830-107643293 chr7:107642572-107642829 42;36 N mutually_exclusive CUFF.1269 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 2;6 N alternative_donor CUFF.1258 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 279;186 K alternative_first_exon CUFF.1283 chr7 + chr7:107221023-107221203;chr7:107220812-107221203;chr7:107221091-107221203 chr7:107220747-107221203 chr7:107220762-107220811;chr7:107221038-107221090 chr7:107220422-107220746 56;207 N jcn_only_AD CUFF.1249,CUFF.1291 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117433467-117450818 chr7:117450818-117450819 81;23 N alternative_acceptor CUFF.1274,CUFF.1305 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 871;88 N jcn_only_AD chr7 - chr7:156619439-156626432;chr7:156619439-156626446 chr7:156619439-156685621 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 682;306 K intron_retention CUFF.1305 chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 51;208 N alternative_acceptor CUFF.1303 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 65;9 K mutually_exclusive CUFF.1275 chr7 - chr7:99032892-99057708,chr7:99057817-99063751 chr7:99032892-99045574,chr7:99045812-99063751 chr7:99057709-99057816 chr7:99045575-99045811 83;74 N alternative_donor CUFF.1291 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 9;0 N jcn_only_AD CUFF.1240 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55756606-55759006 chr7:55759006-55759007 15;37 N alternative_donor chr7 - chr7:156619439-156685621;chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 308;4 K alternative_acceptor CUFF.1292 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 309;38 N coord_cassette CUFF.1305 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 55;1198 N alternative_acceptor CUFF.1247 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 143;0 N alternative_donor CUFF.1281 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 2043;5 N jcn_only_AD chr7 - chr7:156619439-156685621;chr7:156619439-156626446 chr7:156619439-156626432 chr7:156626433-156626446;chr7:156626447-156685621 chr7:156626446-156626447;chr7:156685621-156685622 803;186 N jcn_only_AD chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617864-54621766 chr7:54617863-54617864 197;56 N jcn_only_AA CUFF.1288 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 143;136 K coord_cassette CUFF.1237 chr7 + chr7:6641772-6647590 chr7:6641772-6642294;chr7:6642384-6647167;chr7:6647229-6647590 chr7:6642295-6642383;chr7:6647168-6647228 89;463 N intron_retention CUFF.1305 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 122;50 N jcn_only_AA chr7 + chr7:75040010-75044162 chr7:75040010-75040937 26;13 K coord_cassette CUFF.1254 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 82;219 N alternative_donor CUFF.1258 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 465;0 K alternative_first_exon CUFF.1283 chr7 + chr7:107221023-107221203;chr7:107220747-107221203;chr7:107221091-107221203 chr7:107220812-107221203 chr7:107220422-107220746;chr7:107221038-107221090 chr7:107220762-107220811 236;27 N cassette CUFF.1291 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 77;39 N cassette CUFF.1279 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 48;50 K alternative_last_exon CUFF.1283 chr7 + chr7:107253878-107254098,chr7:107253878-107256705;chr7:107253878-107262074,chr7:107253878-107258772;chr7:107253878-107255690 chr7:107253878-107269266 chr7:107262075-107262744;chr7:107255691-107256322 chr7:107269267-107269616 438;109 K alternative_last_exon CUFF.1274 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640425 chr7:93629609-93629684 16;22 N jcn_only_AD CUFF.1280 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 chr7:102453308-102453978;chr7:102462487-102462650 396;91 K alternative_first_exon CUFF.1281 chr7 + chr7:107204505-107205032;chr7:107204192-107205032;chr7:107204655-107205032 chr7:107204693-107205032 chr7:107203929-107204191;chr7:107204320-107204654 chr7:107204681-107204692 2720;18 N alternative_acceptor CUFF.1288 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 143;14 N jcn_only_AD CUFF.1291 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 6;7 K cassette CUFF.1280 chr7 - chr7:102462651-102495223 chr7:102462651-102462829;chr7:102462888-102495223 chr7:102462830-102462887 chr7:102462487-102462650 71;79 N jcn_only_AD CUFF.1243 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 45;41 N alternative_donor CUFF.1258 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 631;22 N cassette CUFF.1283 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 113;371 K jcn_only_AA CUFF.1235 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 37;132 K alternative_donor CUFF.1260 chr7 + chr7:73098135-73100965 chr7:73098254-73100965 chr7:73098135-73098253 chr7:73098134-73098135 440;774 N jcn_only_AD chr7 - chr7:36934623-37025527;chr7:36934623-37024519 chr7:36934623-37052903 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 191;303 N intron_retention CUFF.1260 chr7 + chr7:73108381-73110735 chr7:73108380-73108381;chr7:73110735-73110736 46;77 K intron_retention CUFF.1249 chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 7;61 K alternative_last_exon CUFF.1287 chr7 - chr7:107580804-107591670 chr7:107583065-107591670 chr7:107580434-107580803 chr7:107582966-107583064 82;198 N alternative_donor CUFF.1288 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 143;1 N alternative_donor CUFF.1253 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 chr7:38869854-38869928;chr7:38902145-38902222 287;0 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 136;232 N intron_retention chr7 + chr7:73106977-73111934 chr7:73106976-73106977;chr7:73111934-73111935 298;38 N jcn_only_AD CUFF.1258 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 325;186 K cassette CUFF.1249 chr7 - chr7:37256301-37262219 chr7:37256301-37257316;chr7:37257362-37262219 chr7:37257317-37257361 146;40 N jcn_only_AD CUFF.1249 chr7 - chr7:36934623-37052903;chr7:36934623-37024519 chr7:36934623-37025527 chr7:37024520-37025527;chr7:37025528-37052903 chr7:37025527-37025528;chr7:37052903-37052904 397;97 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 28;62 N alternative_acceptor CUFF.1269 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 28;2 N jcn_only_AD CUFF.1283 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 131;32 N alternative_donor chr7 - chr7:36901342-36934613 chr7:36901342-36909997 chr7:36909998-36934613 chr7:36934613-36934614 54;3 N alternative_acceptor CUFF.1214 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 523;0 N alternative_acceptor CUFF.1197 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 27;1021 K intron_retention CUFF.1180 chr6 + chr6:31936867-31937056 chr6:31936866-31936867;chr6:31937056-31937057 chr6:31937057-31937197 1470;76 N alternative_donor CUFF.1180 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 146;169 N jcn_only_AD CUFF.1173 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 23;282 N coord_cassette CUFF.1214 chr6 - chr6:128320050-128326228 chr6:128320050-128322340;chr6:128322353-128324341;chr6:128324378-128326228 chr6:128322341-128322352;chr6:128324342-128324377 19;771 K intron_retention CUFF.1182 chr6 - chr6:31937802-31937885 chr6:31937801-31937802;chr6:31937885-31937886 498;20 N alternative_acceptor CUFF.1170 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 136;0 K cassette CUFF.1212 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 15;36 K intron_retention CUFF.1180 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 713;140 N jcn_only_AD chr6 + chr6:112375365-112375537 chr6:112375374-112375537 156;35 N jcn_only_AD CUFF.1213 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 159;321 N alternative_acceptor CUFF.1197 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 1323;241 K intron_retention CUFF.1182 chr6 - chr6:31939459-31939705 chr6:31939458-31939459;chr6:31939705-31939706 43;277 N coord_cassette CUFF.1203 chr6 + chr6:90326377-90331640 chr6:90326377-90326592;chr6:90326676-90327672;chr6:90327751-90331640 chr6:90326593-90326675;chr6:90327673-90327750 43;21 N alternative_acceptor CUFF.1197 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 467;1097 N jcn_only_AA CUFF.1182 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 137;19 K alternative_first_exon CUFF.1196 chr6 - chr6:41491964-41513737;chr6:41491964-41516115;chr6:41491964-41515198 chr6:41491964-41513826 chr6:41516116-41516171;chr6:41515199-41515288 chr6:41513827-41513981 1924;1985 K alternative_acceptor CUFF.1215 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 229;150 N jcn_only_AA CUFF.1197 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 483;1179 K jcn_only_AD CUFF.1222 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 18;45 K intron_retention CUFF.1228 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 chr6:165241147-165241452;chr6:165243010-165245119 224;47 N jcn_only_AD chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 196;34 K intron_retention CUFF.1197 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 1242;848 K alternative_first_exon CUFF.1184 chr6 + chr6:32122555-32123464 chr6:32122961-32123464 chr6:32122364-32122554 chr6:32122776-32122960 383;247 N jcn_only_AA CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 597;90 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 134;20 N coord_cassette CUFF.1211 chr6 - chr6:114281183-114292020 chr6:114281183-114283530;chr6:114283559-114289797;chr6:114289861-114292020 chr6:114283531-114283558;chr6:114289798-114289860 412;96 K alternative_first_exon CUFF.1201 chr6 - chr6:75977465-75993935 chr6:75977465-75982179 chr6:75993936-75994108 chr6:75982180-75982185 33;3 N alternative_donor CUFF.1198 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 75;3 N jcn_only_AA CUFF.1214 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 163;523 N jcn_only_AA CUFF.1197 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 1421;241 K intron_retention CUFF.1180 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 146;393 K alternative_first_exon CUFF.1226 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161412759-161413115 chr6:161443167-161443259 4;17 K alternative_first_exon CUFF.1182 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31939870 chr6:31939097-31939462 23;468 K intron_retention chr6 + chr6:31928872-31928972 chr6:31928871-31928872;chr6:31928972-31928973 47;2 N alternative_acceptor CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 524;0 N jcn_only_AA CUFF.1215 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 1264;23 N alternative_donor chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 2;523 N intron_retention chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 20;143 N intron_retention chr6 - chr6:31939359-31939705 chr6:31939358-31939359;chr6:31939705-31939706 19;317 N jcn_only_AD CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 185;248 N jcn_only_AA CUFF.1184 chr6 + chr6:32122555-32123464;chr6:32122555-32123544 chr6:32122555-32122806 537;240 K alternative_acceptor CUFF.1198 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 322;173 K alternative_first_exon CUFF.1208 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382194-112382491 chr6:112382503-112382598 337;18 N mutually_exclusive CUFF.1215 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 55;89 N jcn_only_AA CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 291;22 K alternative_acceptor CUFF.1184,CUFF.1208 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 17;116 N jcn_only_AA CUFF.1182 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 139;16 K jcn_only_AA CUFF.1182 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 22;312 K intron_retention CUFF.1182 chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 40;98 N alternative_donor CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 523;2 N jcn_only_AA CUFF.1170 chr6 - chr6:5113652-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5144497-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 303;11 N cassette CUFF.1214 chr6 - chr6:128320050-128324341 chr6:128320050-128322340;chr6:128322353-128324341 chr6:128322341-128322352 60;653 K alternative_last_exon CUFF.1192 chr6 - chr6:35477090-35479424 chr6:35478788-35479424 chr6:35476986-35477089 chr6:35478500-35478787 35;75 K intron_retention CUFF.1215 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 1264;45 N jcn_only_AA CUFF.1197 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 1646;16 K intron_retention CUFF.1182 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 394;47 N cassette CUFF.1215 chr6 - chr6:133050119-133055391 chr6:133050119-133052513;chr6:133052667-133055391 chr6:133052514-133052666 343;264 N cassette CUFF.1202 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 22;571 K alternative_acceptor CUFF.1182 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 129;160 N alternative_donor CUFF.1214 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 938;12 K intron_retention CUFF.1211 chr6 - chr6:114270252-114270331 chr6:114270251-114270252;chr6:114270331-114270332 160;6 N alternative_donor CUFF.1173 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 23;149 N alternative_donor chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 45;82 K alternative_donor CUFF.1213 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 36;22 N jcn_only_AD CUFF.1203 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 213;204 K intron_retention CUFF.1182 chr6 - chr6:31938925-31939096 chr6:31938924-31938925;chr6:31939096-31939097 312;96 K cassette CUFF.1213 chr6 + chr6:126329892-126332398 chr6:126329892-126330480;chr6:126330581-126332398 chr6:126330481-126330580 39;12 N alternative_acceptor chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 24;3 N jcn_only_AA CUFF.1197 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 1516;146 K jcn_only_AA CUFF.1229 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 59;55 K alternative_last_exon CUFF.1196 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491627-41491963 7;3134 K alternative_first_exon CUFF.1202 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066019-88066221 chr6:88068805-88068919 806;180 K cassette CUFF.1221 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 80;130 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 23;45 K cassette CUFF.1226 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 226;53 N jcn_only_AA CUFF.1208,CUFF.1226 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 204;60 N mutually_exclusive CUFF.1203 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 116;19 N alternative_donor CUFF.1213 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 134;321 N alternative_donor CUFF.1214 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 122;5 N jcn_only_AD CUFF.1184 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 78;316 K alternative_first_exon CUFF.1176 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29942889-29943294 chr6:29945183-29945280 109;9 N alternative_donor CUFF.1201,CUFF.1214 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 87;40 K alternative_acceptor CUFF.1189 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 197;216 K cassette CUFF.1226 chr6 + chr6:161455482-161469647 chr6:161455482-161469277;chr6:161469324-161469647 chr6:161469278-161469323 18;247 N jcn_only_AD CUFF.1170 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 68;162 N alternative_acceptor CUFF.1184,CUFF.1203 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 213;30 N mutually_exclusive CUFF.1211 chr6 - chr6:114281183-114289797,chr6:114289861-114292020 chr6:114281183-114283530,chr6:114283559-114292020 chr6:114289798-114289860 chr6:114283531-114283558 186;13 K cassette CUFF.1208 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 216;161 N intron_retention chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 130;18 N alternative_acceptor CUFF.1214 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 731;2 K alternative_acceptor CUFF.1169 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 32;39 N cassette CUFF.1215 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 219;296 N jcn_only_AD CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128718834-128730438 chr6:128718834-128812876 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 601;221 K jcn_only_AA CUFF.1198 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 322;104 K cassette CUFF.1198 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 193;280 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 16;120 N cassette CUFF.1203 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 46;189 K cassette CUFF.1226 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 101;116 K intron_retention CUFF.1197 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 1177;964 N jcn_only_AD CUFF.1184 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 336;57 N jcn_only_AD CUFF.1203 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 106;143 K cassette CUFF.1224 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 126;598 N alternative_donor CUFF.1170 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 34;2 N jcn_only_AD CUFF.1184 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 373;20 K alternative_first_exon CUFF.1220 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665184-144665440 39;163 N jcn_only_AA CUFF.1184 chr6 + chr6:32122555-32123544;chr6:32122555-32122806 chr6:32122555-32123464 344;433 K intron_retention CUFF.1182 chr6 - chr6:31938925-31939705 chr6:31938924-31938925;chr6:31939705-31939706 16;185 N cassette CUFF.1206 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 4;444 N jcn_only_AD CUFF.1180 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 146;256 N jcn_only_AA CUFF.1182 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 78;78 N alternative_donor CUFF.1196,CUFF.1214 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 963;17 N alternative_acceptor CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 33;490 N alternative_first_exon CUFF.1173 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109688-28109807 chr6:28109899-28110041 16;183 N mutually_exclusive CUFF.1215 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050118 chr6:133047861-133047977 78;28 K alternative_acceptor CUFF.1206 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 92;225 N jcn_only_AD CUFF.1198 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 75;44 N cassette CUFF.1206 chr6 + chr6:111306342-111312949 chr6:111306342-111310230;chr6:111310269-111312949 chr6:111310231-111310268 4;303 K intron_retention CUFF.1189 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 968;67 K intron_retention CUFF.1197 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 907;105 N alternative_first_exon CUFF.1182 chr6 - chr6:75975055-75994117 chr6:75975055-75977356 chr6:75994118-75994684 chr6:75977357-75977464 17;25 N alternative_donor CUFF.1167 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 198;31 N jcn_only_AD CUFF.1195 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 92;40 K intron_retention CUFF.1197 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 1145;570 K jcn_only_AA CUFF.1226 chr6 + chr6:161413116-161491639 chr6:161413116-161455290 24;4 N alternative_donor CUFF.1203 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 20;0 K cassette CUFF.1192 chr6 - chr6:35478788-35479956 chr6:35478788-35479424;chr6:35479584-35479956 chr6:35479425-35479583 14;67 K intron_retention CUFF.1198 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 187;177 K jcn_only_AA CUFF.1189 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 197;332 N alternative_acceptor CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 524;0 N jcn_only_AA CUFF.1167 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 198;9 N jcn_only_AD CUFF.1214 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 938;86 K intron_retention CUFF.1180 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 47;73 N alternative_acceptor CUFF.1180,CUFF.1189 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 259;21 N intron_retention chr6 - chr6:31939503-31939705 chr6:31939502-31939503;chr6:31939705-31939706 78;247 N jcn_only_AA CUFF.1197 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 27;1242 N mutually_exclusive CUFF.1215 chr6 - chr6:133046119-133049879,chr6:133050119-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050118 chr6:133047861-133048151 78;89 K alternative_donor CUFF.1224 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 232;279 K intron_retention CUFF.1215 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 77;85 N jcn_only_AD CUFF.1203 chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 404;28 K cassette CUFF.1188 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 18;238 N jcn_only_AD CUFF.1209 chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 56;93 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 73;22 N jcn_only_AD CUFF.1170,CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 744;78 K alternative_first_exon CUFF.1166 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291630-291700 chr6:292284-292560 46;538 K jcn_only_AD CUFF.1226 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 81;51 K alternative_first_exon CUFF.1196 chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41515198 chr6:41491964-41516115 chr6:41513827-41513981;chr6:41515199-41515288 chr6:41516116-41516171 3870;39 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 16;82 N jcn_only_AA CUFF.1188 chr6 + chr6:32812052-32823914 chr6:32812052-32812586 chr6:32812587-32823914 chr6:32823914-32823915 76;3 N alternative_donor CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 18;2 K alternative_first_exon CUFF.1171 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472370;chr6:13486870-13487991 chr6:13486243-13486457 63;35 K intron_retention CUFF.1184 chr6 + chr6:32122182-32122363 chr6:32122181-32122182;chr6:32122363-32122364 316;24 K intron_retention CUFF.1211 chr6 - chr6:114267313-114270142 chr6:114267312-114267313;chr6:114270142-114270143 237;21 K cassette CUFF.1229 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 10;68 K jcn_only_AA CUFF.1212 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 19;31 N alternative_acceptor CUFF.1167 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 198;28 N alternative_acceptor CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 490;33 K intron_retention CUFF.1189 chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 83;26 N intron_retention chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 chr6:31936931-31937093 19;228 N jcn_only_AD chr6 - chr6:128313855-128316393;chr6:128313855-128316591 chr6:128313855-128316606 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 173;82 K intron_retention CUFF.1211 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 319;168 K alternative_first_exon CUFF.1166 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311880-311962 chr6:320276-320364 382;10 K cassette CUFF.1213 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 155;92 K alternative_acceptor CUFF.1184,CUFF.1213 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 46;147 N alternative_donor CUFF.1213 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 336;119 K jcn_only_AA CUFF.1180 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 102;47 N alternative_acceptor CUFF.1197 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 907;37 N cassette CUFF.1211 chr6 - chr6:114281183-114292020;chr6:114281183-114289797 chr6:114281183-114283530;chr6:114283559-114289797,chr6:114283559-114292020 chr6:114283531-114283558 633;130 N alternative_acceptor CUFF.1214 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 82;11 N alternative_donor CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 3;17 N alternative_donor CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 19;1 K alternative_first_exon CUFF.1188 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821910-32822066;chr6:32811884-32812051 chr6:32812581-32812647 158;56 N coord_cassette CUFF.1198 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 53;324 K cassette CUFF.1184 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 303;227 N alternative_acceptor CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 6;130 N jcn_only_AD CUFF.1170 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 213;17 K alternative_first_exon CUFF.1191 chr6 + chr6:34482846-34494019;chr6:34434048-34494019 chr6:34452922-34494019 chr6:34433916-34434047 chr6:34452847-34452921 66;32 N alternative_donor CUFF.1180 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 chr6:31936931-31937093 19;637 N alternative_donor CUFF.1170 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 36;0 K cassette CUFF.1213 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 358;149 N alternative_acceptor CUFF.1214 chr6 - chr6:128812995-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128718834-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 1;523 N jcn_only_AD CUFF.1214 chr6 - chr6:128313855-128316393;chr6:128313855-128316606 chr6:128313855-128316591 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 246;10 N jcn_only_AA CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1043;20 K jcn_only_AD CUFF.1224 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 232;152 K intron_retention CUFF.1180 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 257;32 K intron_retention CUFF.1197 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 335;968 K cassette CUFF.1209 chr6 + chr6:112558118-112668493 chr6:112558118-112666314;chr6:112666362-112668493 chr6:112666315-112666361 190;81 N intron_retention CUFF.1211 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 89;54 K intron_retention CUFF.1180 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 110;7 N jcn_only_AA CUFF.1214 chr6 - chr6:128320050-128322340 chr6:128321476-128322340 185;964 N alternative_acceptor CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 136;0 K cassette CUFF.1184 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 16;56 N cassette CUFF.1166 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 440;579 N jcn_only_AD CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 415;17 N coord_cassette CUFF.1211 chr6 - chr6:114281183-114291643 chr6:114281183-114283530;chr6:114283559-114289797;chr6:114289861-114291643 chr6:114283531-114283558;chr6:114289798-114289860 89;87 K cassette CUFF.1209 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 190;165 K mutually_exclusive CUFF.1209 chr6 + chr6:112558118-112666314,chr6:112666362-112668493 chr6:112558118-112664599,chr6:112664981-112668493 chr6:112666315-112666361 chr6:112664600-112664980 81;120 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 62;285 N jcn_only_AD CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 419;14 N jcn_only_AA CUFF.1197 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 907;28 K alternative_first_exon CUFF.1206 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303131-111303332 chr6:111303520-111303706 340;57 N jcn_only_AD chr6 - chr6:114281183-114291418 chr6:114281183-114289493 140;44 N jcn_only_AA chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 24;58 K cassette CUFF.1214 chr6 - chr6:128326390-128330274 chr6:128326390-128327170;chr6:128327201-128330274 chr6:128327171-128327200 90;959 K intron_retention CUFF.1182 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 129;261 N jcn_only_AA CUFF.1214 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1040;23 N jcn_only_AD CUFF.1180 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 chr6:31936931-31937093 19;1141 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 73;0 N alternative_acceptor CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128840287-128841403 chr6:128730478-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 523;1 K intron_retention CUFF.1195 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 20;52 N alternative_acceptor CUFF.1197 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 1486;78 K alternative_acceptor CUFF.1178 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 46;21 N alternative_acceptor CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 130;6 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 35;74 N jcn_only_AD CUFF.1221 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 220;23 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 27;1043 N jcn_only_AA CUFF.1184,CUFF.1203 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 213;16 N cassette CUFF.1215 chr6 - chr6:133047978-133055391;chr6:133046119-133055391;chr6:133048152-133055391 chr6:133047978-133049879,chr6:133048152-133049879,chr6:133046119-133049879;chr6:133050119-133055391 chr6:133049880-133050118 224;423 K alternative_first_exon CUFF.1171 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486457;chr6:13486870-13487991 chr6:13472213-13472370 79;19 N cassette CUFF.1203 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 132;387 K cassette CUFF.1197 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 793;780 K alternative_last_exon CUFF.1226 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161491640-161491882 chr6:161488231-161488289 60;5 K jcn_only_AA CUFF.1206 chr6 + chr6:111306342-111310230 chr6:111306342-111310190 chr6:111310191-111310230 chr6:111310230-111310231 92;497 N alternative_donor CUFF.1221 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 220;3 K intron_retention CUFF.1166 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 779;200 N cassette CUFF.1166 chr6 + chr6:292561-345853 chr6:292561-311879;chr6:311915-345853 chr6:311880-311914 394;67 K alternative_acceptor CUFF.1182 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 22;204 K intron_retention CUFF.1189 chr6 + chr6:33239900-33240404 chr6:33239899-33239900;chr6:33240404-33240405 197;86 N cassette CUFF.1203 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 56;356 K alternative_first_exon CUFF.1188 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812581-32812647;chr6:32821910-32822066 chr6:32811884-32812051 124;90 N jcn_only_AA CUFF.1180,CUFF.1189 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 259;31 N jcn_only_AA CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128812995-128841403;chr6:128730478-128841403 chr6:128840287-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 652;35 K alternative_first_exon CUFF.1221 chr6 + chr6:144898425-144999541;chr6:144904737-144999541 chr6:144981412-144999541 chr6:144904325-144904736 chr6:144981130-144981411 59;57 N alternative_acceptor CUFF.1197 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 1435;129 N alternative_donor chr6 - chr6:5109726-5113304;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5260880 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 2;34 N alternative_first_exon CUFF.1184 chr6 + chr6:32122555-32123544 chr6:32122961-32123544 chr6:32122364-32122554 chr6:32122776-32122960 92;15 K jcn_only_AA CUFF.1169 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 32;52 K intron_retention CUFF.1184 chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 57;30 K cassette CUFF.1213 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 150;476 K cassette CUFF.1209 chr6 + chr6:112558118-112627530 chr6:112558118-112604255;chr6:112604370-112627530 chr6:112604256-112604369 39;66 N cassette CUFF.1180 chr6 + chr6:31928872-31929323 chr6:31928872-31929117;chr6:31929164-31929323 chr6:31929118-31929163 21;66 K cassette CUFF.1203 chr6 + chr6:90326377-90327672 chr6:90326377-90326592;chr6:90326676-90327672 chr6:90326593-90326675 97;22 N alternative_donor CUFF.1170 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 36;0 N alternative_acceptor CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 523;0 N jcn_only_AD CUFF.1167 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 198;134 K alternative_first_exon CUFF.1226 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 27;90 K alternative_last_exon CUFF.1170 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5102827-5109725 chr6:5216851-5216971 77;239 N alternative_donor CUFF.1184 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 194;43 K jcn_only_AD CUFF.1213 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 36;42 K coord_cassette CUFF.1213 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126330480;chr6:126330581-126332398 chr6:126329803-126329891;chr6:126330481-126330580 155;22 K intron_retention CUFF.1221 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 106;25 K intron_retention CUFF.1182 chr6 - chr6:31938917-31939096 chr6:31938916-31938917;chr6:31939096-31939097 22;96 K alternative_acceptor CUFF.1180 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 102;35 N alternative_acceptor CUFF.1197 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 1545;19 K intron_retention CUFF.1166 chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 179;731 N cassette CUFF.1166 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 170;611 K alternative_acceptor CUFF.1184 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 62;132 N alternative_acceptor CUFF.1208,CUFF.1226 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112375826-112382193 chr6:112382193-112382194 204;6 N jcn_only_AA CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 76;987 N cassette CUFF.1214 chr6 - chr6:128563748-128718710 chr6:128563748-128643183;chr6:128643456-128718710 chr6:128643184-128643455 58;903 N alternative_acceptor CUFF.1188 chr6 + chr6:32812052-32823914 chr6:32812052-32812586 chr6:32812587-32823914 chr6:32823914-32823915 76;2 N jcn_only_AD CUFF.1213 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 456;23 K jcn_only_AA CUFF.1182 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 129;100 N cassette CUFF.1215 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 219;292 K intron_retention CUFF.1189 chr6 + chr6:33239900-33240363 chr6:33239899-33239900;chr6:33240363-33240364 332;39 N jcn_only_AA CUFF.1214 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 731;73 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 13;234 N jcn_only_AA CUFF.1184 chr6 + chr6:32122555-32123464;chr6:32122555-32122806 chr6:32122555-32123544 673;104 K intron_retention CUFF.1182 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 100;233 N alternative_donor CUFF.1184 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 217;20 N jcn_only_AA CUFF.1197 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 1583;79 K jcn_only_AA CUFF.1215 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 229;132 K intron_retention CUFF.1170 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 14;113 N jcn_only_AA CUFF.1214 chr6 - chr6:128313855-128316606 chr6:128316412-128316606 chr6:128313855-128316411 chr6:128313854-128313855 82;164 K intron_retention CUFF.1188 chr6 + chr6:32825172-32825781 chr6:32825171-32825172;chr6:32825781-32825782 298;44 K cassette CUFF.1184 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122172-32122363 chr6:32121776-32122171 303;191 N jcn_only_AD chr6 - chr6:128718834-128812876;chr6:128718834-128730438 chr6:128718834-128841403 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 298;523 K alternative_first_exon CUFF.1171 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486457;chr6:13472213-13472370 chr6:13486870-13487991 54;44 N alternative_donor CUFF.1184 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 63;174 N alternative_donor CUFF.1203 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 106;161 K jcn_only_AA CUFF.1184,CUFF.1208 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 17;281 K alternative_acceptor CUFF.1229 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 59;27 K alternative_first_exon CUFF.1196 chr6 - chr6:41491964-41513737;chr6:41491964-41513826;chr6:41491964-41516115 chr6:41491964-41515198 chr6:41513827-41513981;chr6:41516116-41516171 chr6:41515199-41515288 2051;1858 N jcn_only_AA CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5138974-5216850;chr6:5187215-5216850 chr6:5113652-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 184;130 K alternative_acceptor CUFF.1212 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 19;36 N mutually_exclusive CUFF.1215 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 55;28 K intron_retention CUFF.1215 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 705;59 N