#Contains_Novel_or_Only_Known(Annotated)_Junctions as_event_type gene_name chr strand exclusion_junctions inclusion_junctions exclusion_exons inclusion_exons intron-exon_junctions neighboring_constitutive_exons sample N cassette CUFF.1051 chr4 - chr4:107847107-108109583 chr4:107847107-108049098;chr4:108049167-108109583 chr4:108049099-108049166 77.27 N jcn_only_AD CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 67.50 K alternative_acceptor CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 55.56 K intron_retention CUFF.355 chr14 - chr14:75130526-75130601 chr14:75130525-75130526;chr14:75130601-75130602 4.57 N jcn_only_AA CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 8.94 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127359991-127396835 chr5:127292614-127396835 chr5:127302269-127302620;chr5:127359827-127359990 chr5:127292496-127292613 22.17 N jcn_only_AA CUFF.602 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 97.21 N jcn_only_AD CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 15.48 N alternative_donor CUFF.1174 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 35.77 N jcn_only_AD chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 94.29 N jcn_only_AA CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 2.89 N alternative_acceptor CUFF.686 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 20.69 N cassette CUFF.921 chr22 + chr22:45182487-45204186 chr22:45182487-45197956;chr22:45198045-45204186 chr22:45197957-45198044 72.76 N cassette CUFF.71 chr1 - chr1:156449139-156450625 chr1:156449139-156449377;chr1:156449589-156450625 chr1:156449378-156449588 33.54 N jcn_only_AD CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79355676 chr17:79354385-79358745 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 25.43 N intron_retention chr22 + chr22:20748625-20748852 chr22:20748624-20748625;chr22:20748852-20748853 chr22:20748405-20748624;chr22:20748853-20748952 88.89 N alternative_acceptor CUFF.1062 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 8.33 K alternative_first_exon CUFF.55 chr1 - chr1:120548212-120611947 chr1:120548212-120572528 chr1:120611948-120612325 chr1:120572529-120572610 5.33 N alternative_acceptor CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 29.79 N jcn_only_AD CUFF.249 chr12 - chr12:332401-333157;chr12:332401-332911 chr12:332401-344255 12.15 N jcn_only_AA CUFF.277 chr12 - chr12:48396825-48398019;chr12:48393909-48398019 chr12:48394878-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 62.66 N jcn_only_AD CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 50.00 N jcn_only_AA CUFF.349 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 8.82 N alternative_acceptor chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 92.16 K intron_retention CUFF.206 chr11 - chr11:62364005-62364108 chr11:62364004-62364005;chr11:62364108-62364109 17.54 K alternative_first_exon CUFF.130 chr10 + chr10:43572780-43607546 chr10:43606914-43607546 chr10:43572460-43572779 chr10:43606655-43606913 20.83 N cassette CUFF.1296 chr8 - chr8:80965666-81083659 chr8:80965666-80976712;chr8:80976829-81083659 chr8:80976713-80976828 93.17 K intron_retention CUFF.1222 chr7 + chr7:73106977-73107658 chr7:73106976-73106977;chr7:73107658-73107659 21.15 N coord_cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3952865;chr4:3952947-3954837 chr4:3948871-3949734;chr4:3949817-3949947;chr4:3952866-3952946 94.44 K cassette CUFF.391 chr15 + chr15:40558697-40564424 chr15:40558697-40559123;chr15:40559199-40564424 chr15:40559124-40559198 11.11 N intron_retention chr1 + chr1:11082299-11083249 chr1:11082298-11082299;chr1:11083249-11083250 69.05 K cassette CUFF.178 chr11 + chr11:2466715-2549157 chr11:2466715-2542708;chr11:2542801-2549157 chr11:2542709-2542800 40.26 N alternative_donor CUFF.517 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 0.00 K cassette CUFF.1367 chr9 + chr9:133333977-133342111 chr9:133333977-133339497;chr9:133339555-133342111 chr9:133339498-133339554 43.37 K jcn_only_AA CUFF.1361 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 30.11 N cassette CUFF.383 chr15 + chr15:25225232-25244116 chr15:25225232-25226921;chr15:25227585-25244116 chr15:25226922-25227584 17.01 N jcn_only_AA CUFF.1195 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 6.15 K intron_retention CUFF.846 chr2 + chr2:220100308-220100429 chr2:220100307-220100308;chr2:220100429-220100430 27.43 