alternative_donor CUFF.1170,CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128718834-128812876 chr6:128718834-128730438 chr6:128730439-128812876;chr6:128812877-128841403 chr6:128812876-128812877;chr6:128841403-128841404 525;0 N cassette CUFF.1215 chr6 - chr6:133047978-133055391;chr6:133046119-133055391;chr6:133048152-133055391 chr6:133047978-133049879,chr6:133048152-133049879,chr6:133046119-133049879;chr6:133050073-133055391 chr6:133049880-133050072 224;313 K intron_retention CUFF.1177 chr6 - chr6:30711974-30712085 chr6:30711973-30711974;chr6:30712085-30712086 226;45 K coord_cassette CUFF.1166 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311915-345853 chr6:304628-304661;chr6:311880-311914 394;461 K alternative_donor CUFF.1226 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 81;25 N jcn_only_AD CUFF.1196,CUFF.1214 chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 963;131 N intron_retention chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 156;74 N jcn_only_AA CUFF.1170 chr6 - chr6:5144497-5216850;chr6:5113652-5216850;chr6:5187215-5216850 chr6:5138974-5216850 chr6:5113652-5138973;chr6:5138974-5144496;chr6:5144497-5187214 chr6:5113651-5113652;chr6:5138973-5138974;chr6:5144496-5144497 163;151 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 24;91 K intron_retention CUFF.1188 chr6 + chr6:32823983-32825781 chr6:32823982-32823983;chr6:32825781-32825782 18;33 N alternative_donor CUFF.1195 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 92;1 N jcn_only_AD CUFF.1201,CUFF.1214 chr6 - chr6:128313855-128316606;chr6:128313855-128316591 chr6:128313855-128316393 chr6:128316394-128316591;chr6:128316592-128316606 chr6:128316591-128316592;chr6:128316606-128316607 93;163 K intron_retention CUFF.1226 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 51;34 N alternative_donor CUFF.1209 chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 56;0 N cassette CUFF.1203 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 66;351 N cassette CUFF.1173 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 9;76 K intron_retention CUFF.1188 chr6 + chr6:32823983-32825039 chr6:32823982-32823983;chr6:32825039-32825040 234;35 N jcn_only_AA CUFF.1214 chr6 - chr6:128718834-128841403;chr6:128730478-128841403;chr6:128840287-128841403 chr6:128812995-128841403 chr6:128718834-128730477;chr6:128730478-128812994;chr6:128812995-128840286 chr6:128718833-128718834;chr6:128730477-128730478;chr6:128812994-128812995 648;39 N coord_cassette CUFF.1215 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050119-133055391 chr6:133047861-133047977;chr6:133049880-133050118 143;253 N alternative_acceptor CUFF.1215 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 1264;40 N alternative_donor CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 20;0 N intron_retention CUFF.1197 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 57;136 K intron_retention chr6 + chr6:31928872-31929117 chr6:31928871-31928872;chr6:31929117-31929118 102;14 N intron_retention chr6 + chr6:31939052-31939645 chr6:31939051-31939052;chr6:31939645-31939646 4;155 N cassette CUFF.1211 chr6 - chr6:114281183-114292020;chr6:114281183-114291643;chr6:114283559-114292020 chr6:114281183-114289797,chr6:114283559-114289797;chr6:114289861-114291643,chr6:114289861-114292020 chr6:114289798-114289860 514;282 N alternative_donor CUFF.1203 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 213;43 K cassette CUFF.1184 chr6 + chr6:32125498-32130344 chr6:32125498-32125616;chr6:32125702-32130344 chr6:32125617-32125701 1;236 N jcn_only_AA CUFF.1214 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 23;855 K jcn_only_AA CUFF.1178 chr6 - chr6:31508312-31509726 chr6:31508442-31509726 chr6:31508312-31508441 chr6:31508311-31508312 46;27 K cassette CUFF.1214 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 19;586 N cassette CUFF.1203 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 43;78 N jcn_only_AD CUFF.1203 chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 chr6:90193278-90218677;chr6:90218678-90218968;chr6:90218969-90272617;chr6:90272618-90272642 chr6:90193277-90193278;chr6:90218677-90218678;chr6:90218968-90218969;chr6:90272617-90272618 307;126 N intron_retention chr6 + chr6:31928872-31929323 chr6:31928871-31928872;chr6:31929323-31929324 21;73 N jcn_only_AD CUFF.1170 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 213;16 N cassette CUFF.1166 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 54;673 N alternative_donor CUFF.1213 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 440;15 K intron_retention CUFF.1189 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 824;72 K jcn_only_AA CUFF.1184 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 62;7 K alternative_first_exon CUFF.1188 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812581-32812647;chr6:32811884-32812051 chr6:32821910-32822066 146;68 N jcn_only_AD CUFF.1213 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 345;135 K intron_retention CUFF.1203 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 93;17 K cassette CUFF.1189 chr6 + chr6:33240504-33243573 chr6:33240504-33243276;chr6:33243435-33243573 chr6:33243277-33243434 441;61 N jcn_only_AA CUFF.1214 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 1030;33 K jcn_only_AA CUFF.1184,CUFF.1213 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 46;321 N jcn_only_AA CUFF.1182 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 113;43 K intron_retention CUFF.1180 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 chr6:31936931-31937197 1141;41 K intron_retention CUFF.1189 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 693;249 K coord_cassette CUFF.1166 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 394;313 K cassette CUFF.1203 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 5;92 K jcn_only_AA CUFF.1178 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 73;188 K cassette CUFF.1212 chr6 - chr6:116980088-116981898 chr6:116980088-116981395;chr6:116981533-116981898 chr6:116981396-116981532 32;14 N coord_cassette CUFF.1215 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 143;211 N cassette CUFF.1180 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 21;49 N cassette CUFF.1195 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 37;117 N jcn_only_AD CUFF.1180 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 13;264 K intron_retention CUFF.1182 chr6 - chr6:31937981-31938119 chr6:31937980-31937981;chr6:31938119-31938120 468;28 N intron_retention chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 256;356 K jcn_only_AD CUFF.1113,CUFF.1125 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 28;109 N jcn_only_AD CUFF.1146 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630703-131631314 chr5:131630702-131630703 57;21 N alternative_acceptor CUFF.1114 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 16;4 N alternative_donor CUFF.1163 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 12;576 K alternative_last_exon CUFF.1133 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902728-64902994 43;219 K alternative_last_exon CUFF.1135 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 10;86 K alternative_first_exon CUFF.1150 chr5 + chr5:137514540-137515348 chr5:137514892-137515348,chr5:137515023-137515348 chr5:137514408-137514539 chr5:137514685-137514891 22;235 K coord_cassette CUFF.1132 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60200614;chr5:60200701-60214091 chr5:60199475-60199543;chr5:60200615-60200700 240;105 K cassette CUFF.1150 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 166;70 K intron_retention CUFF.1153 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 chr5:140027281-140027509;chr5:140028056-140028122 470;245 N jcn_only_AA CUFF.1117 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 27;35 K jcn_only_AA CUFF.1116,CUFF.1153 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 13;35 K alternative_donor CUFF.1114,CUFF.1132 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 415;24 K alternative_last_exon CUFF.1140 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127302271-127302620;chr5:127292496-127292613 chr5:127359726-127359990 244;192 K cassette CUFF.1165 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 52;70 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 298;36 K alternative_donor CUFF.1153 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 chr5:140028056-140028122;chr5:140027281-140027509 470;594 N jcn_only_AA CUFF.1151 chr5 + chr5:149779794-149781420 chr5:149779794-149781193 chr5:149781194-149781420 chr5:149781420-149781421 7;2 N jcn_only_AA CUFF.1136 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 9;18 N cassette CUFF.1111 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 1859;533 N jcn_only_AA CUFF.1129 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 30;31 K intron_retention CUFF.1151 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 86;310 K intron_retention CUFF.1165 chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 45;39 K cassette CUFF.1125 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 136;131 N cassette CUFF.1140 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 84;134 K alternative_last_exon CUFF.1165 chr5 - chr5:178032384-178035376 chr5:178032867-178035376 chr5:178029665-178032383 chr5:178032865-178032866 88;11 N mutually_exclusive CUFF.1127 chr5 + chr5:54456072-54456821,chr5:54457084-54459882 chr5:54456072-54456157,chr5:54456225-54459882 chr5:54456822-54457083 chr5:54456158-54456224 41;100 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 18;27 N jcn_only_AA CUFF.1151 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 259;95 K cassette CUFF.1125 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 91;50 K intron_retention CUFF.1165 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 112;65 K alternative_last_exon CUFF.1140 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127302271-127302620;chr5:127359726-127359990 chr5:127292496-127292613 335;101 K cassette CUFF.1127 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 86;108 N cassette CUFF.1151 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 17;50 N alternative_donor CUFF.1151 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 52;370 K intron_retention CUFF.1160 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 149;75 N alternative_acceptor CUFF.1151 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 12;3 N jcn_only_AA CUFF.1136 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 62;376 K alternative_first_exon CUFF.1118 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809027-44809665 chr5:44809943-44810094 86;15 K cassette CUFF.1146 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 69;27 K alternative_first_exon CUFF.1161 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684020 31;103 K coord_cassette CUFF.1160 chr5 - chr5:149785885-149792187 chr5:149785885-149786443;chr5:149786524-149786714;chr5:149786888-149792187 chr5:149786444-149786523;chr5:149786715-149786887 353;692 K intron_retention CUFF.1110 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 22;3 K jcn_only_AD CUFF.1109,CUFF.1155 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 19;73 K jcn_only_AA CUFF.1121,CUFF.1129 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 51;138 N alternative_acceptor CUFF.1151 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 140;91 K alternative_first_exon CUFF.1121 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681966-50682460 chr5:50683324-50683583 86;103 K alternative_acceptor CUFF.1116,CUFF.1153 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 13;19 N jcn_only_AA CUFF.1123 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 68;63 K intron_retention CUFF.1128 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 47;15 K intron_retention CUFF.1153 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 chr5:140039700-140039780;chr5:140040343-140040400 844;10 N alternative_acceptor CUFF.1117 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 27;41 K jcn_only_AD CUFF.1140 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 65;30 K alternative_donor CUFF.1133 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 98;98 K intron_retention CUFF.1165 chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 40;70 N jcn_only_AD CUFF.1142 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 14;20 K jcn_only_AA CUFF.1128 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 39;16 K intron_retention CUFF.1133 chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 19;21 N jcn_only_AD CUFF.1151 chr5 + chr5:139909382-139916973 chr5:139915124-139916973 48;86 N alternative_donor CUFF.1128,CUFF.1165 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 26;3 K intron_retention CUFF.1147 chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 13;97 K jcn_only_AD CUFF.1153 chr5 + chr5:140027510-140028055 chr5:140027593-140028055 chr5:140027510-140027592 chr5:140027509-140027510 chr5:140028056-140028122;chr5:140027281-140027509 470;1070 N jcn_only_AA CUFF.1107 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2030;160 K jcn_only_AD CUFF.1150 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 169;287 K jcn_only_AD CUFF.1140,CUFF.1155 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 27;135 K jcn_only_AA CUFF.1156 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 10;13 N alternative_donor CUFF.1156 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 4;0 N cassette CUFF.1160 chr5 - chr5:149782189-149785821;chr5:149782189-149784242 chr5:149782189-149782683;chr5:149782876-149785821,chr5:149782876-149784242 chr5:149782684-149782875 99;125 N intron_retention chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 7;46 K intron_retention CUFF.1154 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 84;8 K alternative_last_exon CUFF.1147 chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195427 chr5:134182353-134182553 3;98 K cassette CUFF.1165 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178046898-178050256 chr5:178046839-178046897 100;109 K alternative_donor CUFF.1140,CUFF.1155 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 27;82 N jcn_only_AA CUFF.1146 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131656558-131657876 chr5:131657876-131657877 74;21 K alternative_donor CUFF.1150 chr5 + chr5:137514892-137515348 chr5:137515023-137515348 chr5:137514892-137515022 chr5:137514891-137514892 169;235 K intron_retention CUFF.1165 chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 55;70 K cassette CUFF.1129 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 16;32 K jcn_only_AD CUFF.1147 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 31;13 K cassette CUFF.1132 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 10;310 N jcn_only_AA CUFF.1121,CUFF.1151 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 86;448 K intron_retention CUFF.1147 chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 98;23 N alternative_acceptor CUFF.1151 chr5 + chr5:149779794-149781420 chr5:149779794-149781193 chr5:149781194-149781420 chr5:149781420-149781421 7;128 N alternative_acceptor chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 7;24 N alternative_acceptor CUFF.1136 chr5 - chr5:82969369-83016607 chr5:82971157-83016607 chr5:82969369-82971156 chr5:82969368-82969369 9;52 K cassette CUFF.1129 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 88;38 K intron_retention CUFF.1165 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 51;34 K alternative_donor CUFF.1140 chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 65;182 K intron_retention CUFF.1129 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 34;31 N coord_cassette CUFF.1160 chr5 - chr5:149782189-149785821 chr5:149782189-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 75;151 K intron_retention CUFF.1155 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 44;52 K alternative_donor CUFF.1113,CUFF.1136 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 12;89 N alternative_acceptor CUFF.1122,CUFF.1123 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 28;0 K alternative_acceptor CUFF.1153 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 chr5:140031299-140031391;chr5:140031673-140031732 2114;20 N alternative_acceptor CUFF.1117,CUFF.1156 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40980089-40981493 chr5:40981493-40981494 58;11 K intron_retention CUFF.1153 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 chr5:140041764-140041798;chr5:140041887-140042066 852;12 N jcn_only_AA CUFF.1151 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 194;159 N alternative_first_exon CUFF.1142 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795958-128796175 chr5:128796795-128797450 26;11 N cassette CUFF.1151 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 17;30 N jcn_only_AD CUFF.1151 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 52;652 N jcn_only_AD CUFF.1161 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 27;22 N alternative_acceptor CUFF.1129 chr5 + chr5:56510021-56526672 chr5:56510021-56517202 chr5:56517203-56526672 chr5:56526672-56526673 30;1 N jcn_only_AA chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 254;99 K cassette CUFF.1155 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 40;206 K alternative_donor CUFF.1109,CUFF.1155 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 19;68 N jcn_only_AD CUFF.1128,CUFF.1165 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54578944-54579030 chr5:54579030-54579031 26;4 K alternative_last_exon CUFF.1161 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683082-162683276 61;190 N cassette CUFF.1140 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 29;111 K alternative_first_exon CUFF.1147 chr5 + chr5:134182554-134190587;chr5:134181903-134190587 chr5:134181428-134190587 chr5:134181904-134182553;chr5:134181761-134181902 chr5:134181370-134181427 113;11 K cassette CUFF.1165 chr5 - chr5:178047675-178050256 chr5:178047675-178049393;chr5:178049461-178050256 chr5:178049394-178049460 155;35 N cassette CUFF.1140 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 93;132 N alternative_acceptor CUFF.1151 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 136;95 N alternative_acceptor CUFF.1146 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131656558-131657876 chr5:131657876-131657877 74;4 N alternative_acceptor CUFF.1136 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 62;186 K intron_retention CUFF.1165 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 27;86 K alternative_acceptor CUFF.1128 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 39;8 N jcn_only_AA CUFF.1107 chr5 - chr5:466642-472793;chr5:471939-472793;chr5:472709-472793 chr5:472081-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2164;26 N jcn_only_AA CUFF.1151 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 39;690 K intron_retention CUFF.1127 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 64;97 K cassette CUFF.1165 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178047675-178050256 chr5:178046839-178047674 100;246 K jcn_only_AA CUFF.1153 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 chr5:140031299-140031391;chr5:140031673-140031732 2114;42 K alternative_acceptor CUFF.1165 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 45;103 K alternative_first_exon CUFF.1153 chr5 + chr5:140027748-140028055;chr5:140026895-140028055 chr5:140027510-140028055,chr5:140027593-140028055 chr5:140026643-140026894 chr5:140027281-140027509 chr5:140028056-140028122 203;1036 N alternative_donor CUFF.1146 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630703-131631314 chr5:131630702-131630703 57;12 K alternative_last_exon CUFF.1122 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 69;131 K intron_retention CUFF.1147 chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 18;9 K intron_retention CUFF.1147 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 31;103 K alternative_donor CUFF.1114,CUFF.1133 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 35;131 K jcn_only_AD CUFF.1142 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 4;38 K alternative_donor CUFF.1113,CUFF.1125 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 28;57 K intron_retention CUFF.1153 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 chr5:140040343-140040400;chr5:140041205-140041293 726;22 N alternative_donor CUFF.1132 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148758768-148783670 chr5:148783670-148783671 83;3 K alternative_first_exon CUFF.1136,CUFF.1159 chr5 - chr5:82969369-82969951,chr5:82969369-82970344,chr5:82969369-82978143;chr5:82969369-83016607 chr5:82969369-82971106 chr5:83016608-83017432 chr5:82971107-82971144 151;20 N jcn_only_AA CUFF.1148 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 44;106 K alternative_last_exon CUFF.1161 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465067-162465479 7;146 N jcn_only_AD CUFF.1132 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148758768-148783670 chr5:148783670-148783671 83;261 K intron_retention CUFF.1150 chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 169;118 N cassette CUFF.1140 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398065;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398066-127398192 227;52 K coord_cassette CUFF.1165 chr5 - chr5:178045780-178050256 chr5:178045780-178046838;chr5:178047675-178049393;chr5:178049461-178050256 chr5:178046839-178047674;chr5:178049394-178049460 100;39 K intron_retention CUFF.1165 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 121;85 N alternative_acceptor CUFF.1107 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 1986;32 K alternative_first_exon CUFF.1110 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2752799 chr5:2751279-2751776 22;29 N cassette CUFF.1163 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 120;1040 K cassette CUFF.1132 chr5 - chr5:60186914-60194102 chr5:60186914-60187863;chr5:60189471-60194102 chr5:60187864-60189470 132;110 K cassette CUFF.1160 chr5 - chr5:149785885-149786714 chr5:149785885-149786443;chr5:149786524-149786714 chr5:149786444-149786523 130;727 K jcn_only_AA CUFF.1161 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 40;157 N intron_retention CUFF.1127 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 55;39 N cassette CUFF.1140 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398061;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398062-127398192 227;79 N cassette CUFF.1128 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 52;11 K intron_retention chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 21;62 N alternative_acceptor CUFF.1107 chr5 - chr5:466642-472793;chr5:471939-472793;chr5:472709-472793 chr5:472081-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2015;3 K intron_retention CUFF.1150 chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 287;47 K alternative_donor CUFF.1132,CUFF.1165 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 45;78 K cassette CUFF.1114 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 77;20 N coord_cassette CUFF.1140 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 70;115 K alternative_last_exon CUFF.1137 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411107 chr5:121362637-121364314 23;19 N jcn_only_AA chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 7;21 N coord_cassette CUFF.1160 chr5 - chr5:149782876-149785821 chr5:149782876-149784242;chr5:149784331-149784647;chr5:149784744-149785821 chr5:149784243-149784330;chr5:149784648-149784743 24;168 K jcn_only_AA CUFF.1129,CUFF.1137 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 31;180 N jcn_only_AA CUFF.1107 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 210;1980 K jcn_only_AD CUFF.1114,CUFF.1132 chr5 - chr5:60199544-60200618 chr5:60199544-60200614 chr5:60200615-60200618 chr5:60200618-60200619 415;48 K jcn_only_AD CUFF.1133 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 98;45 K jcn_only_AD CUFF.1113,CUFF.1136 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705782-36705822 chr5:36705822-36705823 12;155 N jcn_only_AA CUFF.1151 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 12;23 K cassette CUFF.1160 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 353;525 K intron_retention CUFF.1160 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 1005;41 N jcn_only_AD CUFF.1163 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 12;1096 N jcn_only_AA CUFF.1117,CUFF.1156 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40980089-40981493 chr5:40981493-40981494 58;26 N alternative_acceptor CUFF.1107 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 38;1980 K alternative_first_exon CUFF.1132 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214435 277;173 K intron_retention CUFF.1133 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 35;32 N jcn_only_AA CUFF.1122,CUFF.1123 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52178712-52183646 chr5:52183646-52183647 28;10 N alternative_acceptor CUFF.1107 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2015;3 K cassette CUFF.1132 chr5 - chr5:60224787-60240758 chr5:60224787-60227933;chr5:60227976-60240758 chr5:60227934-60227975 243;24 K alternative_first_exon CUFF.1147 chr5 + chr5:134182554-134190587;chr5:134181428-134190587 chr5:134181903-134190587 chr5:134181904-134182553;chr5:134181370-134181427 chr5:134181761-134181902 111;13 K alternative_first_exon CUFF.1109,CUFF.1132 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60214092-60214215 chr5:60203107-60203173 245;41 K cassette CUFF.1125 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 64;87 N jcn_only_AA CUFF.1111 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 587;298 K alternative_acceptor CUFF.1121,CUFF.1129 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 51;87 K alternative_first_exon CUFF.1147 chr5 + chr5:134181428-134190587;chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181370-134181427;chr5:134181761-134181902 chr5:134181904-134182553 24;100 K jcn_only_AD CUFF.1114,CUFF.1133 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 35;127 K cassette CUFF.1111 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 260;1336 K jcn_only_AA CUFF.1165 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 45;51 K alternative_donor CUFF.1142 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 4;31 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 17;116 K jcn_only_AA CUFF.1113 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 22;148 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 53;67 K intron_retention CUFF.1155 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 196;13 K alternative_donor CUFF.1147 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 31;84 N alternative_acceptor CUFF.1148 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 44;6 K intron_retention CUFF.1163 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 195;902 K alternative_last_exon CUFF.1125 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54433334-54433464 98;43 K cassette CUFF.1155 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 264;144 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 18;268 N jcn_only_AA CUFF.1107 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466642-471938;chr5:471939-472080;chr5:472081-472708 chr5:466641-466642;chr5:471938-471939;chr5:472080-472081 2165;24 N alternative_last_exon chr5 + chr5:139909382-139916973 chr5:139909382-139914946 chr5:139916974-139917174 chr5:139914947-139915499 139;727 N alternative_donor CUFF.1142 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 14;2 K cassette CUFF.1133 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 166;149 K intron_retention CUFF.1133 chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 19;18 K alternative_acceptor CUFF.1129,CUFF.1137 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 31;140 K alternative_donor CUFF.1133 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 19;15 K jcn_only_AD CUFF.1132,CUFF.1165 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 45;40 N jcn_only_AA CUFF.1114 chr5 - chr5:37309370-37310653 chr5:37309675-37310653 chr5:37309370-37309674 chr5:37309369-37309370 16;9 K cassette CUFF.1132 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 240;93 N jcn_only_AA chr5 + chr5:36163859-36177066 chr5:36163859-36166620 472;216 K cassette CUFF.1132 chr5 - chr5:60199544-60214091 chr5:60199544-60200614;chr5:60200701-60214091 chr5:60200615-60200700 10;158 N alternative_acceptor CUFF.1151 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139918944-139921756 chr5:139921756-139921757 39;219 K cassette CUFF.1132 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 286;91 K intron_retention CUFF.1160 chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 314;144 K cassette CUFF.1133 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 66;205 N alternative_acceptor CUFF.1123 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52162872-52177704 chr5:52177704-52177705 68;2 N alternative_acceptor CUFF.1111 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36181920-36183941 chr5:36183941-36183942 587;182 K alternative_last_exon CUFF.1140 chr5 - chr5:127396337-127396835;chr5:127292614-127396835;chr5:127359991-127396835 chr5:127302621-127396835 chr5:127292496-127292613;chr5:127359726-127359990 chr5:127302271-127302620 305;131 N intron_retention CUFF.1151 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 448;197 N alternative_acceptor chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 186;45 K jcn_only_AD CUFF.1133 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 19;19 K cassette CUFF.1153 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 chr5:140028056-140028122;chr5:140031299-140031391 887;793 N jcn_only_AD CUFF.1156 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616996-145631438 chr5:145616995-145616996 4;3 N alternative_acceptor CUFF.1121,CUFF.1151 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 86;308 K jcn_only_AA CUFF.1087 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 24;43 N cassette CUFF.1051 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 32;45 K jcn_only_AA CUFF.1091 chr4 - chr4:99405593-99407888 chr4:99405750-99407888 chr4:99405593-99405749 chr4:99405592-99405593 26;112 K jcn_only_AD CUFF.1081 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 26;4 N alternative_donor CUFF.1096 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 137;1 K jcn_only_AA CUFF.1102 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 26;3 N jcn_only_AD CUFF.1083 chr4 - chr4:77987559-77996624;chr4:77987559-77996251 chr4:77987559-77995942 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 760;29 N alternative_acceptor chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 35;507 K cassette CUFF.1056 chr4 - chr4:1705428-1713856 chr4:1705428-1713600;chr4:1713718-1713856 chr4:1713601-1713717 chr4:1705323-1705427;chr4:1713857-1714349 41;88 K cassette CUFF.1060 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 20;177 N alternative_acceptor CUFF.1096 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 148;1 N alternative_donor CUFF.1062 chr4 + chr4:7008454-7011603 chr4:7009353-7011603 chr4:7008454-7009352 chr4:7008453-7008454 54;8 K alternative_first_exon CUFF.1088 chr4 - chr4:83819216-83821229 chr4:83819216-83820865 chr4:83821230-83821430 chr4:83820866-83820890 65;100 K intron_retention CUFF.1059 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 30;32 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 41;44 K jcn_only_AA CUFF.1071 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 210;243 K alternative_first_exon CUFF.1062 chr4 + chr4:6911679-6925099;chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910969-6911232 chr4:6912217-6912328 268;46 N jcn_only_AD CUFF.1099 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 23;9 K alternative_donor CUFF.1104 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 31;8 K alternative_last_exon CUFF.1069 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152522-36152666 chr4:36159052-36159172 49;23 N jcn_only_AA CUFF.1062 chr4 + chr4:7008454-7011603 chr4:7008454-7009250 chr4:7009251-7011603 chr4:7011603-7011604 54;82 K cassette CUFF.1071 chr4 + chr4:37839236-37841469 chr4:37839236-37841138;chr4:37841306-37841469 chr4:37841139-37841305 9;162 K intron_retention CUFF.1073 chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 45;109 N alternative_donor CUFF.1062 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 25;0 K intron_retention CUFF.1057 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 216;35 N alternative_acceptor chr4 - chr4:152147239-152148911 chr4:152147393-152148911 chr4:152147239-152147392 chr4:152147238-152147239 2;8 K intron_retention CUFF.1066 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 194;45 K alternative_acceptor CUFF.1057 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 16;235 N jcn_only_AD CUFF.1062 chr4 + chr4:6925839-6969030 chr4:6956066-6969030 chr4:6925839-6956065 chr4:6925838-6925839 25;4 K jcn_only_AD CUFF.1080,CUFF.1081 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 58;130 K alternative_first_exon CUFF.1064 chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11431049-11431389 chr4:11430087-11430290 33;140 N alternative_acceptor CUFF.1086 chr4 + chr4:81115394-81117505 chr4:81115394-81117166 chr4:81117167-81117505 chr4:81117505-81117506 174;22 K intron_retention CUFF.1091 chr4 - chr4:99403327-99405535 chr4:99403326-99403327;chr4:99405535-99405536 26;30 K cassette CUFF.1066 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 111;166 N cassette CUFF.1093 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 6;383 K alternative_acceptor CUFF.1054 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 19;31 N alternative_donor chr4 - chr4:77987559-77996251;chr4:77987559-77995942 chr4:77987559-77996624 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 189;478 K alternative_acceptor CUFF.1091 chr4 - chr4:99405593-99407888 chr4:99405750-99407888 chr4:99405593-99405749 chr4:99405592-99405593 26;78 K alternative_last_exon CUFF.1098 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240604-142241054 chr4:142242279-142242535 26;59 N jcn_only_AA CUFF.1099 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 23;15 K cassette CUFF.1060 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 19;226 N cassette CUFF.1099 chr4 - chr4:152065203-152069073 chr4:152065203-152065371;chr4:152065441-152069073 chr4:152065372-152065440 69;40 K cassette CUFF.1072 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 403;218 K jcn_only_AA CUFF.1091 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 11;293 N jcn_only_AA CUFF.1094 chr4 + chr4:120419059-120433505;chr4:120419059-120419901 chr4:120419059-120420715 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 145;18 K intron_retention CUFF.1057 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 281;183 N jcn_only_AA CUFF.1104 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 41;35 N alternative_donor chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 19;251 N jcn_only_AA CUFF.1059 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 285;20 K intron_retention CUFF.1057 chr4 - chr4:2932878-2932953 chr4:2932877-2932878;chr4:2932953-2932954 343;46 K alternative_donor CUFF.1082 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 10;76 K alternative_donor CUFF.1080 chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 2;106 K intron_retention CUFF.1057 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 236;115 N jcn_only_AA CUFF.1086 chr4 + chr4:81115394-81117505 chr4:81115394-81117166 chr4:81117167-81117505 chr4:81117505-81117506 174;71 N alternative_acceptor CUFF.1094 chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 34;284 K alternative_first_exon CUFF.1099,CUFF.1102 chr4 - chr4:152147239-152147319,chr4:152147239-152148911;chr4:152147239-152246392 chr4:152147239-152187237 chr4:152246393-152246793 chr4:152187238-152187469 121;45 N jcn_only_AD CUFF.1083 chr4 - chr4:77987559-77996624;chr4:77987559-77995942 chr4:77987559-77996251 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 507;282 N alternative_donor CUFF.1061 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 146;1 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 31;129 N cassette CUFF.1061 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 18;391 K alternative_last_exon CUFF.1082,CUFF.1097 chr4 + chr4:77184997-77230296 chr4:77184997-77189812 chr4:77230297-77232281 chr4:77189813-77189966 57;118 N alternative_donor CUFF.1059 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 285;25 N alternative_acceptor CUFF.1083 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 105;77 K jcn_only_AD CUFF.1082 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 10;110 K cassette CUFF.1082 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 101;11 K jcn_only_AD CUFF.1096 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 38;58 K cassette CUFF.1102 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 39;30 K cassette CUFF.1079 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 51;27 K alternative_first_exon CUFF.1094 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120433968-120434075 chr4:120434080-120434125 575;76 K cassette CUFF.1056 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 chr4:1701738-1701797;chr4:1713601-1713654 115;123 N alternative_acceptor CUFF.1094 chr4 + chr4:120419059-120433505;chr4:120419059-120420715 chr4:120419059-120419901 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 130;3 K jcn_only_AD CUFF.1061,CUFF.1088 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 29;480 N alternative_donor CUFF.1094 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 37;128 N jcn_only_AA CUFF.1094 chr4 + chr4:120419059-120433505;chr4:120419059-120420715 chr4:120419059-120419901 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 145;18 N alternative_donor CUFF.1094 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 211;1 K intron_retention CUFF.1059 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 123;42 N alternative_acceptor CUFF.1099 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 23;8 N jcn_only_AA CUFF.1083 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 105;645 K alternative_donor CUFF.1091 chr4 - chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549 chr4:99405549-99405550 60;19 N alternative_acceptor CUFF.1094 chr4 + chr4:120419059-120433505;chr4:120419059-120419901 chr4:120419059-120420715 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 130;3 K alternative_last_exon CUFF.1065 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 98;81 K intron_retention CUFF.1076 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 201;13 K cassette CUFF.1094 chr4 + chr4:120449945-120471533 chr4:120449945-120464907;chr4:120465001-120471533 chr4:120464908-120465000 1226;78 K alternative_last_exon CUFF.1067 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059592-36059765 chr4:36067623-36069900 41;24 K alternative_donor CUFF.1061,CUFF.1088 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 29;270 K jcn_only_AA CUFF.1079 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 120;38 N alternative_acceptor CUFF.1062 chr4 + chr4:7008454-7011603 chr4:7008454-7009250 chr4:7009251-7011603 chr4:7011603-7011604 54;6 N jcn_only_AD CUFF.1073 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 143;5 K alternative_first_exon CUFF.1072,CUFF.1088 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502948 chr4:56502248-56502516 76;385 K jcn_only_AA CUFF.1097 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 10;49 K cassette CUFF.1080 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 118;56 K alternative_acceptor CUFF.1091 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 11;149 N cassette CUFF.1099 chr4 - chr4:152080505-152095821 chr4:152080505-152086740;chr4:152086849-152095821 chr4:152086741-152086848 13;58 N alternative_acceptor CUFF.1094 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 211;1 N coord_cassette CUFF.1086 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 20;109 N jcn_only_AD chr4 - chr4:77987559-77996251;chr4:77987559-77995942 chr4:77987559-77996624 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 311;478 K jcn_only_AA CUFF.1080 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 2;73 N jcn_only_AA CUFF.1073 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 143;3 K jcn_only_AD CUFF.1091 chr4 - chr4:99403327-99405549 chr4:99403327-99405535 chr4:99405536-99405549 chr4:99405549-99405550 60;26 K cassette CUFF.1057 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 151;227 N jcn_only_AD chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245231-36245312 chr4:36245312-36245313 19;323 N jcn_only_AA CUFF.1094 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 404;36 K alternative_first_exon CUFF.1073 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57301907-57302094 chr4:57302096-57302141 72;36 K intron_retention CUFF.1077 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 48;117 N jcn_only_AD CUFF.1061 chr4 - chr4:6537105-6565286 chr4:6537105-6557260 chr4:6557261-6565286 chr4:6565286-6565287 146;21 N alternative_donor chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 37;187 K jcn_only_AD CUFF.1067 chr4 - chr4:36014454-36047600 chr4:36014454-36017007 17;71 N jcn_only_AD CUFF.1094 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 37;261 K cassette CUFF.1060 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 242;16 N alternative_first_exon CUFF.1067,CUFF.1088 chr4 - chr4:83816928-83820865;chr4:83816928-83819141 chr4:83816928-83821229 chr4:83820866-83820890;chr4:83819142-83819215 chr4:83821230-83821430 67;27 K intron_retention CUFF.1071 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 381;132 N jcn_only_AD CUFF.1077 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 150;18 N jcn_only_AD CUFF.1064 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 23;29 N jcn_only_AD chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 37;394 N cassette CUFF.1083 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 63;647 N jcn_only_AA chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 35;570 K alternative_donor CUFF.1096 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 38;29 N alternative_acceptor chr4 + chr4:120419059-120420715;chr4:120419059-120419901 chr4:120419059-120433505 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 6;127 K intron_retention CUFF.1061 chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 67;47 N alternative_donor CUFF.1077 chr4 - chr4:69071816-69083623 chr4:69071816-69078079 chr4:69078080-69083623 chr4:69083623-69083624 150;1 N alternative_donor CUFF.1066 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 35;8 K intron_retention CUFF.1057 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 296;140 N jcn_only_AA CUFF.1066 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 307;64 K cassette CUFF.1059 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 26;113 N jcn_only_AA CUFF.1094 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 211;30 K alternative_first_exon CUFF.1075 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774985-57775205 chr4:57775357-57775753 531;111 N jcn_only_AD CUFF.1066 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 35;29 K alternative_donor CUFF.1104 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 19;52 N jcn_only_AA CUFF.1051 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 22;91 K intron_retention CUFF.1057 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 151;185 N alternative_acceptor CUFF.1094 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 404;25 N jcn_only_AD CUFF.1062 chr4 + chr4:7008454-7011603 chr4:7009353-7011603 chr4:7008454-7009352 chr4:7008453-7008454 54;55 N alternative_donor CUFF.1062 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 27;0 K intron_retention CUFF.1091 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 314;42 K intron_retention CUFF.1088 chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 48;32 N cassette CUFF.1051 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 122;126 N jcn_only_AD CUFF.1062 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969152-6989076 chr4:6969151-6969152 27;11 K jcn_only_AD CUFF.1080 chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 2;124 K alternative_first_exon CUFF.1065 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821680-13821895 33;124 K intron_retention CUFF.1073 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 44;111 K intron_retention CUFF.1057 chr4 - chr4:2932878-2933281 chr4:2932877-2932878;chr4:2933281-2933282 12;100 N jcn_only_AD CUFF.1059 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3956687-3957050 chr4:3957050-3957051 285;77 N jcn_only_AA chr4 + chr4:120419059-120420715;chr4:120419059-120419901 chr4:120419059-120433505 chr4:120419902-120420715;chr4:120420716-120433505 chr4:120420715-120420716;chr4:120433505-120433506 36;127 K cassette CUFF.1083 chr4 - chr4:77979789-77996624 chr4:77979789-77987401;chr4:77987559-77996624 chr4:77987402-77987558 124;575 N alternative_acceptor CUFF.1051 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 22;45 N alternative_donor chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120116866-120133681 chr4:120133681-120133682 11;6 K intron_retention chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 42;31 N alternative_donor CUFF.1073 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 143;5 K cassette CUFF.1072 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 355;203 K intron_retention CUFF.1088 chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 29;78 N jcn_only_AA CUFF.1096 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124784730-124846338 chr4:124846338-124846339 148;15 K alternative_last_exon CUFF.1057 chr4 - chr4:2932878-2933281 chr4:2933193-2933281 chr4:2932288-2932877 chr4:2933102-2933192 15;190 N jcn_only_AA chr4 - chr4:647349-647546 chr4:647473-647546 34;20 K coord_cassette CUFF.1091 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 84;22 K alternative_first_exon CUFF.1061 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6473886 chr4:6382822-6383503 chr4:6536998-6537104;chr4:6473887-6474207 chr4:6383504-6383597 307;45 N alternative_donor CUFF.1099 chr4 - chr4:152096827-152097685 chr4:152096827-152097676 chr4:152097677-152097685 chr4:152097685-152097686 23;4 N cassette CUFF.1059 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 20;86 K cassette CUFF.1066 chr4 + chr4:20525801-20530571 chr4:20525801-20526771;chr4:20526796-20530571 chr4:20526772-20526795 10;19 K jcn_only_AA CUFF.1054 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 19;58 K alternative_first_exon CUFF.1051 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640,chr4:645547-647640;chr4:629759-647640 chr4:647497-647640 chr4:629669-629758 chr4:647398-647496 419;464 N jcn_only_AA CUFF.1066 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 35;32 N jcn_only_AA CUFF.1094 chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 95;13 N alternative_acceptor CUFF.1059 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 285;3 N jcn_only_AA CUFF.1066 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 2;17 K cassette CUFF.1072 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 185;325 K alternative_acceptor CUFF.1087 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 24;30 N jcn_only_AA chr4 - chr4:152147239-152148911 chr4:152147393-152148911 chr4:152147239-152147392 chr4:152147238-152147239 2;22 N jcn_only_AA CUFF.1057 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 35;303 K alternative_last_exon CUFF.1054,CUFF.1104 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186290995 chr4:186284539-186285125 24;75 N alternative_first_exon CUFF.1088 chr4 - chr4:83816928-83821229;chr4:83816928-83819141 chr4:83816928-83820865 chr4:83821230-83821430;chr4:83819142-83819215 chr4:83820866-83820890 63;31 K jcn_only_AA CUFF.1080 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 98;91 K alternative_acceptor CUFF.1079 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 120;39 N jcn_only_AA chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 48;18 K jcn_only_AA CUFF.1057 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 16;382 K intron_retention CUFF.1098 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 28;29 K alternative_first_exon CUFF.1086 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81105033-81105209 chr4:81106508-81106672 25;160 N alternative_acceptor CUFF.1057 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 31;190 K cassette CUFF.1088 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83821229 chr4:83816845-83816927 35;32 K intron_retention CUFF.1103 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 21;72 K alternative_last_exon CUFF.1100 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143620-153143911 46;83 N alternative_donor CUFF.1083 chr4 - chr4:77987559-77996624;chr4:77987559-77995942 chr4:77987559-77996251 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 494;173 K coord_cassette CUFF.1072 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 185;163 K alternative_last_exon CUFF.1102 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416284-162416632 38;114 K mutually_exclusive CUFF.1072 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 125;75 K cassette CUFF.1099 chr4 - chr4:152100550-152108574 chr4:152100550-152102840;chr4:152102882-152108574 chr4:152102841-152102881 139;35 K cassette CUFF.1082 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 158;10 N jcn_only_AA CUFF.1077 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 150;36 N alternative_donor CUFF.1083 chr4 - chr4:77987559-77996624;chr4:77987559-77996251 chr4:77987559-77995942 chr4:77995943-77996251;chr4:77996252-77996624 chr4:77996251-77996252;chr4:77996624-77996625 651;16 K intron_retention CUFF.1088 chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 480;38 K alternative_first_exon CUFF.1061 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6536997;chr4:6382822-6383503 chr4:6382822-6473886 chr4:6536998-6537104;chr4:6383504-6383597 chr4:6473887-6474207 226;126 K alternative_first_exon CUFF.1104 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131238-186131409 11;49 K coord_cassette CUFF.1072 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 262;71 N alternative_donor CUFF.1066 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 2;1 N jcn_only_AD chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85417646-85418711 chr4:85418711-85418712 7;7 K intron_retention CUFF.1051 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 197;63 K cassette CUFF.1081 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 17;28 N alternative_first_exon CUFF.1088 chr4 - chr4:83816928-83820865;chr4:83816928-83821229 chr4:83816928-83819141 chr4:83820866-83820890;chr4:83821230-83821430 chr4:83819142-83819215 58;36 N jcn_only_AA CUFF.1057 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 31;216 K cassette CUFF.1079 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 79;36 K cassette CUFF.1104 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 64;48 K alternative_acceptor CUFF.1102 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 26;2 K intron_retention CUFF.1094 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 127;171 K intron_retention CUFF.1057 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 249;231 N jcn_only_AD chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120116866-120133681 chr4:120133681-120133682 11;197 N cassette CUFF.1102 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 7;35 K cassette CUFF.1091 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 314;91 N alternative_acceptor chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 48;3 K intron_retention CUFF.1088 chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 35;37 K intron_retention CUFF.1091 chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 26;41 N jcn_only_AD CUFF.1094 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 211;132 N alternative_donor chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85417646-85418711 chr4:85418711-85418712 7;6 K intron_retention CUFF.1093 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 454;14 N jcn_only_AA CUFF.1094 chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 34;68 K alternative_last_exon CUFF.1070 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195200-36195269 chr4:36210991-36211036 32;29 K jcn_only_AA CUFF.1067 chr4 - chr4:36014454-36047600 chr4:36020909-36047600 17;40 N cassette CUFF.1094 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 285;74 K jcn_only_AD CUFF.1104 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 19;82 N alternative_acceptor CUFF.1077 chr4 - chr4:69071816-69083623 chr4:69078196-69083623 chr4:69071816-69078195 chr4:69071815-69071816 150;1 N alternative_acceptor CUFF.1066 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 35;0 K cassette CUFF.1059 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 88;112 N jcn_only_AD CUFF.1096 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582989-124695530 chr4:124582988-124582989 137;12 K intron_retention CUFF.1091 chr4 - chr4:99403327-99405549 chr4:99403326-99403327;chr4:99405549-99405550 60;30 N alternative_acceptor CUFF.1104 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 41;28 K alternative_first_exon CUFF.1104 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209166-186209236 chr4:186216941-186217184 15;63 K cassette CUFF.1072 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 105;710 N alternative_acceptor CUFF.1066 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 2;2 K alternative_first_exon CUFF.1066 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256464-20256698 4;185 N alternative_acceptor CUFF.1057 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 35;148 N alternative_acceptor CUFF.1094 chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 95;0 K alternative_first_exon CUFF.1061,CUFF.1102 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162680563-162680683 chr4:162585968-162586076 27;35 K intron_retention CUFF.1056 chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 chr4:1713601-1713654;chr4:1713928-1714349 53;81 N cassette CUFF.1059 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 66;38 N intron_retention chr4 - chr4:77977254-77987401 chr4:77977253-77977254;chr4:77987401-77987402 105;20 N jcn_only_AD CUFF.1066 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 2;15 N alternative_acceptor CUFF.1073 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 143;1 K coord_cassette CUFF.1071 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 86;189 K alternative_first_exon CUFF.1061 chr4 - chr4:6382822-6415629,chr4:6382822-6473290,chr4:6382822-6525169;chr4:6382822-6473886;chr4:6382822-6383503 chr4:6382822-6536997 chr4:6473887-6474207;chr4:6383504-6383597 chr4:6536998-6537104 259;93 K alternative_first_exon CUFF.1060,CUFF.1091 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6201980-6202282 chr4:6196218-6196413 79;83 K alternative_last_exon CUFF.1097 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849886 chr4:130829789-130829858 42;7 K cassette CUFF.1071 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 126;229 N coord_cassette CUFF.1059 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 66;60 K mutually_exclusive CUFF.1056 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 chr4:1701738-1701797;chr4:1713857-1714349 66;40 N coord_cassette CUFF.1059 chr4 - chr4:3945100-3949816 chr4:3945100-3948495;chr4:3948645-3949468;chr4:3949735-3949816 chr4:3948496-3948644;chr4:3949469-3949734 20;70 K intron_retention CUFF.1091 chr4 - chr4:99405750-99407888 chr4:99405749-99405750;chr4:99407888-99407889 112;24 N alternative_acceptor CUFF.1066 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20554051-20555427 chr4:20555427-20555428 307;20 K jcn_only_AD CUFF.1104 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 31;12 K cassette CUFF.1091 chr4 - chr4:99403327-99407888 chr4:99403327-99405535;chr4:99405593-99407888 chr4:99405536-99405592 314;23 N alternative_acceptor chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 13;41 K cassette CUFF.1029 chr3 + chr3:132948196-133098595 chr3:132948196-133097185;chr3:133097401-133098595 chr3:133097186-133097400 386;131 K intron_retention CUFF.979 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 245;74 N jcn_only_AD CUFF.983 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 161;31 K alternative_first_exon CUFF.1024,CUFF.1037 chr3 - chr3:156271571-156272525;chr3:156271571-156271781 chr3:156271571-156272745 chr3:156272526-156272678;chr3:156271782-156271971 chr3:156272746-156272973 156;77 N jcn_only_AD chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125075820 chr3:125050083-125093945 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 150;326 K jcn_only_AA CUFF.992 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 808;37 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27257989 17;121 N jcn_only_AD chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 chr3:127313643-127313776;chr3:127317039-127317158 62;641 N alternative_acceptor CUFF.1046 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 235;3 N jcn_only_AA CUFF.1046 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 235;28 K alternative_first_exon CUFF.990 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49331840-49332031 chr3:49330979-49331084 356;108 N intron_retention chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 171;82 K alternative_last_exon CUFF.1024 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743646-125743748 266;729 K alternative_last_exon CUFF.1026 chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126142168-126142219 chr3:126139473-126139690 303;229 K cassette CUFF.978 chr3 - chr3:33454320-33458249 chr3:33454320-33457497;chr3:33457593-33458249 chr3:33457498-33457592 63;14 K alternative_last_exon CUFF.993,CUFF.999 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501781 30;406 N alternative_last_exon CUFF.971 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203761-27204092 41;233 K alternative_first_exon CUFF.993 chr3 + chr3:51743450-51746488 chr3:51745736-51746488 chr3:51742864-51743449 chr3:51745243-51745735 133;121 N cassette CUFF.1029 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 219;26 N alternative_acceptor CUFF.1007 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 216;4 N alternative_donor CUFF.971 chr3 - chr3:133894884-133901845 chr3:133894884-133896784 chr3:133896785-133901845 chr3:133901845-133901846 182;120 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 63;428 K jcn_only_AD CUFF.1008,CUFF.1021 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 520;112 N alternative_donor CUFF.1040 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 165;8 N jcn_only_AD CUFF.971 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 259;22 N jcn_only_AD CUFF.971 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 207;160 N jcn_only_AD CUFF.1037 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 384;32 N cassette CUFF.979 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 26;229 N jcn_only_AA CUFF.979 chr3 - chr3:33612185-33612218;chr3:33605459-33612218 chr3:33602464-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 8;35 K cassette CUFF.970 chr3 - chr3:25657078-25660144 chr3:25657078-25659908;chr3:25660001-25660144 chr3:25659909-25660000 chr3:25656922-25657077;chr3:25660145-25660340 39;357 N alternative_acceptor CUFF.979 chr3 - chr3:33673867-33686248;chr3:33686054-33686248 chr3:33673864-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 98;788 K alternative_first_exon CUFF.971 chr3 - chr3:27394411-27405177,chr3:27394411-27409013;chr3:27394411-27410715 chr3:27394411-27410521 chr3:27410716-27410994 chr3:27410522-27410704 74;37 N alternative_donor CUFF.1021 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 329;0 N alternative_acceptor CUFF.1007 chr3 - chr3:107576050-107586157;chr3:107578109-107586157 chr3:107585601-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 422;1 K cassette CUFF.1038 chr3 - chr3:165491295-165503932 chr3:165491295-165495504;chr3:165495584-165503932 chr3:165495505-165495583 354;42 N alternative_acceptor CUFF.988 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 361;1 N alternative_acceptor CUFF.971 chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 65;0 N alternative_donor CUFF.1021,CUFF.1027 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 70;1 N jcn_only_AD CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 627;21 N alternative_donor CUFF.1021 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 398;134 K intron_retention CUFF.1026 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 380;45 N cassette CUFF.1007 chr3 - chr3:107567966-107572719 chr3:107567966-107568669;chr3:107568819-107572719 chr3:107568670-107568818 252;64 N cassette CUFF.1027 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 chr3:127294028-127294108;chr3:127294783-127294893 136;204 K intron_retention CUFF.1007 chr3 - chr3:107574077-107574159 chr3:107574076-107574077;chr3:107574159-107574160 105;32 N jcn_only_AD CUFF.1037 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 300;32 K intron_retention CUFF.983 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 294;87 N jcn_only_AD CUFF.1021 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 424;52 K alternative_donor CUFF.1011 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 272;202 K intron_retention CUFF.978 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 45;52 N intron_retention CUFF.1021 chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 47;143 K alternative_last_exon CUFF.1020 chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122928046-122928246 chr3:122880727-122880951 149;70 N cassette CUFF.1029 chr3 + chr3:132948196-133109023 chr3:132948196-133098595;chr3:133100006-133109023 chr3:133098596-133100005 36;318 N alternative_donor CUFF.973 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 496;224 K intron_retention CUFF.973 chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 428;189 N alternative_acceptor CUFF.967 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 314;5 N alternative_acceptor CUFF.1026 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 343;211 N jcn_only_AA CUFF.967 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 484;113 N alternative_donor CUFF.971 chr3 - chr3:27233734-27243000;chr3:27233734-27235551 chr3:27233734-27236027 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 244;2 N coord_cassette CUFF.1007 chr3 - chr3:107586273-107596159 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596159 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 135;42 N intron_retention chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 20;38 N alternative_acceptor CUFF.971 chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 65;0 N alternative_acceptor CUFF.1027 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 chr3:127313643-127313776;chr3:127298865-127299006 745;8 N jcn_only_AA CUFF.1007 chr3 - chr3:107576050-107586157;chr3:107578109-107586157 chr3:107585601-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 449;30 N alternative_acceptor CUFF.990 chr3 - chr3:49354912-49362134;chr3:49349088-49362134 chr3:49350047-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 180;27 K intron_retention CUFF.1007 chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 47;68 K cassette CUFF.1007 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 257;158 N jcn_only_AA CUFF.971 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 95;28 K jcn_only_AA CUFF.995 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 286;17 K jcn_only_AA CUFF.1017 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 19;115 K intron_retention CUFF.1027 chr3 - chr3:127294349-127294591 chr3:127294348-127294349;chr3:127294591-127294592 chr3:127294246-127294348;chr3:127294592-127294652 140;49 N alternative_donor CUFF.1021 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 138;0 N jcn_only_AD CUFF.973 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 448;31 N mutually_exclusive CUFF.1034 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 9;68 N alternative_donor CUFF.1037 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 151;85 N alternative_first_exon chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49362135-49362196 chr3:49355742-49356277 44;23 N alternative_acceptor CUFF.1007 chr3 - chr3:107585601-107586157;chr3:107578109-107586157 chr3:107576050-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 3;420 N jcn_only_AD CUFF.979,CUFF.994 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 44;26 K alternative_donor CUFF.1011 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 332;142 K intron_retention CUFF.1015 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 105;109 N jcn_only_AA CUFF.1007 chr3 - chr3:107585601-107586157;chr3:107576050-107586157 chr3:107578109-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 450;29 N cassette CUFF.1034 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 151;309 N jcn_only_AD CUFF.1024 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 2111;24 K cassette CUFF.988 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 54;117 N cassette CUFF.971 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 162;14 N cassette CUFF.1034 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 599;348 K alternative_first_exon CUFF.987 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730633 chr3:45729868-45730374 30;39 N jcn_only_AD CUFF.988 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 17;426 N alternative_donor chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 358;1245 K intron_retention CUFF.992 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 219;817 N jcn_only_AD CUFF.973 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 459;20 N alternative_donor CUFF.979 chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 103;39 N alternative_donor CUFF.1024 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 1505;103 N coord_cassette CUFF.1046 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 26;251 N jcn_only_AD CUFF.967 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 113;67 K cassette CUFF.978 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 52;82 N intron_retention chr3 - chr3:125787090-125802771 chr3:125787089-125787090;chr3:125802771-125802772 19;90 K cassette CUFF.1003 chr3 - chr3:93646252-93692517 chr3:93646252-93647545;chr3:93647642-93692517 chr3:93647546-93647641 chr3:93646094-93646251;chr3:93692518-93692910 12;146 N mutually_exclusive CUFF.1034 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 9;68 N intron_retention chr3 + chr3:49460959-49461733 chr3:49460958-49460959;chr3:49461733-49461734 101;955 N jcn_only_AA CUFF.979 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 44;79 N intron_retention chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 358;1295 N alternative_acceptor CUFF.979 chr3 - chr3:33612185-33612218;chr3:33605459-33612218 chr3:33602464-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 0;35 N jcn_only_AA CUFF.1020 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 29;35 N alternative_donor CUFF.979 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 35;0 N alternative_donor CUFF.1024 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 1594;14 K alternative_last_exon CUFF.1029,CUFF.1031 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 45;59 K coord_cassette CUFF.1013 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 358;58 K alternative_acceptor CUFF.1017 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 19;57 N alternative_acceptor CUFF.971 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 315;1 N cassette CUFF.1046 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 4;398 N coord_cassette CUFF.1046 chr3 + chr3:186756662-186769036 chr3:186756662-186759704;chr3:186759755-186760441;chr3:186761099-186769036 chr3:186759705-186759754;chr3:186760442-186761098 4;230 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 652;1483 K alternative_last_exon CUFF.978 chr3 - chr3:33437773-33438536 chr3:33438371-33438536 chr3:33437654-33437772 chr3:33438064-33438370 39;94 N jcn_only_AA CUFF.990 chr3 - chr3:49354912-49362134;chr3:49349088-49362134 chr3:49350047-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 188;12 K intron_retention chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 416;80 N alternative_donor CUFF.1046 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 235;2 N cassette CUFF.1027 chr3 - chr3:127299007-127309725 chr3:127299007-127309252;chr3:127309436-127309725 chr3:127309253-127309435 chr3:127298865-127299006;chr3:127309726-127309815 18;230 K alternative_last_exon CUFF.1008 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474506-108474752 230;120 K alternative_first_exon CUFF.998 chr3 - chr3:73453547-73523605,chr3:73453547-73618301,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73482789 chr3:73453547-73605850 chr3:73610602-73610806;chr3:73482790-73483090 chr3:73605851-73606139 418;50 N jcn_only_AA CUFF.990 chr3 - chr3:49354912-49362134;chr3:49350047-49362134 chr3:49349088-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 70;129 N cassette CUFF.979 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 69;110 N jcn_only_AA CUFF.1034 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 259;163 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 20;261 N alternative_acceptor CUFF.979 chr3 - chr3:33592888-33600798 chr3:33600668-33600798 chr3:33592888-33600667 chr3:33592887-33592888 44;14 N cassette CUFF.979 chr3 - chr3:33614847-33617660 chr3:33614847-33615964;chr3:33615989-33617660 chr3:33615965-33615988 131;370 K coord_cassette CUFF.1017 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 105;62 N jcn_only_AD CUFF.979 chr3 - chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700998 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 786;39 N alternative_donor CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 133;9 K alternative_first_exon CUFF.998 chr3 - chr3:73453547-73523605,chr3:73453547-73618301,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73605850 chr3:73453547-73482789 chr3:73610602-73610806;chr3:73605851-73606139 chr3:73482790-73483090 123;345 N jcn_only_AD CUFF.971 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 44;605 N jcn_only_AD CUFF.999 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 20;346 N jcn_only_AA CUFF.967 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 552;45 N jcn_only_AD CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686494 chr3:33686396-33686773 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 599;226 N jcn_only_AA CUFF.1007 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 47;240 N jcn_only_AA CUFF.971 chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 16;65 N jcn_only_AA CUFF.967 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 575;22 N jcn_only_AD CUFF.1046 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 235;34 N alternative_acceptor CUFF.967 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 104;215 N jcn_only_AD CUFF.973 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 133;63 N jcn_only_AD CUFF.1024 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 2068;67 N jcn_only_AD CUFF.1024 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 2104;31 N jcn_only_AD CUFF.983 chr3 - chr3:38061844-38070996;chr3:38061844-38065646 chr3:38061844-38065827 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 339;29 N cassette CUFF.1024 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 1332;2917 N alternative_donor CUFF.971 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 245;1 K jcn_only_AD CUFF.1010 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 61;46 K coord_cassette CUFF.1007 chr3 - chr3:107586425-107596748 chr3:107586425-107591172;chr3:107591328-107591814;chr3:107591874-107594976;chr3:107595034-107596748 chr3:107591173-107591327;chr3:107591815-107591873;chr3:107594977-107595033 67;128 N jcn_only_AD CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 768;57 N alternative_donor CUFF.1021 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 95;43 K alternative_first_exon CUFF.993 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741022-51741183 chr3:51741355-51741670 43;68 N jcn_only_AD CUFF.1024 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 2097;37 N jcn_only_AA CUFF.971 chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 70;12 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 5;8 K alternative_first_exon CUFF.990 chr3 - chr3:49349088-49351303;chr3:49349088-49362134 chr3:49349088-49355741 chr3:49362135-49362196 chr3:49355742-49356277 121;156 K alternative_first_exon CUFF.967 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19988534-19989013 chr3:19989238-19989355 371;14 K jcn_only_AD CUFF.1011 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 20;79 K intron_retention CUFF.965 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 500;64 N jcn_only_AA CUFF.979 chr3 - chr3:33673864-33686248;chr3:33686054-33686248 chr3:33673867-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 795;191 N mutually_exclusive CUFF.1024 chr3 - chr3:125752522-125786789,chr3:125787090-125820271 chr3:125752522-125769785,chr3:125769894-125820271 chr3:125786790-125787089 chr3:125769786-125769893 223;201 K intron_retention CUFF.1035 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 204;19 K intron_retention CUFF.1011 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 20;39 K coord_cassette CUFF.1017 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 105;58 K alternative_first_exon CUFF.1029 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757156-132757279 chr3:132760603-132760699 155;107 N jcn_only_AD CUFF.1021 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 402;74 N alternative_donor CUFF.1024 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 1607;1 N jcn_only_AD chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 571;57 K intron_retention CUFF.992 chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 37;86 N coord_cassette CUFF.1007 chr3 - chr3:107586425-107596748 chr3:107586425-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 67;42 K intron_retention CUFF.978 chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 19;8 N alternative_donor chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125075820 chr3:125050083-125093945 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 3;326 K coord_cassette CUFF.1034 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 580;357 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 389;428 N jcn_only_AD CUFF.1021 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 180;43 N jcn_only_AA CUFF.988 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 361;89 K cassette CUFF.1007 chr3 - chr3:107574077-107575926 chr3:107574077-107574159;chr3:107574273-107575926 chr3:107574160-107574272 461;82 K jcn_only_AD CUFF.1031 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 122;35 N jcn_only_AD CUFF.1021,CUFF.1027 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 70;42 N coord_cassette CUFF.1034 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 39;115 N alternative_acceptor chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 182;15 N cassette CUFF.1007 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 167;338 N alternative_donor CUFF.967 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 113;3 K alternative_first_exon CUFF.1022 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635463-125635562 chr3:125635563-125635660 570;45 N alternative_donor CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 60;82 N jcn_only_AA chr3 - chr3:133910819-133913925 chr3:133910828-133913925 32;38 N alternative_acceptor CUFF.990 chr3 - chr3:49349088-49362134;chr3:49350047-49362134 chr3:49354912-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 156;51 K alternative_first_exon CUFF.988,CUFF.990 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47018127-47018333 chr3:47017843-47018040 604;354 K alternative_first_exon CUFF.1026 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126151912-126152047 chr3:126152212-126152317 324;110 N jcn_only_AD CUFF.979,CUFF.988 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 94;29 K cassette CUFF.1038 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 371;143 N jcn_only_AA CUFF.1021 chr3 - chr3:124996654-125042231 chr3:125032501-125042231 520;43 N cassette CUFF.1046 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 26;327 K cassette CUFF.1011 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 15;87 N alternative_donor CUFF.1033,CUFF.1034 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 680;3 K alternative_last_exon CUFF.1007 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559075-107559251 chr3:107560151-107560866 38;143 N jcn_only_AA CUFF.973 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 473;19 N alternative_donor CUFF.983 chr3 - chr3:38061844-38070996;chr3:38061844-38065646 chr3:38061844-38065827 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 208;3 N jcn_only_AD CUFF.1007 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 39;60 K cassette CUFF.990 chr3 - chr3:49348171-49362134 chr3:49348171-49348946;chr3:49349088-49362134 chr3:49348947-49349087 4;256 N alternative_acceptor CUFF.971 chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 0;65 N alternative_donor CUFF.1024 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 1603;5 N coord_cassette CUFF.1027 chr3 - chr3:127299007-127309725 chr3:127299007-127306912;chr3:127307004-127309252;chr3:127309436-127309725 chr3:127306913-127307003;chr3:127309253-127309435 chr3:127298865-127299006;chr3:127309726-127309815 18;88 N jcn_only_AA CUFF.1007 chr3 - chr3:107572902-107573976;chr3:107572807-107573976 chr3:107573542-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 271;16 K cassette CUFF.1039 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 27;21 K cassette CUFF.1036 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 553;421 K alternative_last_exon CUFF.1031 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 chr3:133418749-133419080;chr3:133419726-133419897 chr3:133410567-133410675 245;20 N alternative_donor CUFF.1024 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 1607;1 N jcn_only_AD CUFF.1024 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 1661;473 N cassette CUFF.1022 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 6;614 N intron_retention chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 22;198 N intron_retention chr3 - chr3:33686054-33686248 chr3:33686053-33686054;chr3:33686248-33686249 7;192 K coord_cassette CUFF.1038 chr3 - chr3:165504100-165555101 chr3:165504100-165545773;chr3:165545858-165547304;chr3:165548830-165555101 chr3:165545774-165545857;chr3:165547305-165548829 371;48 N alternative_donor CUFF.973 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 118;1 N alternative_acceptor CUFF.979 chr3 - chr3:33602464-33612218;chr3:33612185-33612218 chr3:33605459-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 35;0 N alternative_donor CUFF.971 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 182;29 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 61;414 N alternative_last_exon chr3 + chr3:28283304-28357823 chr3:28283304-28304781 chr3:28357824-28361253 chr3:28304782-28304871 7;71 K alternative_first_exon CUFF.998 chr3 - chr3:73453547-73523605,chr3:73453547-73618301,chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73482789 chr3:73453547-73610601 chr3:73605851-73606139;chr3:73482790-73483090 chr3:73610602-73610806 448;20 N intron_retention CUFF.973 chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 19;151 N intron_retention chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 347;19 K alternative_donor CUFF.978 chr3 - chr3:33437773-33438536 chr3:33437773-33438236 chr3:33438237-33438536 chr3:33438536-33438537 48;85 K jcn_only_AA CUFF.995 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 249;53 K alternative_acceptor CUFF.992 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 808;55 K alternative_donor CUFF.1011 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 344;130 K alternative_donor CUFF.1011 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 20;61 N alternative_acceptor CUFF.1021 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 169;1 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 20;127 N alternative_donor CUFF.999 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 20;43 K intron_retention chr3 - chr3:125787090-125802935 chr3:125787089-125787090;chr3:125802935-125802936 1483;63 N jcn_only_AA CUFF.1007 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 256;31 K intron_retention CUFF.1024 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 1083;327 K cassette CUFF.993 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 26;75 K intron_retention CUFF.988 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 409;134 K intron_retention CUFF.1046 chr3 + chr3:186769135-186790636 chr3:186769134-186769135;chr3:186790636-186790637 235;62 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838228 12;44 N alternative_donor CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 32;3 N alternative_acceptor CUFF.990 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 112;55 K alternative_first_exon CUFF.1015 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119499319-119501147 chr3:119501618-119501699 99;33 N alternative_donor CUFF.1037 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 375;13 K cassette CUFF.995 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 54;139 K jcn_only_AD CUFF.978 chr3 - chr3:33437773-33438536 chr3:33437773-33438236 chr3:33438237-33438536 chr3:33438536-33438537 48;45 K intron_retention CUFF.983 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 259;49 N cassette CUFF.990 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 53;231 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 15;17 N alternative_donor chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127314295-127317038 chr3:127317038-127317039 chr3:127313643-127313776;chr3:127317039-127317158 62;177 K alternative_first_exon CUFF.1008 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476325 chr3:108475667-108475862 149;238 K cassette CUFF.990 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 45;354 K jcn_only_AD CUFF.996 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 80;129 K alternative_acceptor CUFF.1048 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 41;8 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 96;322 K jcn_only_AA CUFF.993 chr3 + chr3:51741184-51749077 chr3:51741184-51742863 42;60 K cassette CUFF.1017 chr3 - chr3:120394711-120400943 chr3:120394711-120396750;chr3:120396839-120400943 chr3:120396751-120396838 223;65 N cassette CUFF.1049 chr3 - chr3:196214450-196229743 chr3:196214450-196215477;chr3:196215555-196229743 chr3:196215478-196215554 8;2 K alternative_first_exon CUFF.1010 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021325-112021561 chr3:112025963-112026045 72;27 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 38;243 K intron_retention CUFF.983 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 269;13 N jcn_only_AD CUFF.1037 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377357-49377916 chr3:49377916-49377917 151;135 K alternative_last_exon CUFF.1031 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 chr3:133419726-133419897;chr3:133410567-133410675 chr3:133418749-133419080 141;124 K jcn_only_AA CUFF.1015 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 30;124 K alternative_acceptor CUFF.978 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 37;54 K cassette CUFF.1038 chr3 - chr3:165504100-165547304 chr3:165504100-165545773;chr3:165545858-165547304 chr3:165545774-165545857 76;33 N alternative_donor CUFF.998 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 417;6 K alternative_first_exon CUFF.995 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583366-57583528 chr3:57583059-57583190 39;58 N alternative_donor CUFF.979,CUFF.988 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 94;3 N jcn_only_AD CUFF.973 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 92;104 N alternative_acceptor CUFF.1034 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 409;8 K intron_retention CUFF.1004 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 42;41 K cassette CUFF.1026 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 170;104 K intron_retention CUFF.1020 chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 343;7 K intron_retention CUFF.998 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 26;509 N alternative_donor CUFF.983 chr3 - chr3:38061844-38065827;chr3:38061844-38065646 chr3:38061844-38070996 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 32;179 N cassette CUFF.1027 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 chr3:127294028-127294108;chr3:127294783-127294893 154;131 N alternative_acceptor CUFF.973 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 540;277 N jcn_only_AA CUFF.979 chr3 - chr3:33602464-33612218;chr3:33605459-33612218 chr3:33612185-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 42;1 N alternative_donor CUFF.1037 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 384;26 N jcn_only_AA CUFF.979 chr3 - chr3:33673864-33686248;chr3:33673867-33686248 chr3:33686054-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 979;7 N jcn_only_AA CUFF.1021 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 169;10 K cassette CUFF.984 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 46;11 N alternative_acceptor CUFF.1020 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 583;42 N cassette CUFF.1034 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 176;603 N alternative_donor CUFF.1007 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 240;2 K intron_retention CUFF.1021 chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 398;88 N jcn_only_AD CUFF.1040 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178866008-178867504 chr3:178866007-178866008 165;26 K intron_retention CUFF.978 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 76;66 K intron_retention CUFF.993 chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 18;130 N jcn_only_AD CUFF.973 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 168;29 N jcn_only_AD CUFF.1037 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 403;15 K cassette CUFF.990 chr3 - chr3:49348171-49362134 chr3:49348171-49348946;chr3:49350047-49362134 chr3:49348947-49350046 4;207 N alternative_donor CUFF.1021 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 328;1 K alternative_acceptor CUFF.995 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 181;8 K cassette CUFF.1007 chr3 - chr3:107591874-107594976 chr3:107591874-107594305;chr3:107594422-107594976 chr3:107594306-107594421 415;41 K alternative_first_exon CUFF.1025,CUFF.1037 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073192 25;224 N jcn_only_AA CUFF.1020 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 583;81 K intron_retention CUFF.995 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 31;397 N alternative_acceptor CUFF.979 chr3 - chr3:33673864-33686248;chr3:33673867-33686248 chr3:33686054-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 883;3 N cassette CUFF.1024 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 255;3339 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 66;322 K alternative_last_exon CUFF.1031 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 chr3:133418749-133419080;chr3:133410567-133410675 chr3:133419726-133419897 144;121 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 125;1483 K alternative_acceptor CUFF.1015 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 30;99 N jcn_only_AD chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 358;324 N alternative_donor CUFF.973 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 652;68 N alternative_donor CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 34;1 K alternative_donor CUFF.1010 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 61;22 N jcn_only_AA CUFF.990 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49349088-49354911 chr3:49349087-49349088 112;16 N cassette CUFF.1007 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 399;299 N jcn_only_AD CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 638;11 N jcn_only_AA CUFF.973 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 447;45 K alternative_first_exon CUFF.1004 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634454-97634580 chr3:97642992-97643255 25;99 N alternative_acceptor CUFF.1007 chr3 - chr3:107572902-107573976;chr3:107573542-107573976 chr3:107572807-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 189;31 N jcn_only_AA chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8787212-8819162 chr3:8819162-8819163 13;496 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 70;244 K jcn_only_AA CUFF.995 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 70;232 N intron_retention chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 116;145 N jcn_only_AA CUFF.1034 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 409;106 N alternative_first_exon CUFF.973 chr3 + chr3:28339842-28357823,chr3:28333446-28357823,chr3:28336018-28357823;chr3:28283304-28357823 chr3:28304872-28357823 chr3:28283075-28283303 chr3:28304600-28304871 130;251 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 15;4 K cassette CUFF.1007 chr3 - chr3:107574077-107575926 chr3:107574077-107574854;chr3:107575172-107575926 chr3:107574855-107575171 461;184 N jcn_only_AD CUFF.979 chr3 - chr3:33602464-33612218 chr3:33602464-33605455 chr3:33605456-33612218 chr3:33612218-33612219 35;7 N jcn_only_AA CUFF.1027 chr3 - chr3:127299007-127313642 chr3:127310794-127313642 chr3:127299007-127310793 chr3:127299006-127299007 chr3:127313643-127313776;chr3:127298865-127299006 745;47 K alternative_acceptor CUFF.995 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 61;128 N alternative_acceptor CUFF.967 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 297;22 N jcn_only_AD CUFF.971 chr3 - chr3:133894884-133901845 chr3:133894884-133896784 chr3:133896785-133901845 chr3:133901845-133901846 182;266 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 365;39 N jcn_only_AD CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 580;245 K cassette CUFF.995 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569760-57570110 chr3:57569625-57569759 54;224 K intron_retention CUFF.978 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 16;24 N jcn_only_AA CUFF.979 chr3 - chr3:33602464-33612218;chr3:33612185-33612218 chr3:33605459-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 36;7 N jcn_only_AD CUFF.1021 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 212;12 K cassette CUFF.1036 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 732;200 N jcn_only_AD CUFF.1021 chr3 - chr3:124951499-124953143 chr3:124951499-124951952 chr3:124951953-124953143 chr3:124953143-124953144 398;47 N alternative_donor CUFF.973 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 292;428 N jcn_only_AD CUFF.1021 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 452;24 K alternative_first_exon CUFF.978,CUFF.990 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 85;32 K cassette CUFF.990 chr3 - chr3:49315885-49318176 chr3:49315885-49316246;chr3:49316336-49318176 chr3:49316247-49316335 18;407 N cassette CUFF.1024 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 57;1699 N jcn_only_AD CUFF.998 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 417;53 N alternative_first_exon CUFF.1024 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332753-27332881 chr3:27332108-27332265 81;185 N jcn_only_AD CUFF.983 chr3 - chr3:38061844-38065827;chr3:38061844-38065646 chr3:38061844-38070996 chr3:38065647-38065827;chr3:38065828-38070996 chr3:38065827-38065828;chr3:38070996-38070997 189;179 N alternative_donor CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 14;21 N alternative_acceptor CUFF.1034 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 259;81 N cassette CUFF.995 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 80;222 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 72;43 N alternative_donor CUFF.988 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 17;281 N alternative_acceptor CUFF.1007 chr3 - chr3:107585601-107586157;chr3:107576050-107586157 chr3:107578109-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 421;2 N jcn_only_AA CUFF.1026 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 267;47 N jcn_only_AD CUFF.1037,CUFF.990 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 337;81 N cassette CUFF.971 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 90;103 N cassette CUFF.1027 chr3 - chr3:127299007-127309252 chr3:127299007-127306912;chr3:127307004-127309252 chr3:127306913-127307003 chr3:127298865-127299006;chr3:127309253-127309435 308;106 K alternative_first_exon CUFF.1037 chr3 - chr3:156271571-156272745;chr3:156271571-156272525 chr3:156271571-156271781 chr3:156272746-156272973;chr3:156272526-156272678 chr3:156271782-156271971 120;113 N alternative_first_exon chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023509 chr3:47020964-47021106 49;92 N alternative_donor chr3 - chr3:141772992-141868024 chr3:141772992-141811902 chr3:141811903-141868024 chr3:141868024-141868025 571;1 K intron_retention CUFF.992 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 808;105 N cassette CUFF.992 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 38;774 N intron_retention chr3 - chr3:125787090-125802896 chr3:125787089-125787090;chr3:125802896-125802897 31;65 K intron_retention CUFF.988 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 286;153 K cassette CUFF.1017 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 302;216 N cassette CUFF.1034 chr3 - chr3:141712428-141724282;chr3:141697525-141747420;chr3:141697525-141724282 chr3:141697525-141713861,chr3:141712428-141713861;chr3:141713984-141724282,chr3:141713984-141747420 chr3:141713862-141713983 631;427 K jcn_only_AA CUFF.1048 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 41;17 K jcn_only_AD CUFF.1011 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 385;179 N cassette CUFF.1017 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 27;232 N alternative_acceptor CUFF.967 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 242;77 K jcn_only_AD CUFF.1011 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 381;182 N jcn_only_AA CUFF.1036 chr3 - chr3:155520381-155523385 chr3:155521963-155523385 chr3:155520381-155521962 chr3:155520380-155520381 218;181 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 55;169 N jcn_only_AA CUFF.992 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 80;839 K intron_retention CUFF.988 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 567;205 K alternative_first_exon CUFF.1020 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122785909-122786053 chr3:122786126-122786422 38;22 N alternative_donor CUFF.1024 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 1607;1 N jcn_only_AA CUFF.1007 chr3 - chr3:107585601-107586157;chr3:107578109-107586157 chr3:107576050-107586157 chr3:107576050-107578108;chr3:107578109-107585600 chr3:107576049-107576050;chr3:107578108-107578109 60;420 K intron_retention CUFF.1020 chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 60;14 N jcn_only_AA CUFF.990 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 61;336 N jcn_only_AA CUFF.967 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 181;416 K intron_retention CUFF.978 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 48;44 N alternative_acceptor CUFF.1007 chr3 - chr3:107573542-107573976;chr3:107572807-107573976 chr3:107572902-107573976 chr3:107572807-107572901;chr3:107572902-107573541 chr3:107572806-107572807;chr3:107572901-107572902 35;185 N alternative_acceptor CUFF.1020 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 29;9 N jcn_only_AA CUFF.1026 chr3 + chr3:126135352-126137297;chr3:126135352-126137300 chr3:126135352-126135614 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 291;23 N jcn_only_AA chr3 - chr3:133894884-133901845 chr3:133896918-133901845 chr3:133894884-133896917 chr3:133894883-133894884 182;90 K intron_retention chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 324;346 N cassette CUFF.1021 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 19;413 N cassette CUFF.1026 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 353;111 K intron_retention CUFF.966 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 203;10 N coord_cassette CUFF.1027 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 chr3:127294028-127294108;chr3:127294783-127294893 121;144 N jcn_only_AD CUFF.1007 chr3 - chr3:107572902-107573976 chr3:107572902-107573500 chr3:107573501-107573976 chr3:107573976-107573977 240;10 N coord_cassette CUFF.1007 chr3 - chr3:107586425-107596748 chr3:107586425-107591172;chr3:107591328-107591814;chr3:107591874-107596748 chr3:107591173-107591327;chr3:107591815-107591873 67;24 N alternative_acceptor CUFF.990 chr3 - chr3:49354912-49362134;chr3:49350047-49362134 chr3:49349088-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 78;129 N alternative_donor CUFF.1021 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 327;2 N alternative_acceptor CUFF.1026 chr3 + chr3:126135352-126137297;chr3:126135352-126135614 chr3:126135352-126137300 chr3:126135615-126137297;chr3:126137298-126137300 chr3:126137297-126137298;chr3:126137300-126137301 507;47 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 258;296 K alternative_last_exon CUFF.979 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638203-33638226 chr3:33643896-33644081 12;248 N jcn_only_AD CUFF.1033,CUFF.1034 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 680;119 K jcn_only_AD CUFF.1022 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 133;894 N jcn_only_AA CUFF.971 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 315;23 K cassette CUFF.1013 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 358;109 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 31;207 N jcn_only_AA CUFF.1046 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 190;15 K alternative_first_exon CUFF.1037 chr3 - chr3:156271571-156272745;chr3:156271571-156271781 chr3:156271571-156272525 chr3:156272746-156272973;chr3:156271782-156271971 chr3:156272526-156272678 190;43 K intron_retention CUFF.993 chr3 + chr3:51748138-51749077 chr3:51748137-51748138;chr3:51749077-51749078 56;7 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 3;243 K alternative_acceptor CUFF.995 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 136;53 K intron_retention CUFF.985 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 16;210 N alternative_acceptor CUFF.979 chr3 - chr3:33673864-33686248;chr3:33686054-33686248 chr3:33673867-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 791;95 K alternative_last_exon CUFF.1010 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112051033-112051638 chr3:112049097-112049171 97;23 N cassette CUFF.1007 chr3 - chr3:107586425-107591814 chr3:107586425-107591172;chr3:107591328-107591814 chr3:107591173-107591327 116;28 N cassette CUFF.1007 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 399;280 N jcn_only_AD CUFF.997 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 637;12 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 104;54 N cassette CUFF.1007 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 118;341 N coord_cassette CUFF.1007 chr3 - chr3:107591874-107596748 chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107594306-107594421;chr3:107594977-107595033 32;36 N cassette CUFF.995 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 90;166 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 5;27 N jcn_only_AA CUFF.1033 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 17;427 K alternative_first_exon CUFF.1020 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843119-122843190 chr3:122863429-122863676 57;455 N jcn_only_AA CUFF.979 chr3 - chr3:33673867-33686248;chr3:33686054-33686248 chr3:33673864-33686248 chr3:33673864-33673866;chr3:33673867-33686053 chr3:33673863-33673864;chr3:33673866-33673867 198;788 K intron_retention CUFF.971 chr3 - chr3:27352508-27353589 chr3:27352507-27352508;chr3:27353589-27353590 14;42 K alternative_first_exon CUFF.1029 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911573-132911671 13;39 N coord_cassette CUFF.997 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 27;732 N jcn_only_AD CUFF.971 chr3 - chr3:27233734-27243000;chr3:27233734-27236027 chr3:27233734-27235551 chr3:27235552-27236027;chr3:27236028-27243000 chr3:27236027-27236028;chr3:27243000-27243001 265;15 N intron_retention CUFF.973 chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 45;89 N mutually_exclusive CUFF.1034 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 9;68 N alternative_donor CUFF.979,CUFF.994 chr3 - chr3:33592888-33600798 chr3:33592888-33600616 chr3:33600617-33600798 chr3:33600798-33600799 44;9 N alternative_donor CUFF.973 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 105;14 N alternative_donor CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33686835 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 134;8 K jcn_only_AD CUFF.1011 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 361;202 K mutually_exclusive CUFF.995 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 49;75 N intron_retention chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 33;20 K cassette CUFF.1046 chr3 + chr3:186648624-186681572 chr3:186648624-186660135;chr3:186660216-186681572 chr3:186660136-186660215 570;110 N alternative_donor CUFF.1007 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 39;3 N cassette CUFF.1022 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 16;659 N alternative_donor CUFF.1037 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 300;4 N alternative_acceptor CUFF.992 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 80;431 K intron_retention CUFF.988 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 269;165 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 43;95 N alternative_acceptor CUFF.1036 chr3 - chr3:155520381-155523385 chr3:155521963-155523385 chr3:155520381-155521962 chr3:155520380-155520381 218;21 N jcn_only_AA CUFF.971 chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 chr3:27394411-27405335;chr3:27405336-27409053 chr3:27394410-27394411;chr3:27405335-27405336 78;4 N jcn_only_AD CUFF.973 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 51;428 N alternative_acceptor CUFF.973 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 705;112 N cassette CUFF.1046 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 175;296 N jcn_only_AD CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33686835;chr3:33686396-33686773;chr3:33686396-33686494 chr3:33686396-33700465 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 566;259 K intron_retention CUFF.978 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 87;9 N jcn_only_AD CUFF.1024 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 2115;19 K alternative_last_exon CUFF.1017 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120351994-120352175 chr3:120352191-120352437 183;45 N coord_cassette CUFF.1029 chr3 + chr3:132948196-133109023 chr3:132948196-133097185;chr3:133097401-133098595;chr3:133100006-133109023 chr3:133097186-133097400;chr3:133098596-133100005 36;87 N alternative_donor CUFF.979 chr3 - chr3:33686396-33700998;chr3:33686396-33700465;chr3:33686396-33686835;chr3:33686396-33686773 chr3:33686396-33686494 chr3:33686495-33686773;chr3:33686774-33686835;chr3:33686836-33700465;chr3:33700466-33700998 chr3:33686773-33686774;chr3:33686835-33686836;chr3:33700465-33700466;chr3:33700998-33700999 138;4 N jcn_only_AA CUFF.990 chr3 - chr3:49349088-49362134;chr3:49350047-49362134 chr3:49354912-49362134 chr3:49349088-49350046;chr3:49350047-49354911 chr3:49349087-49349088;chr3:49350046-49350047 141;59 N jcn_only_AA chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 39;37 K coord_cassette CUFF.1007 chr3 - chr3:107586273-107594976 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976 chr3:107591815-107591873;chr3:107594306-107594421 51;48 K intron_retention CUFF.1011 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 105;7 N alternative_donor CUFF.983 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 161;5 K jcn_only_AA CUFF.978 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 37;102 N alternative_acceptor chr3 - chr3:33686396-33700998 chr3:33700502-33700998 chr3:33686396-33700501 chr3:33686395-33686396 39;11 N alternative_acceptor CUFF.979 chr3 - chr3:33602464-33612218;chr3:33605459-33612218 chr3:33612185-33612218 chr3:33602464-33605458;chr3:33605459-33612184 chr3:33602463-33602464;chr3:33605458-33605459 35;0 N alternative_donor CUFF.1037,CUFF.990 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 335;53 N alternative_donor CUFF.973 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 15;104 K alternative_first_exon CUFF.994 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263798 chr3:52259543-52260179 27;6 N alternative_acceptor CUFF.1046 chr3 + chr3:186790736-186791946 chr3:186790736-186791192 chr3:186791193-186791946 chr3:186791946-186791947 190;33 K intron_retention chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 113;100 K cassette CUFF.1046 chr3 + chr3:186756662-186760441 chr3:186756662-186759704;chr3:186759755-186760441 chr3:186759705-186759754 643;419 N alternative_donor CUFF.971 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 25;10 K cassette CUFF.1013 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 48;46 N alternative_donor CUFF.891 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 258;193 N intron_retention chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 11;99 N alternative_donor CUFF.767 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 253;4 N alternative_acceptor CUFF.849 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 26;39 N jcn_only_AA chr2 + chr2:220095128-220096981 chr2:220095128-220096649 84;198 K alternative_acceptor CUFF.763 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1135;173 K alternative_last_exon CUFF.783 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732654 193;63 K alternative_first_exon CUFF.818 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893651 67;35 K alternative_acceptor CUFF.826 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 14;598 N jcn_only_AA CUFF.848 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 406;22 K intron_retention CUFF.818 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 40;100 N alternative_acceptor chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 118;165 K intron_retention CUFF.888 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 59;47 N jcn_only_AD CUFF.791 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 66;13 N alternative_donor CUFF.779 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 735;1 N alternative_acceptor CUFF.755 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 149;51 N jcn_only_AA CUFF.883 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 368;72 K intron_retention CUFF.755 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 541;43 N alternative_donor CUFF.791 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 66;0 K alternative_first_exon CUFF.887 chr2 + chr2:241392512-241398446,chr2:241394438-241398446;chr2:241396887-241398446;chr2:241381924-241398446;chr2:241397535-241398446 chr2:241375502-241398446 chr2:241396762-241396886;chr2:241381834-241381923;chr2:241397310-241397534 chr2:241375088-241375501 258;118 N alternative_donor CUFF.888 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 456;24 K cassette CUFF.808 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 469;358 K intron_retention CUFF.891 chr2 + chr2:242577140-242590424 chr2:242577139-242577140;chr2:242590424-242590425 1332;24 K cassette CUFF.835 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 113;91 N jcn_only_AA CUFF.849 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 71;12 N alternative_acceptor CUFF.876 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 81;212 N intron_retention chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 7;5 N jcn_only_AA CUFF.795 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 60;58 N alternative_acceptor CUFF.826,CUFF.877 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 242;5 N alternative_donor CUFF.867 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 72;17 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 47;71 N cassette CUFF.808 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 16;406 K intron_retention CUFF.885 chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 56;32 N alternative_donor CUFF.891 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 250;201 N jcn_only_AD CUFF.877 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 369;18 N jcn_only_AD CUFF.867 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 105;30 K intron_retention CUFF.826 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 24;40 N alternative_acceptor CUFF.849 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 42;23 K alternative_first_exon CUFF.785 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516531-33516854 116;93 N alternative_acceptor CUFF.767,CUFF.785 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 239;4 N jcn_only_AD CUFF.795 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 231;201 N alternative_acceptor CUFF.755 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 79;121 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 51;30 N alternative_donor CUFF.795 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 84;2 K intron_retention CUFF.891 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 19;226 N alternative_donor CUFF.877 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 368;14 N coord_cassette CUFF.808 chr2 - chr2:73188378-73215386 chr2:73188378-73194365;chr2:73194453-73195576;chr2:73195663-73215386 chr2:73194366-73194452;chr2:73195577-73195662 42;32 K alternative_first_exon CUFF.887 chr2 + chr2:241392512-241398446,chr2:241394438-241398446;chr2:241396887-241398446;chr2:241381924-241398446;chr2:241375502-241398446 chr2:241397535-241398446 chr2:241396762-241396886;chr2:241381834-241381923;chr2:241375088-241375501 chr2:241397310-241397534 289;87 N jcn_only_AA CUFF.776 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 909;79 K cassette CUFF.891 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 36;698 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 23;29 N alternative_donor CUFF.795 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 83;3 K alternative_acceptor CUFF.873 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 318;43 K intron_retention CUFF.851 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 108;74 N jcn_only_AD CUFF.877 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 340;47 K intron_retention CUFF.826 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 19;5 K intron_retention CUFF.887 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 248;29 K alternative_first_exon CUFF.868 chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208031481-208031557;chr2:208030637-208030899 chr2:208031718-208031856 77;87 N cassette CUFF.755 chr2 - chr2:262787-264781;chr2:253116-264083;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263373-264781,chr2:263373-264083 chr2:263211-263372 544;229 K intron_retention CUFF.867 chr2 + chr2:207653628-207655295 chr2:207653627-207653628;chr2:207655295-207655296 227;10 N coord_cassette CUFF.755 chr2 - chr2:253116-264781 chr2:253116-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 156;305 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 82;31 K intron_retention CUFF.775 chr2 - chr2:11593849-11597304 chr2:11593848-11593849;chr2:11597304-11597305 5;176 K alternative_first_exon CUFF.767 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094039-1094096 chr2:1098286-1098396 135;41 N jcn_only_AD CUFF.768 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 644;86 K cassette CUFF.855 chr2 - chr2:177497854-177502189 chr2:177497854-177498092;chr2:177498469-177502189 chr2:177498093-177498468 36;380 N cassette CUFF.888 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 136;579 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 5;18 N jcn_only_AA CUFF.787 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 1349;81 K alternative_first_exon CUFF.767 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320037-1320147 chr2:1357541-1357636 234;16 N alternative_acceptor CUFF.849 chr2 - chr2:175223265-175243650;chr2:175216454-175243650 chr2:175234743-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 62;3 N alternative_acceptor CUFF.844 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 61;0 N cassette CUFF.841 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 307;187 N alternative_donor CUFF.835 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 168;13 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 20;68 N alternative_donor CUFF.826 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 242;6 N jcn_only_AA CUFF.755 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 56;19 K intron_retention CUFF.888 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 1127;199 K coord_cassette CUFF.876 chr2 + chr2:219433702-219445283 chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283 chr2:219438444-219438514;chr2:219438714-219438956 161;85 K intron_retention CUFF.877 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 80;189 N jcn_only_AD CUFF.795 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 393;38 N alternative_last_exon CUFF.755 chr2 - chr2:260898-262630;chr2:253116-262630 chr2:260703-262630 chr2:253005-253115 chr2:259423-260702 178;9 N jcn_only_AD CUFF.795,CUFF.848 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 406;46 N alternative_acceptor CUFF.785 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 99;41 N cassette CUFF.836 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 64;187 K alternative_first_exon CUFF.869 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089637 53;770 N jcn_only_AA CUFF.858,CUFF.876 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 997;10 K coord_cassette CUFF.825 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 28;247 N jcn_only_AA CUFF.765 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 120;69 N jcn_only_AA CUFF.849 chr2 - chr2:175223265-175243650;chr2:175234743-175243650 chr2:175216454-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 59;23 N intron_retention chr2 - chr2:61752469-61752626 chr2:61752468-61752469;chr2:61752626-61752627 8;245 N cassette CUFF.755 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 547;115 K intron_retention CUFF.877 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 109;134 K alternative_first_exon CUFF.779,CUFF.829 chr2 - chr2:27676381-27676848 chr2:27676381-27676496 chr2:27676849-27677029 chr2:27676497-27676727 46;1385 N jcn_only_AD chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422045-86422460 chr2:86422460-86422461 967;24 K intron_retention CUFF.888 chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 51;31 N jcn_only_AA CUFF.767,CUFF.785 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1260177-1263141 chr2:1263141-1263142 239;36 K intron_retention CUFF.867 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 184;48 N alternative_donor CUFF.858 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 997;4 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 243;29 N jcn_only_AA CUFF.829 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 245;23 K jcn_only_AD CUFF.800 chr2 - chr2:68374700-68384505 chr2:68374700-68384392 chr2:68384393-68384505 chr2:68384505-68384506 315;239 N alternative_donor CUFF.825 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 4781;4 K intron_retention CUFF.829 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 356;37 K jcn_only_AA CUFF.862 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 14;394 K intron_retention CUFF.829 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 468;16 K jcn_only_AA CUFF.763 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 1135;349 N jcn_only_AD CUFF.841 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 351;18 N jcn_only_AD CUFF.891 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 64;201 N cassette CUFF.785 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 151;163 K intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 86;57 N jcn_only_AD CUFF.790 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 145;72 N alternative_donor CUFF.867 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 78;11 K cassette CUFF.859 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 61;110 N alternative_donor CUFF.755 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 1047;306 K alternative_first_exon CUFF.868 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031481-208031557;chr2:208031718-208031856 chr2:208030637-208030899 104;60 N cassette CUFF.835 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 171;67 N jcn_only_AD CUFF.808,CUFF.829 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 414;99 N jcn_only_AD CUFF.778,CUFF.869 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 71;37 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 78;57 N jcn_only_AA CUFF.787 chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 521;909 N jcn_only_AD CUFF.795 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 401;31 K alternative_first_exon CUFF.778 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194383;chr2:25194687-25194963 chr2:25194425-25194510 262;96 N alternative_donor CUFF.877 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 60;322 K intron_retention CUFF.891 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 485;39 N alternative_acceptor CUFF.795 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 60;96 N jcn_only_AA CUFF.778 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 71;41 N jcn_only_AD CUFF.877 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 65;322 K intron_retention CUFF.795 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 240;58 K intron_retention CUFF.891 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 363;90 K alternative_first_exon CUFF.784 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440491 2;35 N alternative_donor CUFF.785 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 141;25 K alternative_first_exon CUFF.767 chr2 + chr2:1159412-1161233;chr2:1133496-1161233 chr2:1158976-1161233 chr2:1133454-1133495 chr2:1158939-1158975 374;169 K cassette CUFF.860 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 195;20 K intron_retention CUFF.873 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 61;82 N intron_retention chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 66;512 N jcn_only_AD CUFF.888 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 247;293 K coord_cassette CUFF.795 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 1699;338 K coord_cassette CUFF.862 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 36;114 N jcn_only_AD CUFF.867 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 78;57 K alternative_donor CUFF.868 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 344;33 K intron_retention CUFF.888 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 10;24 N jcn_only_AD CUFF.851 chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 110;80 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 84;37 K coord_cassette CUFF.772 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 6;119 N alternative_donor chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 25;2 K intron_retention CUFF.790 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 611;24 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 20;44 N intron_retention chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 85;47 K alternative_acceptor CUFF.826 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 186;295 N coord_cassette CUFF.835 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 17;8 N alternative_donor CUFF.844 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 61;0 K intron_retention CUFF.884 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 96;135 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 198;146 K alternative_first_exon CUFF.802 chr2 - chr2:69870407-69870874;chr2:69870407-69901154;chr2:69870407-69870923 chr2:69870407-69870706 chr2:69901155-69901240;chr2:69870924-69871152 chr2:69870707-69870786 175;114 N coord_cassette CUFF.851 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 66;75 N jcn_only_AA CUFF.834 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 85;64 N alternative_donor CUFF.851 chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 26;1 K intron_retention CUFF.779 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 302;203 K alternative_first_exon CUFF.822 chr2 + chr2:99232810-99234630 chr2:99232997-99234630 chr2:99232644-99232809 chr2:99232823-99232996 10;128 N jcn_only_AA CUFF.876 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 253;88 K intron_retention CUFF.841 chr2 + chr2:169712721-169713199 chr2:169712720-169712721;chr2:169713199-169713200 93;6 N jcn_only_AA CUFF.755 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 187;51 N jcn_only_AD CUFF.844 chr2 + chr2:171400499-171508137 chr2:171503450-171508137 chr2:171400499-171503449 chr2:171400498-171400499 61;11 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 74;12 N jcn_only_AA CUFF.785 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 147;41 N alternative_donor CUFF.778,CUFF.869 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 71;2 N cassette CUFF.891 chr2 + chr2:242594063-242598522;chr2:242594063-242606059 chr2:242594063-242594685;chr2:242594759-242598522,chr2:242594759-242606059 chr2:242594686-242594758 89;590 K alternative_donor CUFF.808 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 322;149 K intron_retention CUFF.877 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 262;26 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 26;23 N jcn_only_AD CUFF.854,CUFF.862 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 380;79 K cassette CUFF.854 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 103;503 N cassette CUFF.835 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 9;65 K jcn_only_AD CUFF.868 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 285;73 K alternative_first_exon CUFF.795 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61753555-61753708 chr2:61752405-61752603 2260;251 K cassette CUFF.777 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 70;192 N jcn_only_AA CUFF.779 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 121;562 K jcn_only_AD CUFF.789,CUFF.829 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 245;9 K intron_retention CUFF.779 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 714;115 N jcn_only_AD CUFF.825 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 89;16 K intron_retention CUFF.877 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 552;186 K intron_retention CUFF.891 chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 1223;48 N alternative_acceptor CUFF.858,CUFF.876 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 997;3 N jcn_only_AD CUFF.768 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 6;49 N alternative_donor CUFF.877 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 336;46 K alternative_first_exon CUFF.841 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711862-169711970 chr2:169712622-169712720 382;61 K intron_retention CUFF.779 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 662;21 N alternative_acceptor CUFF.767,CUFF.787 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 444;24 K cassette CUFF.787 chr2 + chr2:38156873-38201182 chr2:38156873-38177653;chr2:38177739-38201182 chr2:38177654-38177738 263;200 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 81;219 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 108;21 K alternative_last_exon CUFF.779 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672865-27672963 chr2:27676001-27676137 127;1704 N jcn_only_AD CUFF.867 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 103;32 N jcn_only_AD CUFF.867 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 119;16 K cassette CUFF.834 chr2 + chr2:153497429-153504309 chr2:153497429-153499932;chr2:153500059-153504309 chr2:153499933-153500058 165;142 K alternative_first_exon CUFF.886 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476343-237476484 chr2:237478239-237478567 31;67 K jcn_only_AA CUFF.883 chr2 + chr2:232026224-232029913 chr2:232026224-232028348 355;52 N intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 35;25 K jcn_only_AA CUFF.816 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 47;88 K cassette CUFF.825 chr2 + chr2:101565943-101580519 chr2:101565943-101579216;chr2:101579296-101580519 chr2:101579217-101579295 151;3511 K jcn_only_AA CUFF.814 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 763;207 N alternative_donor CUFF.768 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464108-3466842 chr2:3464107-3464108 644;64 N jcn_only_AD CUFF.776 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 1111;128 N jcn_only_AD CUFF.826 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 344;91 N jcn_only_AD CUFF.826 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 162;86 K intron_retention CUFF.814 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 2231;71 N cassette CUFF.877 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 55;257 K alternative_last_exon CUFF.768,CUFF.883 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3469368-3469466 chr2:3464418-3464710 487;598 N alternative_donor CUFF.826 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 69;90 K alternative_first_exon CUFF.858 chr2 + chr2:191334376-191334483;chr2:191302288-191334483 chr2:191307732-191334483 chr2:191334296-191334375;chr2:191300703-191302287 chr2:191307266-191307731 246;196 K intron_retention CUFF.774 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 136;567 K intron_retention CUFF.884 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 103;54 K cassette CUFF.785 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 169;266 K alternative_last_exon CUFF.829 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936000-110936124 chr2:110936322-110936512 85;317 N intron_retention chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 170;86 N intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 180;20 N alternative_donor CUFF.795 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 81;5 N alternative_donor CUFF.776 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 909;1 K alternative_first_exon CUFF.808 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73302708;chr2:73285726-73298168;chr2:73285726-73286136 chr2:73285726-73298732 chr2:73298169-73298247;chr2:73286137-73286301 chr2:73298733-73298943 328;442 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 47;18 K alternative_first_exon CUFF.818 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88913242-88913371 chr2:88895269-88895417 9;52 K coord_cassette CUFF.775 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 34;150 K jcn_only_AD CUFF.767 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 60;395 K jcn_only_AA CUFF.826 chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 186;38 N alternative_acceptor chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 16;440 N jcn_only_AD CUFF.802,CUFF.829 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 356;18 K cassette CUFF.777 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 72;113 N coord_cassette CUFF.775 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 15;293 N alternative_acceptor CUFF.787 chr2 + chr2:38231360-38244328;chr2:38231360-38294124 chr2:38231360-38239745 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 455;1 N cassette CUFF.891 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 1312;371 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 47;102 K intron_retention CUFF.822 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 25;26 K intron_retention CUFF.763 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 1063;56 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 39;115 N intron_retention chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 98;26 N jcn_only_AD CUFF.815 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 23;5 K intron_retention CUFF.873 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 195;84 K cassette CUFF.768 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 1179;30 N alternative_acceptor CUFF.779 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 121;458 N alternative_acceptor CUFF.785 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 87;53 K alternative_first_exon CUFF.789,CUFF.888 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42181156-42181433 chr2:42180867-42180943 24;6 N alternative_acceptor CUFF.787,CUFF.876 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 268;25 K alternative_first_exon CUFF.887 chr2 + chr2:241392512-241398446,chr2:241394438-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241381924-241398446 chr2:241396762-241396886;chr2:241375088-241375501;chr2:241397310-241397534 chr2:241381834-241381923 369;7 N jcn_only_AA CUFF.851 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 7;108 K cassette CUFF.862 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 181;153 N coord_cassette CUFF.755 chr2 - chr2:262787-264781 chr2:262787-263210;chr2:263373-263563;chr2:263763-264781 chr2:263211-263372;chr2:263564-263762 145;326 K alternative_last_exon CUFF.767 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1251099-1251215 chr2:1246510-1246557 184;22 N jcn_only_AD CUFF.891 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 220;45 N cassette CUFF.891 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 774;692 K alternative_first_exon CUFF.768 chr2 + chr2:3469467-3481465 chr2:3476374-3481465 chr2:3469368-3469466 chr2:3476296-3476373 176;78 N cassette CUFF.826 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 215;86 K cassette CUFF.790 chr2 - chr2:46808731-46819613 chr2:46808731-46818941;chr2:46819065-46819613 chr2:46818942-46819064 67;53 N alternative_donor chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 7;185 N alternative_acceptor chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 10;49 N cassette CUFF.888 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 105;946 N jcn_only_AA CUFF.826,CUFF.877 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 242;189 N alternative_first_exon CUFF.791 chr2 + chr2:48996261-49003418;chr2:48898820-49003418 chr2:48996214-49003418 chr2:48898730-48898819 chr2:48996102-48996213 164;37 K alternative_first_exon CUFF.877 chr2 + chr2:220094623-220097211 chr2:220097085-220097211 chr2:220094406-220094622 chr2:220096982-220097084 90;702 K jcn_only_AD CUFF.868 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 99;259 N alternative_donor CUFF.851 chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 3;24 N alternative_donor CUFF.825 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 2681;21 N jcn_only_AD chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 909;84 N intron_retention chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 32;17 K intron_retention CUFF.829 chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 9;18 N jcn_only_AA CUFF.848 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 496;35 N jcn_only_AA CUFF.844 chr2 + chr2:171400499-171508137 chr2:171400499-171503418 chr2:171503419-171508137 chr2:171508137-171508138 61;11 K cassette CUFF.767 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 147;194 K alternative_first_exon CUFF.854 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177053147-177053346 chr2:177052793-177053018 106;67 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 45;215 N alternative_donor CUFF.815 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 23;16 N cassette CUFF.755 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 301;209 K intron_retention CUFF.772 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 215;91 K cassette CUFF.755 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 895;538 K intron_retention CUFF.819 chr2 + chr2:88928251-88930917 chr2:88928250-88928251;chr2:88930917-88930918 34;39 K alternative_donor CUFF.868 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 292;85 N alternative_donor CUFF.867 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 58;31 N alternative_acceptor CUFF.755 chr2 - chr2:234273-243502;chr2:242177-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 172;28 K intron_retention CUFF.779 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 1957;6 N alternative_acceptor CUFF.808 chr2 - chr2:73172229-73188259 chr2:73184233-73188259 chr2:73172229-73184232 chr2:73172228-73172229 165;1 N jcn_only_AA CUFF.844 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 60;12 K intron_retention CUFF.877 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 161;139 K alternative_first_exon CUFF.815 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389099-86389202 chr2:86389075-86389095 603;80 K intron_retention CUFF.790 chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 49;7 N alternative_acceptor CUFF.829 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 356;41 N intron_retention chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 77;101 K intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 91;19 K alternative_acceptor CUFF.825,CUFF.833 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 89;195 N jcn_only_AD CUFF.826 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 69;93 K intron_retention CUFF.755 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 9;31 N alternative_acceptor CUFF.844 chr2 + chr2:171376051-171399415 chr2:171376051-171381014 chr2:171381015-171399415 chr2:171399415-171399416 60;0 K jcn_only_AA CUFF.829 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 9;5 N cassette CUFF.883 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 9;199 N mutually_exclusive CUFF.854 chr2 - chr2:177041421-177042438,chr2:177042550-177042730 chr2:177041421-177042059,chr2:177042223-177042730 chr2:177042439-177042549 chr2:177042060-177042222 55;27 K jcn_only_AA CUFF.843 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 69;9 K alternative_donor CUFF.800 chr2 - chr2:68374700-68384505 chr2:68374700-68384392 chr2:68384393-68384505 chr2:68384505-68384506 315;171 K intron_retention CUFF.841 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 556;14 N jcn_only_AA chr2 - chr2:86398469-86400772 chr2:86398505-86400772 81;545 K alternative_last_exon CUFF.822 chr2 + chr2:99232810-99234630 chr2:99232810-99232894 chr2:99234631-99234978 chr2:99232895-99232996 21;93 K jcn_only_AD CUFF.832 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 47;10 K cassette CUFF.778 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 418;72 K intron_retention CUFF.764 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 83;53 K intron_retention CUFF.808 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 273;39 N alternative_donor CUFF.835 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 136;2 N jcn_only_AD CUFF.825 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 23;76 N alternative_first_exon chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676857 9;78 K intron_retention CUFF.888 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 370;65 K cassette CUFF.876 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 79;26 N jcn_only_AA CUFF.849 chr2 - chr2:175216454-175243650;chr2:175234743-175243650 chr2:175223265-175243650 chr2:175216454-175223264;chr2:175223265-175234742 chr2:175216453-175216454;chr2:175223264-175223265 35;47 N jcn_only_AA chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3482990-3488490 chr2:3488490-3488491 10;396 N cassette CUFF.888 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 427;439 N jcn_only_AD CUFF.779 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 735;14 K intron_retention CUFF.829 chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 245;19 N intron_retention CUFF.829 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 18;25 N jcn_only_AD CUFF.785 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 141;50 N alternative_donor CUFF.802,CUFF.829 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 356;66 N jcn_only_AA CUFF.779 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 905;117 K intron_retention CUFF.795 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 129;123 N alternative_acceptor CUFF.778 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 71;3 K intron_retention CUFF.891 chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 36;54 K intron_retention CUFF.795 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 2437;18 K alternative_first_exon CUFF.868 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208030899;chr2:208031718-208031856 chr2:208031481-208031557 147;17 N jcn_only_AD CUFF.844 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 60;13 N cassette CUFF.844 chr2 + chr2:171070994-171073828 chr2:171070994-171071238;chr2:171071339-171073828 chr2:171071239-171071338 2;116 K alternative_last_exon CUFF.887 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404273-241404392 chr2:241404252-241404252 192;16 K alternative_acceptor CUFF.816 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 47;137 N intron_retention chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 545;122 N jcn_only_AD CUFF.795 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 406;26 K intron_retention CUFF.765 chr2 + chr2:677474-680043 chr2:677473-677474;chr2:680043-680044 115;3 N jcn_only_AD CUFF.891 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 246;19 N cassette CUFF.755 chr2 - chr2:263373-264781 chr2:263373-263563;chr2:263763-264781 chr2:263564-263762 54;488 N alternative_donor CUFF.795 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 54;32 K cassette CUFF.879 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 7;3 N alternative_acceptor CUFF.826 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 24;51 N jcn_only_AD CUFF.851 chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 166;24 K cassette CUFF.808 chr2 - chr2:73188378-73195576 chr2:73188378-73194365;chr2:73194453-73195576 chr2:73194366-73194452 232;120 N jcn_only_AD CUFF.834 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 85;60 N alternative_donor CUFF.825 chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 89;5 N mutually_exclusive CUFF.854 chr2 - chr2:177041421-177042438,chr2:177042550-177042742 chr2:177041421-177042059,chr2:177042223-177042742 chr2:177042439-177042549 chr2:177042060-177042222 55;27 N jcn_only_AA CUFF.829 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 145;407 N cassette CUFF.861 chr2 + chr2:200496619-200512396 chr2:200496619-200511776;chr2:200511903-200512396 chr2:200511777-200511902 16;95 N intron_retention chr2 - chr2:61764723-61765272 chr2:61764722-61764723;chr2:61765272-61765273 20;17 K intron_retention CUFF.790 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 31;5 N jcn_only_AD CUFF.787 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1121;196 N coord_cassette CUFF.791 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 7;165 N jcn_only_AD CUFF.835 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 168;22 K intron_retention CUFF.815 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 90;317 N jcn_only_AD CUFF.772 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 86;80 K coord_cassette CUFF.891 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 36;572 K cassette CUFF.841 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 128;184 N alternative_acceptor CUFF.834 chr2 + chr2:153476233-153481951 chr2:153476233-153479050 chr2:153479051-153481951 chr2:153481951-153481952 85;17 N alternative_donor CUFF.826 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 344;46 N alternative_donor CUFF.779 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 640;61 N alternative_donor CUFF.772 chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 86;27 N cassette CUFF.844 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 13;50 N alternative_donor CUFF.778,CUFF.849 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 23;9 N jcn_only_AD CUFF.768 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 1013;31 N jcn_only_AD CUFF.857 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 19;38 N alternative_donor CUFF.891 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 394;57 N jcn_only_AA CUFF.768,CUFF.826 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 162;229 K intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 32;109 K cassette CUFF.891 chr2 + chr2:242577140-242590424 chr2:242577140-242577675;chr2:242577786-242590424 chr2:242577676-242577785 1332;55 K alternative_first_exon CUFF.883 chr2 + chr2:232026224-232029913 chr2:232028442-232029913 chr2:232026054-232026223 chr2:232027810-232028441 316;212 K intron_retention CUFF.768 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 428;31 N mutually_exclusive CUFF.835 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 49;88 K jcn_only_AA CUFF.825,CUFF.833 chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 89;263 N jcn_only_AA CUFF.755 chr2 - chr2:234273-243502;chr2:242177-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 200;38 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 56;134 K alternative_acceptor CUFF.822 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 170;37 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 38;127 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 5;43 N cassette CUFF.888 chr2 - chr2:242441124-242447857 chr2:242441124-242443452;chr2:242443512-242447857 chr2:242443453-242443511 26;13 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 201;129 K intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 161;196 N cassette CUFF.775 chr2 - chr2:11587901-11593707 chr2:11587901-11591327;chr2:11591933-11593707 chr2:11591328-11591932 15;506 K cassette CUFF.772 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009485-4021134 chr2:4009360-4009484 10;170 N jcn_only_AA CUFF.844 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 163;3 K alternative_first_exon CUFF.768 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393379-3393550 172;342 K cassette CUFF.868 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 307;36 K cassette CUFF.841 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 516;32 N alternative_acceptor CUFF.755 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 673;30 K cassette CUFF.768 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 284;166 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 22;83 N mutually_exclusive CUFF.815 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 13;79 N jcn_only_AA CUFF.768 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 1013;28 N jcn_only_AA CUFF.767,CUFF.787 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 444;166 N alternative_donor CUFF.795,CUFF.848 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 406;0 K alternative_first_exon CUFF.808 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73302708;chr2:73285726-73286136;chr2:73285726-73298732 chr2:73285726-73298168 chr2:73286137-73286301;chr2:73298733-73298943 chr2:73298169-73298247 754;16 K alternative_acceptor CUFF.829 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 9;14 N coord_cassette CUFF.844 chr2 + chr2:171300557-171371430 chr2:171300557-171319877;chr2:171319956-171323015;chr2:171323222-171355101;chr2:171355214-171356155;chr2:171356319-171371430 chr2:171319878-171319955;chr2:171323016-171323221;chr2:171355102-171355213;chr2:171356156-171356318 4;47 N alternative_acceptor CUFF.755 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 56;22 K alternative_last_exon CUFF.808 chr2 - chr2:73277029-73285656,chr2:73269715-73285656,chr2:73268791-73285656;chr2:73268061-73285656 chr2:73280681-73285656 chr2:73267983-73268060 chr2:73280588-73280680 513;15 K cassette CUFF.775 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 244;192 N alternative_donor CUFF.826 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085541-109085788 chr2:109085540-109085541 162;28 K cassette CUFF.829 chr2 - chr2:110959072-110962476 chr2:110959072-110959949;chr2:110960057-110962476 chr2:110959950-110960056 370;203 K alternative_donor CUFF.832 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 47;5 N alternative_acceptor CUFF.848 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 chr2:174072387-174080564 chr2:174072386-174072387 406;3 N alternative_acceptor CUFF.851 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689247-175702064 chr2:175689246-175689247 482;2 K intron_retention CUFF.888 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 607;25 K cassette CUFF.816 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 74;39 N intron_retention chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 22;119 K alternative_acceptor CUFF.785 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 63;120 N alternative_acceptor CUFF.779 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 170;33 K jcn_only_AA CUFF.790 chr2 - chr2:46839484-46842075 chr2:46840925-46842075 49;587 K coord_cassette CUFF.891 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242590679-242590750;chr2:242591299-242591389;chr2:242592722-242592784 36;156 N jcn_only_AD CUFF.755 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 673;410 K mutually_exclusive CUFF.862 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 113;28 N jcn_only_AD chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 chr2:175712041-175712446;chr2:175712447-175740515 chr2:175712446-175712447;chr2:175740515-175740516 104;86 N intron_retention CUFF.888 chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 45;140 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 43;142 K cassette CUFF.876 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 161;118 K alternative_acceptor CUFF.843 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 69;6 K cassette CUFF.775 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 34;229 K alternative_first_exon CUFF.763 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:287583-287892 chr2:287163-287260 481;345 K intron_retention CUFF.869 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 9;26 K jcn_only_AA CUFF.873 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 318;61 N alternative_donor CUFF.808,CUFF.829 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 414;5 N jcn_only_AA CUFF.844 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 71;69 K cassette CUFF.851 chr2 - chr2:175809672-175816891 chr2:175809672-175809897;chr2:175809990-175816891 chr2:175809898-175809989 87;21 N jcn_only_AD CUFF.755 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 1047;55 N jcn_only_AD CUFF.779 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 640;32 K intron_retention CUFF.891 chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 24;249 N cassette CUFF.779 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 43;821 N alternative_donor CUFF.867 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 59;30 N alternative_donor CUFF.841 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169659184-169667935 chr2:169659183-169659184 351;0 N cassette CUFF.851 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 66;80 N jcn_only_AA CUFF.876 chr2 + chr2:219457431-219458250;chr2:219457431-219458830 chr2:219457431-219458891 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 129;212 N alternative_last_exon chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:49003419-49003658 chr2:48906474-48906742 179;180 N cassette CUFF.768 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 82;277 K cassette CUFF.790 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 67;451 K intron_retention CUFF.764 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 15;48 N cassette CUFF.808 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 42;101 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 23;20 N alternative_acceptor CUFF.829 chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 245;22 N cassette CUFF.851 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 70;124 N jcn_only_AD CUFF.767 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 253;53 N alternative_acceptor CUFF.876 chr2 + chr2:219457431-219458250;chr2:219457431-219458891 chr2:219457431-219458830 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 237;56 K coord_cassette CUFF.891 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 440;51 K intron_retention CUFF.831 chr2 + chr2:118595561-118596782 chr2:118595560-118595561;chr2:118596782-118596783 35;21 N jcn_only_AD CUFF.858 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 997;8 K cassette CUFF.888 chr2 - chr2:242435950-242437030 chr2:242435950-242436714;chr2:242436794-242437030 chr2:242436715-242436793 607;25 N alternative_donor CUFF.776 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535569-16536535 chr2:16535568-16535569 1111;24 K intron_retention CUFF.783 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 246;35 N intron_retention chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 19;9 K intron_retention CUFF.822 chr2 + chr2:99232810-99232894 chr2:99232809-99232810;chr2:99232894-99232895 136;57 N jcn_only_AA chr2 + chr2:38231360-38244328;chr2:38231360-38239745 chr2:38231360-38294124 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 990;440 N alternative_donor CUFF.784 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 56;1 N jcn_only_AA CUFF.873 chr2 + chr2:220095073-220096981 chr2:220095073-220096649 95;161 N alternative_acceptor CUFF.779 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 735;2 K coord_cassette CUFF.767 chr2 + chr2:1168870-1215567 chr2:1168870-1204788;chr2:1204917-1206142;chr2:1206366-1215567 chr2:1204789-1204916;chr2:1206143-1206365 160;126 K cassette CUFF.772 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 6;179 K alternative_acceptor CUFF.843 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 2;58 K alternative_first_exon CUFF.778 chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194425-25194510;chr2:25194285-25194383 chr2:25194687-25194963 269;89 N alternative_donor CUFF.854,CUFF.862 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 380;9 K jcn_only_AA CUFF.843 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 2;35 K intron_retention CUFF.783 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 281;164 N cassette CUFF.815 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 11;70 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 18;98 N cassette CUFF.764 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 42;135 K alternative_last_exon CUFF.767,CUFF.768 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 274;54 K alternative_last_exon CUFF.783 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27726381-27726486 chr2:27724557-27724690 131;21 N alternative_acceptor CUFF.883 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 368;2 K intron_retention CUFF.873 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 318;73 K cassette CUFF.772 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 86;102 K jcn_only_AA CUFF.779 chr2 - chr2:27676381-27676848 chr2:27676607-27676848 51;161 K intron_retention CUFF.877 chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 322;85 N jcn_only_AA CUFF.785 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 110;79 N mutually_exclusive CUFF.851 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 62;68 K jcn_only_AD CUFF.808 chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 322;301 N alternative_acceptor CUFF.768 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3461566-3464033 chr2:3464033-3464034 1013;16 N alternative_donor CUFF.844 chr2 + chr2:171376051-171399415 chr2:171381137-171399415 chr2:171376051-171381136 chr2:171376050-171376051 60;4 N intron_retention chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 53;59 N jcn_only_AD CUFF.784 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 chr2:31412533-31414264 chr2:31414264-31414265 56;7 K intron_retention CUFF.822 chr2 + chr2:99232810-99234630 chr2:99232809-99232810;chr2:99234630-99234631 12;11 K intron_retention CUFF.849 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 23;388 K jcn_only_AA CUFF.822,CUFF.884 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 96;103 K intron_retention CUFF.877 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 391;97 N alternative_donor CUFF.888 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 187;293 K intron_retention CUFF.876 chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 212;65 K jcn_only_AA CUFF.826 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 14;827 N alternative_donor CUFF.888 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 317;163 N alternative_donor CUFF.834 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 85;4 N jcn_only_AD CUFF.888 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 337;203 N jcn_only_AA CUFF.829 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 356;23 K intron_retention CUFF.873 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 385;105 K alternative_first_exon CUFF.800,CUFF.818 chr2 - chr2:68374700-68384505,chr2:68374700-68384392 chr2:68374700-68384058 chr2:68384506-68384771 chr2:68384059-68384247 489;44 N jcn_only_AA chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 118;205 K alternative_first_exon CUFF.763,CUFF.790 chr2 - chr2:46839484-46842075 chr2:46839484-46840832 chr2:46842076-46842324 chr2:46840833-46840953 50;285 N intron_retention chr2 - chr2:48873754-48874167 chr2:48873753-48873754;chr2:48874167-48874168 9;121 N alternative_donor CUFF.787 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1121;32 N alternative_donor CUFF.808 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 273;109 K alternative_donor CUFF.789,CUFF.829 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 245;17 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 23;19 N cassette CUFF.768 chr2 + chr2:3469467-3482616 chr2:3469467-3470024;chr2:3470165-3482616 chr2:3470025-3470164 82;148 N cassette CUFF.815 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 27;361 N alternative_donor CUFF.825 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436877-101437661 chr2:101436876-101436877 23;39 K intron_retention CUFF.841 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 84;15 K intron_retention CUFF.877 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 248;82 K intron_retention CUFF.779 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 19;355 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 4;3 K alternative_first_exon CUFF.858 chr2 + chr2:191302288-191334483;chr2:191307732-191334483 chr2:191334376-191334483 chr2:191300703-191302287;chr2:191307266-191307731 chr2:191334296-191334375 411;31 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 16;36 N cassette CUFF.808 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 119;171 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 4;0 N jcn_only_AA CUFF.787,CUFF.876 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458251-219458830;chr2:219458831-219458891 chr2:219458830-219458831;chr2:219458891-219458892 300;41 N alternative_acceptor CUFF.844 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171268211-171300476 chr2:171300476-171300477 71;3 N alternative_donor CUFF.768 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 1013;25 K alternative_first_exon CUFF.858 chr2 + chr2:191334376-191334483;chr2:191307732-191334483 chr2:191302288-191334483 chr2:191334296-191334375;chr2:191307266-191307731 chr2:191300703-191302287 227;215 N jcn_only_AD CUFF.825 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 4781;28 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 47;13 N jcn_only_AD CUFF.776 chr2 + chr2:16573595-16613772 chr2:16613076-16613772 chr2:16573595-16613075 chr2:16573594-16573595 909;148 K alternative_last_exon CUFF.862 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204259068-204259812 chr2:204306192-204306803 63;296 N jcn_only_AD CUFF.825 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 17;110 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 402;197 N jcn_only_AA CUFF.779 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 170;59 K alternative_last_exon CUFF.800 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68356931-68358577 chr2:68358890-68359137 427;127 N mutually_exclusive CUFF.891 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 41;15 K cassette CUFF.784 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 9;34 K intron_retention CUFF.795 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 115;91 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 763;108 K intron_retention CUFF.888 chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 180;119 N alternative_donor chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 909;2 N cassette CUFF.755 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 1134;137 N jcn_only_AD CUFF.808 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 273;158 N jcn_only_AA CUFF.851 chr2 - chr2:175689247-175711607 chr2:175702065-175711607 chr2:175689247-175702064 chr2:175689246-175689247 482;37 N jcn_only_AA CUFF.755 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 89;149 N jcn_only_AA CUFF.826 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091245-109091990 chr2:109091990-109091991 24;45 K intron_retention CUFF.891 chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 872;39 N intron_retention CUFF.764 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 27;23 N cassette CUFF.808 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 55;260 K alternative_acceptor CUFF.814 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 763;102 N intron_retention chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 201;233 K alternative_first_exon CUFF.787 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150330-38150510 chr2:38152392-38152568 52;179 K intron_retention chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 589;9 N alternative_acceptor CUFF.765 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 94;46 N alternative_donor CUFF.755 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 673;15 K cassette CUFF.775 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 281;157 K cassette CUFF.876 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 116;51 N coord_cassette CUFF.858 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 50;32 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 268;25 K alternative_first_exon CUFF.887 chr2 + chr2:241392512-241398446,chr2:241394438-241398446;chr2:241381924-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241396887-241398446 chr2:241381834-241381923;chr2:241375088-241375501;chr2:241397310-241397534 chr2:241396762-241396886 259;117 K cassette CUFF.888 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 213;365 K alternative_first_exon CUFF.778 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194425-25194510;chr2:25194687-25194963 chr2:25194285-25194383 185;173 N alternative_donor CUFF.795 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 80;6 K jcn_only_AA CUFF.822 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 170;67 N alternative_acceptor CUFF.848 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 496;16 N alternative_acceptor CUFF.768,CUFF.826 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 chr2:109085756-109086106 chr2:109086106-109086107 162;95 K alternative_acceptor CUFF.822,CUFF.884 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 96;134 N coord_cassette CUFF.808 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 42;286 K cassette CUFF.783 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 203;74 N jcn_only_AD CUFF.826 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 242;311 N coord_cassette CUFF.808 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73194365;chr2:73194453-73195576 chr2:73188260-73188377;chr2:73194366-73194452 119;90 N alternative_acceptor CUFF.776 chr2 + chr2:16573595-16613772 chr2:16573595-16612998 chr2:16612999-16613772 chr2:16613772-16613773 909;13 K alternative_last_exon CUFF.841 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169713200-169713288 chr2:169712396-169712489 377;56 K alternative_acceptor CUFF.862 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 14;196 K intron_retention CUFF.888 chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 293;176 N alternative_acceptor CUFF.844 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 163;2 K intron_retention CUFF.790 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 587;15 K coord_cassette CUFF.851 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 81;79 N alternative_donor CUFF.768 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 6;33 K mutually_exclusive CUFF.854 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 59;91 K alternative_first_exon CUFF.790,CUFF.868 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46844109-46844258 chr2:46843726-46843823 462;21 K coord_cassette CUFF.775 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 34;183 K intron_retention CUFF.891 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 475;7 N jcn_only_AD CUFF.795 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 419;13 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 26;26 K cassette CUFF.851 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 43;222 N jcn_only_AD chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 7;255 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 372;60 K mutually_exclusive CUFF.790 chr2 - chr2:46808731-46818941,chr2:46819065-46819613 chr2:46808731-46815213,chr2:46815319-46819613 chr2:46818942-46819064 chr2:46815214-46815318 53;451 K alternative_first_exon CUFF.802 chr2 - chr2:69870407-69870874;chr2:69870407-69901154;chr2:69870407-69870706 chr2:69870407-69870923 chr2:69901155-69901240;chr2:69870707-69870786 chr2:69870924-69871152 208;81 N jcn_only_AD CUFF.825 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 2681;42 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 22;47 K jcn_only_AA CUFF.785 chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 63;245 K cassette CUFF.862 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 70;233 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 156;374 N alternative_donor CUFF.795 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 60;26 N alternative_donor chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422045-86422460 chr2:86422460-86422461 967;8 K coord_cassette CUFF.873 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 72;262 N alternative_acceptor CUFF.787 chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38239746-38244328;chr2:38244329-38294124 chr2:38244328-38244329;chr2:38294124-38294125 441;15 N jcn_only_AD CUFF.835 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585687-160590593 chr2:160585686-160585687 136;18 N alternative_acceptor CUFF.779 chr2 - chr2:27668317-27668611 chr2:27668497-27668611 chr2:27668317-27668496 chr2:27668316-27668317 905;40 N jcn_only_AD CUFF.888 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 495;45 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 29;36 N jcn_only_AA CUFF.808 chr2 - chr2:73172229-73188259 chr2:73184233-73188259 chr2:73172229-73184232 chr2:73172228-73172229 165;69 K alternative_first_exon CUFF.808 chr2 - chr2:73285726-73286222,chr2:73285726-73297588,chr2:73285726-73302708;chr2:73285726-73298168;chr2:73285726-73298732 chr2:73285726-73286136 chr2:73298169-73298247;chr2:73298733-73298943 chr2:73286137-73286301 633;137 K alternative_first_exon CUFF.844 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034621-171034799 chr2:171036617-171036691 11;10 K cassette CUFF.854 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 210;81 K intron_retention CUFF.825 chr2 + chr2:101604739-101606717 chr2:101604738-101604739;chr2:101606717-101606718 271;8 K jcn_only_AD CUFF.868 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 332;26 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 95;88 N jcn_only_AD CUFF.795 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 368;64 N jcn_only_AA CUFF.779 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 735;13 K alternative_donor CUFF.868 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 118;259 K alternative_last_exon CUFF.767,CUFF.833 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328643 67;122 K alternative_first_exon CUFF.802,CUFF.818 chr2 - chr2:69870407-69870874;chr2:69870407-69870923;chr2:69870407-69870706 chr2:69870407-69901154 chr2:69870924-69871152;chr2:69870707-69870786 chr2:69901155-69901240 272;17 N jcn_only_AA chr2 - chr2:166732743-166737188 chr2:166736478-166737188 61;33 N jcn_only_AD CUFF.778,CUFF.849 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 23;15 N intron_retention CUFF.877 chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 55;159 N jcn_only_AA CUFF.755 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 673;481 K intron_retention CUFF.883 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 166;32 N intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 25;51 K cassette CUFF.851 chr2 - chr2:175677211-175689161 chr2:175677211-175686456;chr2:175686508-175689161 chr2:175686457-175686507 400;137 N jcn_only_AA CUFF.50 chr1 - chr1:106146181-106146784;chr1:106143382-106146784 chr1:106132408-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 309;81 K cassette CUFF.85 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 93;32 K jcn_only_AD CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 82;503 N alternative_acceptor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 244;1 K alternative_donor CUFF.73 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 113;58 N alternative_acceptor CUFF.16 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 18;38 N jcn_only_AD CUFF.80 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 10;9 N cassette CUFF.65 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 14;15 N alternative_donor CUFF.28 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 14;13 K mutually_exclusive CUFF.85 chr1 + chr1:167190196-167272710,chr1:167272812-167301706 chr1:167190196-167210643,chr1:167210848-167301706 chr1:167272711-167272811 chr1:167210644-167210847 95;95 K cassette CUFF.27 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 378;43 N jcn_only_AD chr1 - chr1:106132408-106145898;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106146784 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 173;81 K intron_retention CUFF.30 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 44;52 K alternative_donor CUFF.84 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 31;29 N alternative_donor CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106145898 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 217;59 K intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 66;132 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 15;28 N jcn_only_AD CUFF.80 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 13;41 K alternative_first_exon CUFF.94 chr1 - chr1:202894336-202897608 chr1:202894336-202896216 chr1:202897609-202897837 chr1:202896217-202896390 71;10 K intron_retention CUFF.18 chr1 + chr1:22963196-22964102 chr1:22963195-22963196;chr1:22964102-22964103 256;31 N alternative_acceptor CUFF.49 chr1 - chr1:103960847-103971908 chr1:103961438-103971908 chr1:103960847-103961437 chr1:103960846-103960847 9;1 N alternative_first_exon chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26229825 chr1:26219005-26219098 14;13 N alternative_donor CUFF.13,CUFF.79 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 10;81 N jcn_only_AD CUFF.99 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556268-211564012 chr1:211556267-211556268 193;44 N jcn_only_AA CUFF.76 chr1 - chr1:156939836-156946774 chr1:156941609-156946774 2;8 K alternative_first_exon CUFF.89 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129141 chr1:174128025-174128299 21;317 N alternative_donor CUFF.104 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 38;9 N mutually_exclusive CUFF.36 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 93;102 K mutually_exclusive CUFF.100 chr1 - chr1:213181809-213186434,chr1:213186761-213188954 chr1:213181809-213184549,chr1:213184801-213188954 chr1:213186435-213186760 chr1:213184550-213184800 5;93 N cassette CUFF.57 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 93;73 N jcn_only_AD CUFF.28 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 14;53 K intron_retention CUFF.21 chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 113;232 N alternative_donor CUFF.73 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 250;48 K cassette CUFF.113 chr1 + chr1:245222761-245245384 chr1:245222761-245238875;chr1:245238914-245245384 chr1:245238876-245238913 440;546 N jcn_only_AA chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 88;40 N jcn_only_AD CUFF.6 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 453;1014 K cassette CUFF.86 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 5;118 K alternative_first_exon CUFF.97 chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207995549-207996080 chr1:207992307-207992491 20;27 K alternative_first_exon CUFF.6 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2036335-2066700,chr1:2029995-2066700,chr1:2006207-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700 chr1:2006819-2066700 chr1:1990980-1991030 chr1:2006634-2006818 1111;182 N alternative_donor CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41486536-41487287 chr1:41487287-41487288 12;126 N alternative_donor CUFF.20 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 136;2 K jcn_only_AD CUFF.6 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 311;63 N alternative_donor CUFF.75 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 15;31 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 23;40 N jcn_only_AA CUFF.113,CUFF.85 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 129;13 N jcn_only_AA CUFF.42,CUFF.96 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 44;12 N alternative_acceptor CUFF.58 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 8;5 N intron_retention chr1 - chr1:155181330-155183430 chr1:155181329-155181330;chr1:155183430-155183431 5;99 N cassette CUFF.9 chr1 + chr1:10494748-10511433 chr1:10494748-10500403;chr1:10500471-10511433 chr1:10500404-10500470 32;100 K cassette CUFF.85 chr1 + chr1:167353189-167358824 chr1:167353189-167356417;chr1:167356485-167358824 chr1:167356418-167356484 110;82 K coord_cassette CUFF.9 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 98;110 K cassette CUFF.81 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 15;20 K jcn_only_AD CUFF.84 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 31;39 K alternative_last_exon CUFF.117 chr1 - chr1:247320706-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247320608-247320705;chr1:247301448-247302059;chr1:247285277-247287173 chr1:247320194-247320519 204;139 N alternative_donor CUFF.20 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 115;23 N jcn_only_AD CUFF.6 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 413;29 N coord_cassette CUFF.28 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 14;232 K alternative_first_exon CUFF.18 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963197-22963353 276;290 N alternative_acceptor CUFF.113,CUFF.85 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 129;6 K alternative_donor CUFF.6 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 311;181 K cassette CUFF.84 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 34;24 N alternative_donor CUFF.85 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 256;0 K alternative_donor CUFF.27 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 233;112 N cassette CUFF.75 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 43;45 K coord_cassette CUFF.85 chr1 + chr1:167190196-167301706 chr1:167190196-167210643;chr1:167210848-167272710;chr1:167272812-167301706 chr1:167210644-167210847;chr1:167272711-167272811 17;21 N alternative_donor CUFF.27 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 383;13 N alternative_donor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 18;5 K intron_retention CUFF.69 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 181;37 N alternative_acceptor CUFF.50 chr1 - chr1:106132408-106146784;chr1:106143382-106146784 chr1:106146181-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 82;33 N jcn_only_AD chr1 - chr1:156453223-156470277 chr1:156453223-156469223 57;24 N alternative_acceptor CUFF.99 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211570198-211599552 chr1:211599552-211599553 227;0 N cassette CUFF.6 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 101;287 K cassette CUFF.85 chr1 + chr1:167345393-167353093 chr1:167345393-167345789;chr1:167345825-167353093 chr1:167345790-167345824 203;64 N jcn_only_AA CUFF.5 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 245;40 K intron_retention CUFF.76 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 39;7 N alternative_donor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 244;0 K alternative_donor CUFF.27 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 143;202 N alternative_acceptor CUFF.27 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;10 N alternative_donor CUFF.6 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 335;15 N jcn_only_AD CUFF.104 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806592-222817928 chr1:222806591-222806592 38;182 K alternative_first_exon CUFF.20,CUFF.76 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156921365-156921491 chr1:156918365-156918435 15;3 K cassette CUFF.106 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 99;18 K intron_retention CUFF.104 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 71;118 K alternative_acceptor CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 43;43 K cassette CUFF.85 chr1 + chr1:167190196-167301706;chr1:167190196-167272710 chr1:167190196-167210643;chr1:167210848-167301706,chr1:167210848-167272710 chr1:167210644-167210847 179;121 N alternative_donor CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143252 chr1:106132408-106143891 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 204;72 K alternative_first_exon CUFF.56,CUFF.75 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113497897;chr1:113471975-113478445 chr1:113471975-113498656 chr1:113497898-113498655;chr1:113478446-113478696 chr1:113498657-113498975 577;72 N alternative_acceptor CUFF.28 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 339;0 K alternative_last_exon CUFF.108 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613762 20;651 N cassette CUFF.87 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 105;95 N alternative_donor CUFF.6 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 413;2 K intron_retention chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 76;158 N jcn_only_AA CUFF.27 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 9;4 N alternative_acceptor CUFF.50 chr1 - chr1:106146181-106146784;chr1:106143382-106146784 chr1:106132408-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 34;81 N cassette CUFF.85 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 41;125 N jcn_only_AD CUFF.36 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 118;30 K intron_retention CUFF.62 chr1 + chr1:145584837-145585355 chr1:145584836-145584837;chr1:145585355-145585356 110;9 N cassette CUFF.36 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370406;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370407-54370482 140;375 K alternative_first_exon CUFF.68 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389000-153389039 chr1:153389648-153389754 4;19 K cassette CUFF.62 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 47;401 N jcn_only_AA CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 18;38 N jcn_only_AA CUFF.50 chr1 - chr1:106132408-106146784;chr1:106146181-106146784 chr1:106143382-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 334;56 K intron_retention CUFF.100 chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 59;13 K jcn_only_AD CUFF.92 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 228;164 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 20;36 K cassette CUFF.96 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 51;12 N alternative_acceptor CUFF.83 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 356;22 N jcn_only_AD CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143252 chr1:106132408-106143891 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 214;41 N jcn_only_AD CUFF.53 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 737;13 N alternative_acceptor CUFF.42,CUFF.96 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 44;11 K jcn_only_AA CUFF.67 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 chr1:151150477-151150621;chr1:151149201-151149507 172;16 N alternative_acceptor CUFF.49 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 57;0 N jcn_only_AA CUFF.69 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 53;110 N jcn_only_AD CUFF.6 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 423;55 N jcn_only_AA CUFF.6 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 413;35 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 919;59 K cassette CUFF.87 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 56;117 K cassette CUFF.66 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 248;136 K cassette CUFF.69 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 49;220 K coord_cassette CUFF.85 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 17;31 K intron_retention CUFF.109 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 143;55 N jcn_only_AA CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 244;26 N alternative_acceptor CUFF.69 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 53;60 N alternative_donor CUFF.87,CUFF.89 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 69;6 N alternative_donor CUFF.20 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 134;4 N jcn_only_AD CUFF.20 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 279;177 N alternative_donor CUFF.32,CUFF.50 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 56;3 N alternative_donor chr1 - chr1:156449139-156450625 chr1:156449139-156449377 chr1:156449378-156450625 chr1:156450625-156450626 42;47 K jcn_only_AA CUFF.85,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 19;278 N intron_retention chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 110;17 K coord_cassette CUFF.84 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 34;24 N alternative_first_exon chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905648 chr1:53905100-53905304 50;149 N jcn_only_AA CUFF.56 chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 45;4 N cassette CUFF.27 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 21;222 K intron_retention CUFF.76 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 67;7 N jcn_only_AA CUFF.50 chr1 - chr1:106132408-106146784;chr1:106143382-106146784 chr1:106146181-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 137;253 K jcn_only_AD CUFF.25 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 32;356 N coord_cassette CUFF.36 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 98;107 N alternative_acceptor CUFF.75 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 6;22 K alternative_first_exon CUFF.109 chr1 + chr1:230203154-230338882 chr1:230314058-230338882 chr1:230202972-230203153 chr1:230313964-230314057 26;59 N cassette CUFF.36 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 140;786 K intron_retention CUFF.10 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 282;68 K cassette CUFF.100 chr1 - chr1:213181809-213188954 chr1:213181809-213186434;chr1:213186761-213188954 chr1:213186435-213186760 80;67 N cassette CUFF.28 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 52;304 K alternative_first_exon CUFF.106 chr1 + chr1:224371121-224377278;chr1:224363650-224377278 chr1:224371534-224377278 chr1:224370948-224371120;chr1:224363458-224363649 chr1:224371448-224371533 119;9 N jcn_only_AA CUFF.69 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 78;54 N alternative_donor CUFF.42 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 159;0 K intron_retention CUFF.69 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 127;25 K cassette CUFF.76 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 67;30 N jcn_only_AD chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 11;19 N jcn_only_AD CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143891 chr1:106132408-106143252 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 211;44 N alternative_donor CUFF.80 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137203-160137219 chr1:160137202-160137203 10;4 K alternative_donor CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 82;305 K intron_retention CUFF.79 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 218;51 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 98;365 N cassette CUFF.73 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 42;220 K alternative_first_exon CUFF.106 chr1 + chr1:224363650-224377278;chr1:224371534-224377278 chr1:224371121-224377278 chr1:224363458-224363649;chr1:224371448-224371533 chr1:224370948-224371120 72;56 K alternative_acceptor CUFF.67 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 chr1:151150477-151150621;chr1:151149201-151149507 172;10 N jcn_only_AA chr1 - chr1:156449139-156450625 chr1:156449589-156450625 42;11 N mutually_exclusive CUFF.57 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 6;68 N jcn_only_AD CUFF.69 chr1 - chr1:41486606-41487294 chr1:41486606-41487201 62;98 K alternative_last_exon CUFF.117 chr1 - chr1:247320520-247322307;chr1:247320706-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247320194-247320519;chr1:247320608-247320705;chr1:247301448-247302059 chr1:247285277-247287173 331;12 K alternative_last_exon CUFF.104 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838651-222841354 chr1:222838225-222838537 121;48 N alternative_donor CUFF.6 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 1059;72 N jcn_only_AA CUFF.99 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211570198-211599552 chr1:211599552-211599553 227;2 K cassette CUFF.89 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 240;25 N jcn_only_AA CUFF.49 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 57;52 N jcn_only_AD CUFF.6 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 335;23 K alternative_acceptor CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 173;7 N jcn_only_AA chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16382917-16383732 chr1:16383732-16383733 13;137 N cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 122;122 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 24;74 N alternative_donor CUFF.80 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 13;26 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 21;94 N jcn_only_AA CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 81;238 K cassette CUFF.84 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 16;27 K intron_retention CUFF.106 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 69;11 N jcn_only_AA CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 53;53 K intron_retention CUFF.69 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 53;15 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 62;116 N alternative_acceptor CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 53;5 N alternative_donor CUFF.6 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 423;1 N jcn_only_AA chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 88;737 N jcn_only_AD CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106145898 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 166;88 N jcn_only_AD chr1 - chr1:156449139-156450625 chr1:156449139-156449377 chr1:156449378-156450625 chr1:156450625-156450626 42;153 N alternative_acceptor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 18;8 K alternative_acceptor CUFF.30 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 83;58 K intron_retention CUFF.76 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 37;33 N intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 98;47 N intron_retention chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 29;574 N intron_retention chr1 - chr1:230416683-230417235 chr1:230416682-230416683;chr1:230417235-230417236 6;134 K alternative_acceptor CUFF.41 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 66;23 K alternative_first_exon CUFF.67 chr1 - chr1:151158427-151167754 chr1:151158427-151162599,chr1:151158427-151162480 chr1:151167755-151167864 chr1:151162600-151162664 chr1:151158274-151158426 18;117 K jcn_only_AA CUFF.85 chr1 + chr1:167301773-167343392 chr1:167301773-167334703 109;256 K cassette CUFF.82 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 257;10 K alternative_last_exon CUFF.109 chr1 + chr1:230203154-230338882 chr1:230203154-230227335 chr1:230338883-230339036 chr1:230227336-230227777 19;258 K jcn_only_AD CUFF.27 chr1 + chr1:31769944-31782890;chr1:31770061-31782890 chr1:31769923-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 244;112 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 23;488 N coord_cassette CUFF.27 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 21;35 N alternative_donor CUFF.117 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 132;13 K alternative_acceptor CUFF.117 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 118;49 K intron_retention CUFF.89 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 78;107 K coord_cassette CUFF.85 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 121;28 K alternative_last_exon CUFF.6 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2066701-2066786 chr1:2002738-2002967 149;320 K cassette CUFF.77 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 113;137 K intron_retention CUFF.62 chr1 + chr1:145580611-145581181 chr1:145580610-145580611;chr1:145581181-145581182 62;24 N jcn_only_AD CUFF.20 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 284;172 K alternative_first_exon CUFF.56 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113498656;chr1:113471975-113497897 chr1:113471975-113478445 chr1:113498657-113498975;chr1:113497898-113498655 chr1:113478446-113478696 165;484 N cassette CUFF.41 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 60;79 N jcn_only_AD CUFF.20 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 437;19 K alternative_first_exon CUFF.107 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401062 chr1:224397943-224398114 311;129 K alternative_last_exon CUFF.45 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723120-85723154 270;75 K intron_retention CUFF.6 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 373;16 K jcn_only_AA CUFF.41 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 66;33 N jcn_only_AD CUFF.35,CUFF.56 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 53;108 N alternative_donor CUFF.20 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 92;46 K intron_retention CUFF.77 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 130;61 N jcn_only_AA chr1 + chr1:54360029-54370338 chr1:54360029-54360111 22;372 N alternative_acceptor chr1 - chr1:106132408-106145898 chr1:106144008-106145898 chr1:106132408-106144007 chr1:106132407-106132408 88;3 N alternative_acceptor chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 83;61 K intron_retention chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 737;23 K alternative_last_exon CUFF.113 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245254795 chr1:245246991-245250546 chr1:245254796-245255091 chr1:245250547-245251139 215;1035 K alternative_last_exon CUFF.53 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110215825-110216147;chr1:110224431-110224456 chr1:110251103-110252171 625;23 K alternative_acceptor CUFF.108,CUFF.85 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 49;30 K intron_retention CUFF.56 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 587;25 K intron_retention CUFF.92 chr1 + chr1:200883188-200883601 chr1:200883187-200883188;chr1:200883601-200883602 38;23 K jcn_only_AA CUFF.108,CUFF.85 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 49;23 N intron_retention CUFF.33 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 220;57 K jcn_only_AD CUFF.27 chr1 + chr1:31769944-31782890;chr1:31769923-31782890 chr1:31770061-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 143;213 K intron_retention CUFF.20 chr1 - chr1:26228174-26230131 chr1:26228173-26228174;chr1:26230131-26230132 494;197 N alternative_acceptor chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16382917-16383732 chr1:16383732-16383733 13;114 N jcn_only_AD CUFF.6 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 1357;110 N jcn_only_AD CUFF.10 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 54;282 N mutually_exclusive CUFF.113 chr1 + chr1:245133746-245180543,chr1:245180629-245222687 chr1:245133746-245165422,chr1:245165535-245222687 chr1:245180544-245180628 chr1:245165423-245165534 703;15 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 23;1328 K jcn_only_AD CUFF.67 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 chr1:151158274-151158426;chr1:151162600-151162681 89;69 N alternative_last_exon CUFF.20 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226596-26227578 20;487 K cassette CUFF.10 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 436;67 N intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 66;26 N alternative_donor chr1 - chr1:156449589-156450625 chr1:156449589-156450434 chr1:156450435-156450625 chr1:156450625-156450626 11;7 N cassette CUFF.16 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 9;120 K alternative_last_exon CUFF.9 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512212 chr1:10502322-10502863 102;259 K alternative_acceptor CUFF.10 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 116;267 K intron_retention CUFF.62 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 113;108 N mutually_exclusive CUFF.36 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370406,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370407-54370482 93;42 N alternative_first_exon chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612240 chr1:120572529-120572610 9;19 N alternative_acceptor CUFF.56 chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 45;2 N coord_cassette CUFF.36 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 43;107 N jcn_only_AA chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 83;31 N alternative_donor CUFF.41 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 44;71 N alternative_donor CUFF.6 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 1086;45 N jcn_only_AD CUFF.32,CUFF.50 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 56;32 N alternative_donor CUFF.28 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 339;2 K intron_retention CUFF.113 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 18;114 K alternative_donor CUFF.67 chr1 - chr1:151158427-151162599 chr1:151158427-151162480 chr1:151162481-151162599 chr1:151162599-151162600 chr1:151158274-151158426;chr1:151162600-151162681 89;65 N jcn_only_AD CUFF.73 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 250;20 K intron_retention CUFF.69 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 132;62 K intron_retention CUFF.83 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 356;101 N alternative_acceptor CUFF.50 chr1 - chr1:106132408-106146784;chr1:106146181-106146784 chr1:106143382-106146784 chr1:106132408-106143381;chr1:106143382-106146180 chr1:106132407-106132408;chr1:106143381-106143382 114;1 K intron_retention CUFF.92 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 49;99 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 16;18 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 34;210 K jcn_only_AA CUFF.117 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 118;59 N jcn_only_AA CUFF.16 chr1 - chr1:16928339-16935002;chr1:16921509-16935002 chr1:16934187-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 20;41 N jcn_only_AD CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 18;22 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11713447 chr1:11710892-11714375 chr1:11715697-11715795;chr1:11713448-11713668 chr1:11714376-11714739 272;58 N jcn_only_AD CUFF.6 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 1123;343 N coord_cassette CUFF.113 chr1 + chr1:245133746-245222687 chr1:245133746-245165422;chr1:245165535-245180543;chr1:245180629-245222687 chr1:245165423-245165534;chr1:245180544-245180628 80;434 K intron_retention CUFF.30 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 82;72 N alternative_donor CUFF.10 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 54;162 K intron_retention CUFF.37 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 253;75 N alternative_donor CUFF.6 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 117;1014 K intron_retention CUFF.73 chr1 + chr1:155182359-155182484 chr1:155182358-155182359;chr1:155182484-155182485 124;51 N alternative_acceptor CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 81;215 K alternative_acceptor CUFF.85,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 19;219 N alternative_donor CUFF.53 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 127;313 N jcn_only_AA chr1 - chr1:161970129-161976086 chr1:161970132-161976086 9;105 K intron_retention CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 12;113 N alternative_donor CUFF.99 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556268-211564012 chr1:211556267-211556268 193;2 N cassette CUFF.113 chr1 + chr1:245133746-245222687;chr1:245133746-245180543 chr1:245133746-245165422;chr1:245165535-245180543,chr1:245165535-245222687 chr1:245165423-245165534 999;403 N alternative_acceptor chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 57;0 N alternative_last_exon CUFF.35 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53902706-53904721 57;152 K alternative_first_exon CUFF.92 chr1 + chr1:200860830-200867434;chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860126-200860530 chr1:200863893-200864215 42;235 K cassette CUFF.94 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 6;45 N jcn_only_AA CUFF.10 chr1 + chr1:155180686-155201808 chr1:155180686-155181182 4;19 K intron_retention CUFF.79 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 5;17 N jcn_only_AA CUFF.58 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 8;3 N jcn_only_AD CUFF.20 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 430;26 N alternative_acceptor chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 88;349 N intron_retention chr1 + chr1:155180419-155182175 chr1:155180418-155180419;chr1:155182175-155182176 42;17 K alternative_last_exon CUFF.117 chr1 - chr1:247320520-247322307;chr1:247320706-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247320194-247320519;chr1:247320608-247320705;chr1:247285277-247287173 chr1:247301448-247302059 179;164 N coord_cassette CUFF.104 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 17;104 N intron_retention chr1 + chr1:2005369-2066700 chr1:2005368-2005369;chr1:2066700-2066701 69;12 K alternative_last_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877289 223;58 N jcn_only_AD CUFF.117 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 9;10 N coord_cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918585-196918779;chr1:196919982-196920158 122;76 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 372;307 K jcn_only_AD CUFF.27 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 326;30 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 393;63 N jcn_only_AA CUFF.28 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 339;12 K intron_retention CUFF.84 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 58;13 K alternative_last_exon CUFF.37 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387232-54387440 46;103 N alternative_donor CUFF.117 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 9;6 K cassette CUFF.41 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 349;61 N alternative_donor chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 48;29 N jcn_only_AD CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41486536-41487287 chr1:41487287-41487288 12;220 N alternative_acceptor CUFF.16 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 41;15 K intron_retention CUFF.79 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 3;58 N jcn_only_AD CUFF.87,CUFF.89 chr1 - chr1:169697069-169698326 chr1:169697069-169697198 chr1:169697199-169698326 chr1:169698326-169698327 69;12 K intron_retention CUFF.76 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 56;5 N cassette CUFF.33 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 60;250 N alternative_acceptor CUFF.5 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 245;44 K intron_retention CUFF.21 chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 112;13 N jcn_only_AD chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 48;39 K alternative_first_exon CUFF.28 chr1 + chr1:32538700-32540551,chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551 chr1:32537632-32538053 chr1:32538440-32538652 60;286 N cassette CUFF.50 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 32;759 N jcn_only_AA CUFF.88 chr1 + chr1:32541424-32557272 chr1:32541424-32542164 85;49 K alternative_last_exon CUFF.53 chr1 + chr1:110214206-110217368;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110215824 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110215825-110216147 131;517 N cassette CUFF.24 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 71;93 N jcn_only_AA CUFF.16 chr1 - chr1:16928339-16935002;chr1:16934187-16935002 chr1:16921509-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 46;15 K jcn_only_AA CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 43;58 N intron_retention chr1 + chr1:145580323-145580504 chr1:145580322-145580323;chr1:145580504-145580505 67;53 N alternative_donor CUFF.6 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 373;3 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 19;30 K cassette CUFF.9 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 116;268 N cassette CUFF.104 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 239;34 N intron_retention chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 88;22 K alternative_first_exon CUFF.69 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 83;112 N jcn_only_AD CUFF.27 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 383;16 N jcn_only_AD CUFF.85 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 256;54 K intron_retention CUFF.67 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 chr1:151157982-151158096;chr1:151158274-151158426 170;16 K alternative_first_exon CUFF.95 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205600760-205601127 chr1:205594760-205594838 39;33 K intron_retention CUFF.19 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 189;147 K cassette CUFF.69 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 157;73 N cassette CUFF.91 chr1 + chr1:196913069-196919981 chr1:196913069-196918584;chr1:196918780-196919981 chr1:196918585-196918779 70;80 K cassette CUFF.36 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 831;125 K alternative_first_exon CUFF.76,CUFF.95 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933624 53;20 N mutually_exclusive CUFF.28 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 39;31 N jcn_only_AA CUFF.49 chr1 - chr1:103960847-103971908 chr1:103961438-103971908 chr1:103960847-103961437 chr1:103960846-103960847 9;4 N alternative_acceptor CUFF.6 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 423;3 K cassette CUFF.104 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 71;1186 N cassette CUFF.53 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 16;298 K alternative_first_exon CUFF.10 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072333-11072485 chr1:11072679-11072800 128;122 N jcn_only_AD CUFF.13,CUFF.79 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 10;196 K alternative_donor CUFF.27 chr1 + chr1:31769923-31782890;chr1:31770061-31782890 chr1:31769944-31782890 chr1:31769923-31769943;chr1:31769944-31770060 chr1:31769922-31769923;chr1:31769943-31769944 314;31 N alternative_acceptor CUFF.16 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 53;3 K jcn_only_AA CUFF.30 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 83;109 N alternative_donor CUFF.50 chr1 - chr1:106132408-106146784;chr1:106132408-106145898;chr1:106132408-106143891 chr1:106132408-106143252 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 212;64 N alternative_acceptor CUFF.53,CUFF.80 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 669;9 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11715697-11715795;chr1:11714376-11714739 chr1:11713448-11713668 136;194 K cassette CUFF.85 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 5;273 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 98;271 N alternative_donor CUFF.35,CUFF.56 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 53;9 N cassette CUFF.113 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 112;1140 N alternative_acceptor CUFF.6 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 413;8 N jcn_only_AD CUFF.49 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 57;65 N cassette CUFF.41 chr1 + chr1:70820791-70832126;chr1:70820892-70832126 chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126 chr1:70831829-70832011 357;70 N jcn_only_AA chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 57;31 K alternative_first_exon CUFF.106 chr1 + chr1:224371121-224377278;chr1:224371534-224377278 chr1:224363650-224377278 chr1:224370948-224371120;chr1:224371448-224371533 chr1:224363458-224363649 65;63 K intron_retention chr1 - chr1:114423763-114424394 chr1:114423762-114423763;chr1:114424394-114424395 129;6 K cassette CUFF.21 chr1 - chr1:27436269-27480473 chr1:27436269-27440316;chr1:27440778-27480473 chr1:27440317-27440777 16;122 K cassette CUFF.100 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 103;149 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930736 78;101 N jcn_only_AA CUFF.16 chr1 - chr1:16934187-16935002;chr1:16921509-16935002 chr1:16928339-16935002 chr1:16921509-16928338;chr1:16928339-16934186 chr1:16921508-16921509;chr1:16928338-16928339 56;5 N jcn_only_AD CUFF.117 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 132;20 K coord_cassette CUFF.10 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 14;62 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 75;63 K intron_retention CUFF.10 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 116;135 K alternative_first_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877587-200877677 174;54 K jcn_only_AA CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 173;13 N jcn_only_AA CUFF.83 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 356;21 K cassette CUFF.85 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 138;115 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 250;29 K alternative_first_exon CUFF.5 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1655951-1656202 chr1:1664185-1664283 215;107 N coord_cassette CUFF.85 chr1 + chr1:167353189-167365522 chr1:167353189-167356417;chr1:167356485-167358824;chr1:167358999-167365522 chr1:167356418-167356484;chr1:167358825-167358998 41;68 K alternative_first_exon CUFF.56 chr1 - chr1:113471975-113472502,chr1:113471975-113499460;chr1:113471975-113498656;chr1:113471975-113478445 chr1:113471975-113497897 chr1:113498657-113498975;chr1:113478446-113478696 chr1:113497898-113498655 583;66 N alternative_donor CUFF.53 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 737;48 N jcn_only_AD CUFF.53 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 127;606 N intron_retention chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 83;65 K cassette CUFF.45 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 262;224 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11713447;chr1:11710892-11714375 chr1:11710892-11715696 chr1:11713448-11713668;chr1:11714376-11714739 chr1:11715697-11715795 252;78 N alternative_donor CUFF.36 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356968-54357949 chr1:54356967-54356968 118;7 K jcn_only_AA CUFF.10 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 116;227 N jcn_only_AA CUFF.75 chr1 - chr1:156450570-156452228 chr1:156450764-156452228 chr1:156450570-156450763 chr1:156450569-156450570 6;43 K alternative_last_exon CUFF.117 chr1 - chr1:247320520-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320706-247322307 chr1:247320194-247320519;chr1:247301448-247302059;chr1:247285277-247287173 chr1:247320608-247320705 315;28 N alternative_acceptor CUFF.6 chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 69;4 N cassette CUFF.28 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 57;235 N jcn_only_AD CUFF.6 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 373;16 K intron_retention CUFF.76 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 18;5 N intron_retention chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 13;265 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 13;33 N jcn_only_AD CUFF.42 chr1 + chr1:78445304-78546358 chr1:78512019-78546358 chr1:78445304-78512018 chr1:78445303-78445304 159;4 K cassette CUFF.19 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 37;170 K alternative_last_exon CUFF.42 chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78560636-78560716 chr1:78558441-78558488 3;71 N alternative_first_exon chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941682 2;144 K intron_retention CUFF.25 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 128;419 N jcn_only_AD CUFF.28 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 339;14 K alternative_first_exon CUFF.25 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655456-28655635 chr1:28656748-28656886 335;317 K cassette CUFF.109 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 27;74 N jcn_only_AA CUFF.6 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 423;55 K jcn_only_AD CUFF.73 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 113;123 N jcn_only_AD CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 244;22 N jcn_only_AA CUFF.6 chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 69;46 N jcn_only_AD CUFF.75 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 15;53 N intron_retention chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 54;73 N jcn_only_AD CUFF.41 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 44;33 K cassette CUFF.10 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 14;422 K alternative_donor CUFF.25 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 32;308 K alternative_last_exon CUFF.53 chr1 + chr1:110214206-110217368;chr1:110214206-110215824;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110215825-110216147;chr1:110251103-110252171 chr1:110224431-110224456 588;60 N jcn_only_AA CUFF.53,CUFF.80 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160152482-160156065 chr1:160156065-160156066 669;68 K intron_retention CUFF.10 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 227;72 N alternative_donor chr1 - chr1:106132408-106145898;chr1:106132408-106143891;chr1:106132408-106143252 chr1:106132408-106146784 chr1:106143253-106143891;chr1:106143892-106145898;chr1:106145899-106146784 chr1:106143891-106143892;chr1:106145898-106145899;chr1:106146784-106146785 195;81 N alternative_donor CUFF.49 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 57;0 N cassette CUFF.6 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 38;951 N jcn_only_AA CUFF.1408 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 195;89 N cassette CUFF.1381 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 21;20 N jcn_only_AD CUFF.1410 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 143;69 K alternative_last_exon CUFF.1381 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43822518-43822779 chr9:43819610-43821369 31;160 N jcn_only_AD CUFF.1374 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 36;388 N intron_retention chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 60;898 K alternative_first_exon CUFF.1377 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991335-34991413 chr9:34992894-34992983 30;10 K cassette CUFF.1411 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 209;254 K intron_retention CUFF.1419 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 432;34 N alternative_donor CUFF.1381 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 39;17 K jcn_only_AD CUFF.1389,CUFF.1396 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 8;7 N alternative_donor CUFF.1420 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 14;406 K alternative_donor CUFF.1403 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 80;99 N jcn_only_AD CUFF.1410 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 329;787 K intron_retention CUFF.1410 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 294;25 K cassette CUFF.1413 chr9 + chr9:133320383-133327610 chr9:133320383-133325658;chr9:133325721-133327610 chr9:133325659-133325720 51;395 N alternative_acceptor CUFF.1414 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 15;0 K intron_retention CUFF.1410 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 1216;162 N jcn_only_AA CUFF.1414 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 15;7 N alternative_donor CUFF.1374 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 36;144 K intron_retention CUFF.1412 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 271;110 N alternative_donor CUFF.1408,CUFF.1414 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 31;4 N jcn_only_AD CUFF.1374 chr9 - chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15225914 165;362 N jcn_only_AA CUFF.1381,CUFF.1407 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 84;36 K cassette CUFF.1392 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 19;119 K alternative_donor CUFF.1408 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 19;79 K cassette CUFF.1407 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 20;819 N jcn_only_AD CUFF.1396 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 134;5 N jcn_only_AD CUFF.1410 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 1069;46 N jcn_only_AA CUFF.1393 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973770-100000367 chr9:99973769-99973770 432;32 K alternative_last_exon CUFF.1374 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249587-15249685 37;39 K intron_retention CUFF.1374 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 262;109 N alternative_acceptor CUFF.1404 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 24;176 K cassette CUFF.1389 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 48;18 K intron_retention CUFF.1411 chr9 + chr9:131010215-131010861 chr9:131010214-131010215;chr9:131010861-131010862 397;68 N alternative_donor CUFF.1410 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 727;25 N cassette CUFF.1404 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 80;152 K alternative_first_exon CUFF.1420 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139777163-139793164 chr9:139784995-139793164 chr9:139780928-139780993;chr9:139777119-139777162 chr9:139784801-139784994 226;74 K intron_retention CUFF.1410 chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 1166;298 N intron_retention CUFF.1410 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 46;44 K intron_retention CUFF.1373 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 126;15 K alternative_last_exon CUFF.1411 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017526 chr9:131016288-131016441 407;42 K alternative_acceptor CUFF.1412 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 89;103 N jcn_only_AD CUFF.1410 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 833;282 K intron_retention chr9 + chr9:43908524-43915359 chr9:43908523-43908524;chr9:43915359-43915360 12;13 K cassette CUFF.1381 chr9 + chr9:43885073-43890295 chr9:43885073-43887610;chr9:43887734-43890295 chr9:43887611-43887733 58;143 K coord_cassette CUFF.1407 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 469;112 K jcn_only_AD CUFF.1403 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 80;116 K jcn_only_AD CUFF.1413 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 763;248 N alternative_donor CUFF.1410 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 994;60 K cassette CUFF.1380 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 10;153 N cassette CUFF.1398 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 21;12 N jcn_only_AA CUFF.1381 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 81;38 N cassette CUFF.1414 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 13;17 K intron_retention CUFF.1412 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 126;13 K jcn_only_AA CUFF.1408 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 67;196 K intron_retention CUFF.1377 chr9 + chr9:34990810-34993196 chr9:34990809-34990810;chr9:34993196-34993197 42;27 K mutually_exclusive CUFF.1377 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 31;136 N alternative_donor CUFF.1410 chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 470;282 K intron_retention CUFF.1377 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 177;30 K alternative_first_exon CUFF.1410 chr9 - chr9:130953142-130953558,chr9:130953142-130954133,chr9:130953142-130966464;chr9:130953142-130954010 chr9:130953142-130953710 chr9:130954011-130954109 chr9:130953711-130953897 145;1181 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 1779;51 K jcn_only_AA CUFF.1412 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 271;126 K cassette CUFF.1380 chr9 + chr9:35259048-35295692 chr9:35259048-35291065;chr9:35291102-35295692 chr9:35291066-35291101 15;14 K alternative_last_exon CUFF.1389 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506210-86506416 chr9:86513607-86513863 18;54 N jcn_only_AD CUFF.1374 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 362;129 K alternative_first_exon CUFF.1380 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35161999-35162302 chr9:35227784-35227930 9;32 N cassette CUFF.1374 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 149;310 K mutually_exclusive CUFF.1411 chr9 + chr9:130985140-130988313,chr9:130988453-130996299 chr9:130985140-130986529,chr9:130986669-130996299 chr9:130988314-130988452 chr9:130986530-130986668 124;223 N jcn_only_AD CUFF.1408,CUFF.1410 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 129;84 N alternative_acceptor CUFF.1401 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 12;1 K alternative_last_exon CUFF.1406 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906343-124906657 275;30 N jcn_only_AA CUFF.1374 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 37;362 K intron_retention CUFF.1376 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 26;51 K alternative_last_exon CUFF.1377,CUFF.1392 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600739 18;44 N alternative_donor CUFF.1408,CUFF.1410 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 555;499 K cassette CUFF.1380 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 48;188 N jcn_only_AD CUFF.1374 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357 chr9:15214248-15249915 475;53 N alternative_acceptor CUFF.1374 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 262;13 K alternative_acceptor CUFF.1401 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 172;14 K jcn_only_AA CUFF.1412 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 140;232 K jcn_only_AD CUFF.1374,CUFF.1395 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 17;32 K alternative_acceptor CUFF.1412 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 175;17 N jcn_only_AA CUFF.1374 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 371;28 K jcn_only_AA CUFF.1401 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 204;59 K cassette CUFF.1419 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 649;415 N mutually_exclusive CUFF.1410 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 33;15 N intron_retention CUFF.1419 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 31;35 N jcn_only_AA CUFF.1408 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 16;185 K jcn_only_AA CUFF.1412 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 249;123 N jcn_only_AA CUFF.1374 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 362;177 K intron_retention CUFF.1404 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 37;94 K alternative_acceptor CUFF.1412 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 120;72 K mutually_exclusive CUFF.1397 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 25;24 K intron_retention CUFF.1381 chr9 + chr9:43907538-43908111 chr9:43907537-43907538;chr9:43908111-43908112 61;14 K jcn_only_AA CUFF.1401 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 172;29 N alternative_first_exon chr9 - chr9:104239452-104251395;chr9:104239452-104249230 chr9:104239452-104242952 chr9:104249231-104249399 chr9:104242953-104243007 8;3 K intron_retention CUFF.1408 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 160;82 N alternative_donor CUFF.1410 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 559;495 N jcn_only_AA CUFF.1404 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 24;175 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667671 chr9:125655188-125655305 15;171 N jcn_only_AD CUFF.1374,CUFF.1404 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 37;76 N jcn_only_AD CUFF.1408,CUFF.1414 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 chr9:135702694-135703399 chr9:135703399-135703400 31;12 N jcn_only_AD CUFF.1374 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915 chr9:15214248-15224357 497;30 K alternative_first_exon CUFF.1410,CUFF.1412 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486273-131486495 chr9:131486231-131486267 291;27 K jcn_only_AD CUFF.1378 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 43;186 K intron_retention CUFF.1412 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 52;110 N alternative_acceptor CUFF.1381 chr9 + chr9:43853617-43861002;chr9:43853617-43854068 chr9:43853617-43861005 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 27;38 N intron_retention chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 162;443 K cassette CUFF.1415 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 10;23 K cassette CUFF.1401 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 184;49 K intron_retention CUFF.1378 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 293;1055 K alternative_last_exon CUFF.1378 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35078001-35078340 35;417 N intron_retention chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 24;155 N jcn_only_AD CUFF.1383,CUFF.1389 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 372;28 N alternative_acceptor CUFF.1408 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627937-125637647 chr9:125627936-125627937 195;39 K intron_retention CUFF.1407 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 161;54 K intron_retention CUFF.1410 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 282;122 N alternative_acceptor CUFF.1393 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973770-100000367 chr9:99973769-99973770 432;0 N alternative_donor CUFF.1420 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 414;6 N alternative_donor CUFF.1383,CUFF.1389 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 372;15 N intron_retention CUFF.1404 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 76;97 K cassette CUFF.1401 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 11;212 K alternative_last_exon CUFF.1401 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793162 140;16 N alternative_donor CUFF.1396 chr9 - chr9:104293842-104295734 chr9:104293842-104294958 chr9:104294959-104295734 chr9:104295734-104295735 134;4 N jcn_only_AD CUFF.1404 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 9;539 K jcn_only_AA CUFF.1377 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 47;366 K intron_retention chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 69;289 K mutually_exclusive CUFF.1377 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990495,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990496-34990608 31;105 K alternative_first_exon CUFF.1420 chr9 + chr9:139780732-139793164;chr9:139780994-139793164;chr9:139784995-139793164 chr9:139777163-139793164 chr9:139780928-139780993;chr9:139784801-139784994 chr9:139777119-139777162 190;110 K intron_retention CUFF.1377 chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 15;47 K cassette CUFF.1381 chr9 + chr9:43907538-43908435 chr9:43907538-43908111;chr9:43908211-43908435 chr9:43908112-43908210 7;38 N alternative_donor CUFF.1410 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 307;445 N jcn_only_AD CUFF.1381 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 39;29 N alternative_acceptor CUFF.1381 chr9 + chr9:43853617-43854068;chr9:43853617-43861005 chr9:43853617-43861002 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 42;23 N jcn_only_AD CUFF.1420 chr9 + chr9:139795129-139802521;chr9:139796849-139802521 chr9:139794973-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 28;406 K intron_retention CUFF.1383 chr9 - chr9:46686830-46687553 chr9:46686829-46686830;chr9:46687553-46687554 372;9 N alternative_donor CUFF.1374 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 362;4 K cassette CUFF.1407 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 469;98 K intron_retention CUFF.1383 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 55;60 K alternative_acceptor CUFF.1407 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 27;151 K cassette CUFF.1381 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 41;24 K jcn_only_AD CUFF.1408 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 19;140 K alternative_last_exon CUFF.1392 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592035 65;84 N jcn_only_AD CUFF.1374 chr9 - chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15224337 445;82 K intron_retention CUFF.1378 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 98;25 N alternative_acceptor CUFF.1410 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 501;26 K alternative_acceptor CUFF.1410 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 180;934 K alternative_acceptor CUFF.1412 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 271;150 K jcn_only_AA CUFF.1407 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 27;21 N cassette CUFF.1410 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 97;671 K intron_retention CUFF.1413 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 51;33 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 120;369 K alternative_first_exon CUFF.1420 chr9 + chr9:139780732-139793164;chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139784801-139784994;chr9:139777119-139777162 chr9:139780928-139780993 273;27 N jcn_only_AA CUFF.1374 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 390;9 K alternative_first_exon CUFF.1387 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161543 chr9:71160845-71161032 30;28 K alternative_first_exon CUFF.1404,CUFF.1410 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555427-123555753 chr9:123555165-123555388 142;75 K intron_retention CUFF.1412 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 32;103 K intron_retention CUFF.1407 chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 49;49 N jcn_only_AA CUFF.1381 chr9 + chr9:43853617-43854068;chr9:43853617-43861005 chr9:43853617-43861002 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 73;46 N cassette CUFF.1410 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 16;988 K cassette CUFF.1382 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 61;19 K alternative_acceptor CUFF.1377 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 47;300 K cassette CUFF.1407 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 68;134 N jcn_only_AA CUFF.1374 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 262;15 N alternative_donor CUFF.1374,CUFF.1404 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 37;76 K alternative_first_exon CUFF.1411 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002264-131002275 chr9:131003190-131003326 431;80 K jcn_only_AA CUFF.1410 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 180;1930 K alternative_acceptor CUFF.1401 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 204;50 N coord_cassette CUFF.1389 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 13;9 K cassette CUFF.1416 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 54;80 N alternative_donor CUFF.1420 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 412;8 N jcn_only_AD CUFF.1410 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 501;36 N cassette CUFF.1420 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 71;59 K cassette CUFF.1401 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 216;8 N jcn_only_AD CUFF.1401 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 12;13 K intron_retention CUFF.1420 chr9 + chr9:139794973-139802521 chr9:139794972-139794973;chr9:139802521-139802522 406;5 K intron_retention CUFF.1408 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 110;53 K cassette CUFF.1397 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 48;9 K intron_retention chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 84;133 N jcn_only_AD CUFF.1410 chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 153;60 K jcn_only_AA CUFF.1414 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 44;332 K cassette CUFF.1411 chr9 + chr9:131008783-131009653 chr9:131008783-131009215;chr9:131009403-131009653 chr9:131009216-131009402 462;53 K intron_retention CUFF.1381 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 13;48 K intron_retention CUFF.1378 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 217;43 N intron_retention CUFF.1383 chr9 - chr9:46686830-46687372 chr9:46686829-46686830;chr9:46687372-46687373 28;11 K alternative_first_exon CUFF.1413 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351707-133351776 628;17 N jcn_only_AD CUFF.1420 chr9 + chr9:139795129-139802521;chr9:139794973-139802521 chr9:139796849-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 416;18 K cassette CUFF.1413 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 105;505 K alternative_last_exon CUFF.1404 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514256-123515589 chr9:123526451-123527125 chr9:123533626-123533795 64;121 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 7;40 K alternative_acceptor CUFF.1408 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 67;92 K cassette CUFF.1377 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 135;31 K jcn_only_AA CUFF.1412 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 355;17 N alternative_donor CUFF.1401 chr9 + chr9:116795009-116798579 chr9:116797516-116798579 chr9:116795009-116797515 chr9:116795008-116795009 12;1 N alternative_first_exon CUFF.1407 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026882-125027217 chr9:125027962-125028059 219;18 N jcn_only_AA CUFF.1410 chr9 - chr9:130931799-130932298 chr9:130931980-130932298 chr9:130931799-130931979 chr9:130931798-130931799 501;38 N cassette CUFF.1407 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 73;524 N alternative_donor CUFF.1410 chr9 - chr9:130931799-130932298 chr9:130931799-130931901 chr9:130931902-130932298 chr9:130932298-130932299 501;9 K alternative_donor CUFF.1413 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 763;119 K cassette CUFF.1407 chr9 + chr9:125027218-125033142 chr9:125027218-125027740;chr9:125027825-125033142 chr9:125027741-125027824 355;54 N alternative_acceptor CUFF.1381,CUFF.1407 chr9 + chr9:43853617-43861002;chr9:43853617-43861005 chr9:43853617-43854068 chr9:43854069-43861002;chr9:43861003-43861005 chr9:43861002-43861003;chr9:43861005-43861006 61;4 N coord_cassette CUFF.1381 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 26;16 N jcn_only_AD CUFF.1420 chr9 + chr9:139794973-139802521;chr9:139796849-139802521 chr9:139795129-139802521 chr9:139794973-139795128;chr9:139795129-139796848 chr9:139794972-139794973;chr9:139795128-139795129 424;10 K intron_retention CUFF.1377 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 43;32 N jcn_only_AA CUFF.1401 chr9 + chr9:116795009-116798579 chr9:116795009-116797470 chr9:116797471-116798579 chr9:116798579-116798580 12;10 K intron_retention CUFF.1419 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 103;148 N alternative_acceptor CUFF.1374 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 362;4 K intron_retention CUFF.1410 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 787;52 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 32;349 N jcn_only_AA chr8 - chr8:56668971-56685827 chr8:56676540-56685827 121;309 K alternative_last_exon CUFF.1369 chr8 + chr8:144351691-144356889;chr8:144351691-144356873 chr8:144351691-144354565 chr8:144356874-144357910 chr8:144354566-144354644 605;74 N intron_retention chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 402;121 K coord_cassette CUFF.1359 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 48;96 K alternative_last_exon CUFF.1361,CUFF.1369 chr8 + chr8:118541049-118552121 chr8:118541049-118542961 chr8:118552122-118552501 chr8:118542962-118543066 11;18 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 26;35 K alternative_donor CUFF.1341 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 254;138 K alternative_last_exon CUFF.1369 chr8 + chr8:144356973-144358172;chr8:144356973-144358066 chr8:144356973-144357364,chr8:144356973-144357147 chr8:144358067-144359101 chr8:144357365-144357910 429;388 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 45;33 K alternative_first_exon CUFF.1369 chr8 + chr8:144349655-144356873 chr8:144351691-144356873 chr8:144349512-144349654 chr8:144351484-144351690 15;504 N cassette CUFF.1341 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 26;410 N jcn_only_AA CUFF.1335,CUFF.1364 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 48;72 K intron_retention CUFF.1330 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 122;30 N alternative_acceptor CUFF.1335,CUFF.1364 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 48;6 K jcn_only_AA CUFF.1369 chr8 + chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364 chr8:144357364-144357365 113;49 N jcn_only_AD chr8 - chr8:99055004-99057574;chr8:99055004-99057054 chr8:99055004-99057170 77;170 N alternative_donor chr8 - chr8:56652778-56657619;chr8:56652778-56656039 chr8:56652778-56663522 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 17;45 K alternative_first_exon CUFF.1320,CUFF.1348 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085477 chr8:96084945-96085148 32;5 N mutually_exclusive CUFF.1341 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 75;12 N jcn_only_AA chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 14;52 N jcn_only_AD CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106331983-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 149;10 K intron_retention CUFF.1320 chr8 - chr8:22012145-22012904 chr8:22012144-22012145;chr8:22012904-22012905 159;21 K intron_retention CUFF.1321 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 215;44 K alternative_acceptor CUFF.1349 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 105;20 N alternative_acceptor chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 79;25 K jcn_only_AA CUFF.1320 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 49;94 K intron_retention CUFF.1350 chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 754;24 N jcn_only_AD chr8 - chr8:56668971-56685827;chr8:56668971-56676494 chr8:56668971-56675193 174;402 N jcn_only_AA CUFF.1331 chr8 - chr8:56652778-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56657681-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1515;294 N jcn_only_AA CUFF.1356 chr8 + chr8:106801153-106810951 chr8:106801153-106807983 chr8:106807984-106810951 chr8:106810951-106810952 25;23 N jcn_only_AD CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106427235-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 80;79 K cassette CUFF.1365 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 20;203 N jcn_only_AA chr8 - chr8:56675588-56676494;chr8:56676261-56676494 chr8:56668971-56676494 474;54 N jcn_only_AA CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56637819-56663522 chr8:56656180-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1664;146 K alternative_first_exon CUFF.1320,CUFF.1365 chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22014509-22014583 chr8:22013850-22014381 48;59 K cassette CUFF.1362 chr8 - chr8:120807872-120809901 chr8:120807872-120809229;chr8:120809344-120809901 chr8:120809230-120809343 378;4 N jcn_only_AD chr8 - chr8:56668971-56675193;chr8:56668971-56685827 chr8:56668971-56676494 523;54 N jcn_only_AD CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106331210-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 153;6 N jcn_only_AD CUFF.1362 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 106;36 K intron_retention CUFF.1350 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 742;28 K alternative_last_exon CUFF.1321 chr8 - chr8:23186079-23190913,chr8:23186100-23190913 chr8:23189522-23190913 chr8:23185895-23186078 chr8:23189445-23189521 212;23 K intron_retention CUFF.1350 chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 152;323 N intron_retention chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 88;355 K cassette CUFF.1330 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 131;19 N jcn_only_AD chr8 - chr8:56675588-56675980;chr8:56675588-56676494 chr8:56675588-56676195 423;51 K alternative_first_exon CUFF.1359 chr8 + chr8:107670414-107691437,chr8:107670314-107691437;chr8:107593480-107691437;chr8:107630412-107691437 chr8:107531368-107691437 chr8:107593382-107593479;chr8:107630324-107630411 chr8:107531171-107531367 250;57 K alternative_first_exon CUFF.1340 chr8 + chr8:75233824-75272371,chr8:75263557-75272371,chr8:75263702-75272371;chr8:75233481-75272371 chr8:75262814-75272371 chr8:75233365-75233480 chr8:75262584-75262813 249;49 N jcn_only_AA chr8 - chr8:56668971-56676494;chr8:56675588-56676494 chr8:56676261-56676494 393;135 N alternative_acceptor chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 49;13 K alternative_first_exon CUFF.1326 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648796 chr8:30643948-30644070 533;359 K alternative_first_exon CUFF.1318,CUFF.1326 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 7;157 K cassette CUFF.1362 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 12;51 N alternative_acceptor CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56637819-56663522 chr8:56656180-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1340;6 K intron_retention chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 870;32 N alternative_donor CUFF.1339 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 43;130 K alternative_first_exon CUFF.1345 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192598-82192909 chr8:82193328-82193548 227;21 N jcn_only_AA CUFF.1367 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 313;39 N alternative_donor CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106427235-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 8;1 N alternative_donor CUFF.1359 chr8 + chr8:107738486-107749747;chr8:107726214-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 45;0 N jcn_only_AD chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 146;97 K jcn_only_AD CUFF.1341 chr8 - chr8:80956444-80962679 chr8:80956444-80962580 chr8:80962581-80962679 chr8:80962679-80962680 254;265 N intron_retention chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 30;257 K alternative_first_exon CUFF.1361 chr8 + chr8:118541049-118552121 chr8:118543067-118552121 chr8:118540890-118541048 chr8:118542587-118543066 31;61 N cassette CUFF.1359 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 59;76 N jcn_only_AD chr8 - chr8:30657272-30667505;chr8:30657272-30669835 chr8:30657272-30671402 507;330 N jcn_only_AA chr8 - chr8:56663717-56668802 chr8:56664106-56668802 553;169 N jcn_only_AA CUFF.1341 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 722;376 K alternative_last_exon CUFF.1341 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80948822-80950470 153;743 N alternative_donor CUFF.1356 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 116;0 N jcn_only_AD CUFF.1339 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 216;11 K cassette CUFF.1320 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 3;170 K intron_retention CUFF.1361 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 26;57 N jcn_only_AD chr8 - chr8:103573246-103574850 chr8:103573246-103573611 15;9 N alternative_donor CUFF.1339 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 162;11 N jcn_only_AD chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 457;87 K intron_retention CUFF.1320 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 170;17 K alternative_first_exon CUFF.1339 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884585-74884856 chr8:74885134-74885228 373;11 N intron_retention chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 121;90 N jcn_only_AD CUFF.1350 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 102;196 N alternative_donor CUFF.1356 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 25;1 K alternative_first_exon CUFF.1325,CUFF.1366 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133855402 64;127 N alternative_donor CUFF.1359 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 387;2 N jcn_only_AD chr8 - chr8:56663717-56668802;chr8:56663717-56663979 chr8:56663717-56675193 704;88 N alternative_donor CUFF.1362 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 106;8 K alternative_last_exon CUFF.1340,CUFF.1369 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401106 chr8:75276220-75276962 127;400 K alternative_first_exon CUFF.1330 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008783 chr8:38006594-38006681 50;42 K intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 49;381 N jcn_only_AD CUFF.1356 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 83;4 K alternative_acceptor CUFF.1321 chr8 - chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099 chr8:23186078-23186079 113;55 N jcn_only_AD CUFF.1317 chr8 + chr8:7123432-7124095 chr8:7123438-7124095 chr8:7123432-7123437 chr8:7123431-7123432 chr8:7124096-7125058;chr8:7123323-7123431 2;10 K jcn_only_AA CUFF.1321 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 51;74 N jcn_only_AD chr8 - chr8:56675588-56676195;chr8:56675588-56675980 chr8:56675588-56676494 135;339 N alternative_donor chr8 - chr8:56656180-56663522 chr8:56656180-56657619 chr8:56657620-56663522 chr8:56663522-56663523 146;13 N alternative_acceptor CUFF.1350 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 47;335 N alternative_donor CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371;chr8:106331983-106431371 chr8:106400154-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 9;0 K cassette CUFF.1347 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 9;99 K alternative_last_exon CUFF.1369 chr8 + chr8:144349655-144356873 chr8:144349655-144351529 chr8:144356874-144357910 chr8:144351530-144351690 28;400 N jcn_only_AD chr8 - chr8:56663717-56675193;chr8:56663717-56668802 chr8:56663717-56663979 640;151 N alternative_acceptor CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56652778-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1343;3 N jcn_only_AD chr8 - chr8:56663717-56675193;chr8:56663717-56663979 chr8:56663717-56668802 239;553 N alternative_donor CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106331210-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 3;6 K intron_retention CUFF.1330 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 46;20 N jcn_only_AD CUFF.1339 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 47;180 K jcn_only_AA CUFF.1325 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 97;46 N cassette CUFF.1321 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 28;101 K alternative_acceptor CUFF.1369 chr8 + chr8:144356973-144357364 chr8:144356973-144357147 chr8:144357148-144357364 chr8:144357364-144357365 113;304 N alternative_donor CUFF.1319 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 27;57 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 25;138 K jcn_only_AA CUFF.1321 chr8 - chr8:23186079-23190913 chr8:23186100-23190913 chr8:23186079-23186099 chr8:23186078-23186079 113;88 N jcn_only_AA CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56652778-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1765;45 N alternative_acceptor CUFF.1359 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 302;2 N alternative_donor CUFF.1359 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 3;42 N jcn_only_AD CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371;chr8:106331983-106431371 chr8:106400154-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 109;50 N alternative_acceptor CUFF.1370 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 127;4 K alternative_acceptor CUFF.1330 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 122;39 N jcn_only_AA chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 79;47 N jcn_only_AD CUFF.1356 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106370866-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 145;14 K alternative_acceptor CUFF.1320 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 49;51 N intron_retention chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 170;305 N alternative_donor CUFF.1339 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 141;32 K intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 297;235 N alternative_donor CUFF.1341 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 722;93 K jcn_only_AA CUFF.1330 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 122;46 N intron_retention CUFF.1341 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 52;49 N jcn_only_AA CUFF.1362 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 106;19 K alternative_first_exon CUFF.1341,CUFF.1365 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963430-126963581 chr8:126963158-126963426 27;175 K cassette CUFF.1359 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 48;141 N jcn_only_AD CUFF.1359 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 29;10 N jcn_only_AA CUFF.1323,CUFF.1369 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27528417-27534085 chr8:27534085-27534086 chr8:27516013-27517056;chr8:27534086-27534293 9;10 N jcn_only_AD CUFF.1356 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456610-106541197 chr8:106456609-106456610 116;4 N jcn_only_AD CUFF.1362 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;39 N jcn_only_AA chr8 - chr8:56663717-56675193 chr8:56668971-56675193 88;402 N cassette CUFF.1341 chr8 - chr8:80956444-80963761 chr8:80956444-80962580;chr8:80962707-80963761 chr8:80962581-80962706 15;366 K intron_retention CUFF.1330 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 24;28 N alternative_donor CUFF.1317 chr8 + chr8:7123432-7124095 chr8:7123438-7124095 chr8:7123432-7123437 chr8:7123431-7123432 chr8:7124096-7125058;chr8:7123323-7123431 2;5 N cassette CUFF.1340 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 84;223 N alternative_donor CUFF.1356 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371;chr8:106331983-106431371 chr8:106370866-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 9;0 K alternative_last_exon CUFF.1335,CUFF.1372 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824309 49;68 N intron_retention chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 108;133 N jcn_only_AA CUFF.1350 chr8 - chr8:99055004-99057574 chr8:99057317-99057574 chr8:99055004-99057316 chr8:99055003-99055004 47;742 N jcn_only_AA CUFF.1359 chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 302;175 K alternative_first_exon CUFF.1334 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224525 43;18 N jcn_only_AD chr8 - chr8:30657272-30671402;chr8:30657272-30669835 chr8:30657272-30667505 527;310 N intron_retention chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 51;51 K alternative_last_exon CUFF.1356 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106573591-106573709 chr8:106463786-106463879 83;18 N alternative_acceptor CUFF.1323,CUFF.1369 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27528417-27534085 chr8:27534085-27534086 chr8:27516013-27517056;chr8:27534086-27534293 9;10 N cassette CUFF.1341 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 508;294 K alternative_first_exon CUFF.1372 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821549-144821673 8;42 N jcn_only_AD CUFF.1359 chr8 + chr8:107738486-107749747;chr8:107726214-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 160;6 N jcn_only_AA chr8 - chr8:56668971-56676494;chr8:56676261-56676494 chr8:56675588-56676494 188;339 K intron_retention CUFF.1330 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 23;32 N jcn_only_AD CUFF.1359 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 124;42 N cassette CUFF.1341 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 552;443 N alternative_acceptor CUFF.1331 chr8 - chr8:56652778-56663522;chr8:56637819-56663522;chr8:56656180-56663522 chr8:56657681-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 1334;12 K intron_retention CUFF.1341 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 456;21 N jcn_only_AD CUFF.1359 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 48;118 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 30;138 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 30;178 N alternative_acceptor CUFF.1356 chr8 + chr8:106801153-106810951 chr8:106801153-106807983 chr8:106807984-106810951 chr8:106810951-106810952 25;2 K intron_retention CUFF.1330 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 131;28 N alternative_donor CUFF.1359 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371865-107460276 chr8:107371864-107371865 29;0 N jcn_only_AD chr8 - chr8:99055004-99057170;chr8:99055004-99057054 chr8:99055004-99057574 200;47 N intron_retention chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 54;225 K cassette CUFF.1321 chr8 - chr8:23225948-23261466 chr8:23225948-23239903;chr8:23240027-23261466 chr8:23239904-23240026 149;19 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 174;112 N jcn_only_AD CUFF.1359 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 387;40 N alternative_donor CUFF.1362 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 5;2 N alternative_acceptor CUFF.1362 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 106;5 N intron_retention chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 294;58 N jcn_only_AD chr8 - chr8:56675588-56676195;chr8:56675588-56676494 chr8:56675588-56675980 390;84 N jcn_only_AD chr8 - chr8:56668971-56675193;chr8:56668971-56676494 chr8:56668971-56685827 456;121 K alternative_acceptor CUFF.1316 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 16;11 N jcn_only_AA CUFF.1370 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 127;21 N jcn_only_AA chr8 - chr8:56652778-56657619 chr8:56656180-56657619 57;97 N alternative_donor CUFF.1356 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 83;0 N alternative_acceptor CUFF.1367 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143927811-143995378 chr8:143995378-143995379 313;0 K alternative_first_exon CUFF.1370 chr8 + chr8:144373781-144375141,chr8:144374455-144375141;chr8:144373029-144375141 chr8:144373938-144375141 chr8:144372915-144373028 chr8:144373081-144373937 119;126 K cassette CUFF.1339 chr8 + chr8:74888197-74890990 chr8:74888197-74888539;chr8:74888727-74890990 chr8:74888540-74888726 495;264 N alternative_donor CUFF.1359 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 42;3 K alternative_last_exon CUFF.1350 chr8 - chr8:99055004-99057170;chr8:99037967-99057170 chr8:99054947-99057170 chr8:99037079-99037966 chr8:99054873-99054946 197;109 K alternative_first_exon CUFF.1325,CUFF.1348 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605680 chr8:29592687-29592739 36;64 N alternative_donor CUFF.1350 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 49;13 K jcn_only_AA CUFF.1335 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 112;356 K alternative_first_exon CUFF.1359 chr8 + chr8:107670414-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107593480-107691437 chr8:107630412-107691437 chr8:107531171-107531367;chr8:107593382-107593479 chr8:107630324-107630411 272;35 N intron_retention chr8 + chr8:30643137-30643636 chr8:30643136-30643137;chr8:30643636-30643637 6;22 K alternative_first_exon CUFF.1359 chr8 + chr8:107670414-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107630412-107691437 chr8:107593480-107691437 chr8:107531171-107531367;chr8:107630324-107630411 chr8:107593382-107593479 109;198 N alternative_donor chr8 - chr8:56652778-56663522;chr8:56652778-56656039 chr8:56652778-56657619 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 58;4 N jcn_only_AD chr8 - chr8:56652778-56657619;chr8:56652778-56656039 chr8:56652778-56663522 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 254;45 N jcn_only_AD CUFF.1330 chr8 - chr8:99055004-99057170;chr8:99055004-99057574 chr8:99055004-99057054 218;30 K alternative_last_exon CUFF.1339 chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74895018 chr8:74891314-74891369 5;270 N jcn_only_AD CUFF.1319 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 27;114 N alternative_acceptor CUFF.1341 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 722;66 K alternative_first_exon CUFF.1350 chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057943-99058767 chr8:99057736-99057913 67;437 N alternative_acceptor CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56656180-56663522 chr8:56637819-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 21;1325 K jcn_only_AA CUFF.1364 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 56;46 N jcn_only_AD CUFF.1367 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 253;25 N jcn_only_AD CUFF.1339 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 191;36 K jcn_only_AA CUFF.1349 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 105;42 K jcn_only_AA CUFF.1316 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 16;21 N jcn_only_AD chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 395;149 N jcn_only_AA chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 49;223 N jcn_only_AD chr8 - chr8:56652778-56663522;chr8:56652778-56656039 chr8:56652778-56657619 chr8:56656040-56657619;chr8:56657620-56663522 chr8:56657619-56657620;chr8:56663522-56663523 241;57 K cassette CUFF.1370 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 175;35 N alternative_acceptor chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 14;4 N cassette CUFF.1341 chr8 - chr8:80976829-81083659 chr8:80976829-81032049;chr8:81032120-81083659 chr8:81032050-81032119 45;81 N intron_retention chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 47;42 N jcn_only_AA CUFF.1331 chr8 - chr8:56657681-56663522;chr8:56652778-56663522;chr8:56656180-56663522 chr8:56637819-56663522 chr8:56637819-56652777;chr8:56652778-56656179;chr8:56656180-56657680 chr8:56637818-56637819;chr8:56652777-56652778;chr8:56656179-56656180 485;1325 K intron_retention CUFF.1355 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 253;48 N alternative_donor CUFF.1356 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106331983-106431371 chr8:106331210-106331982;chr8:106331983-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106331982-106331983;chr8:106370865-106370866;chr8:106400153-106400154 7;2 K intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 30;33 N alternative_donor CUFF.1367 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915706-143916284 chr8:143915705-143915706 253;7 K intron_retention CUFF.1341 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 722;71 K intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 113;422 N jcn_only_AD CUFF.1356 chr8 + chr8:106801153-106810951 chr8:106809135-106810951 chr8:106801153-106809134 chr8:106801152-106801153 25;20 N jcn_only_AD chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 236;309 N jcn_only_AD chr8 - chr8:30657272-30667505;chr8:30657272-30671402 chr8:30657272-30669835 639;197 N jcn_only_AD CUFF.1341 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 722;253