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 18.52 N alternative_donor CUFF.1054 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 32.43 K intron_retention CUFF.1257 chr7 + chr7:150814865-150815296 chr7:150814864-150814865;chr7:150815296-150815297 6.23 N jcn_only_AD CUFF.585 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 54.90 N jcn_only_AD chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 4.75 N intron_retention chr7 + chr7:107221023-107221203 chr7:107221022-107221023;chr7:107221203-107221204 84.44 N alternative_acceptor CUFF.601 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 0.75 N jcn_only_AD CUFF.1238 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 1.92 N jcn_only_AA CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483785-43484464 chr6:43483926-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 39.09 K mutually_exclusive CUFF.30 chr1 + chr1:32541424-32542764,chr1:32542920-32557275 chr1:32541424-32542363,chr1:32542448-32557275 chr1:32542765-32542919 chr1:32542364-32542447 62.61 K intron_retention CUFF.126 chr10 - chr10:35360268-35379357 chr10:35360267-35360268;chr10:35379357-35379358 37.50 K intron_retention CUFF.541 chr17 - chr17:15586686-15587509 chr17:15586685-15586686;chr17:15587509-15587510 45.61 K intron_retention chr17 - chr17:79479387-79479759 chr17:79479386-79479387;chr17:79479759-79479760 12.85 N jcn_only_AD CUFF.401 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 60.00 K alternative_acceptor CUFF.856 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 19.92 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 44.87 N alternative_donor chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 68.40 K alternative_acceptor CUFF.269 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 56.67 N jcn_only_AD CUFF.401 chr15 - chr15:84874072-84898653 chr15:84874072-84898603 69.23 N alternative_first_exon CUFF.951 chr3 - chr3:49354912-49362134 chr3:49354912-49355741 chr3:49362135-49362196 chr3:49355742-49356217 73.53 K jcn_only_AD CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 64.49 N alternative_donor CUFF.872 chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 0.00 N jcn_only_AA CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 19.80 K intron_retention chr3 - chr3:141712428-141713861 chr3:141712427-141712428;chr3:141713861-141713862 5.27 N mutually_exclusive CUFF.991 chr3 - chr3:141712428-141724282,chr3:141724387-141811902 chr3:141712428-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 7.64 K alternative_donor CUFF.910 chr22 + chr22:29534771-29536269 chr22:29534822-29536269 chr22:29534771-29534821 chr22:29534770-29534771 93.10 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 15.91 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:2006819-2066700;chr1:2036335-2066700;chr1:2006207-2066700 chr1:1991031-2066700 chr1:2006629-2006818;chr1:2036131-2036334;chr1:2006089-2006206 chr1:1990980-1991030 9.93 K intron_retention CUFF.683 chr19 + chr19:18119038-18119262 chr19:18119037-18119038;chr19:18119262-18119263 50.00 N alternative_donor CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 32.35 K jcn_only_AA CUFF.660,CUFF.728 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 13.64 K intron_retention CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216453-175216454;chr2:175243650-175243651 55.84 N jcn_only_AD CUFF.1208 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 77.78 N jcn_only_AA chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 3.00 N alternative_donor CUFF.985 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 15.74 K jcn_only_AD CUFF.357 chr14 + chr14:76187047-76198680 chr14:76198577-76198680 23.33 N alternative_acceptor CUFF.160 chr10 + chr10:106976881-106982873 chr10:106976881-106977601 chr10:106977602-106982873 chr10:106982873-106982874 25.00 N mutually_exclusive CUFF.452 chr15 - chr15:90414779-90421496,chr15:90421533-90431752 chr15:90414779-90420537,chr15:90420657-90431752 chr15:90421497-90421532 chr15:90420538-90420656 79.84 N intron_retention chr9 - chr9:130952636-130953103 chr9:130952635-130952636;chr9:130953103-130953104 89.68 N cassette CUFF.1110 chr5 + chr5:137520887-137521649 chr5:137520887-137521200;chr5:137521400-137521649 chr5:137521201-137521399 84.62 N jcn_only_AA chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 87.33 K alternative_first_exon CUFF.1202,CUFF.1211 chr7 - chr7:22233652-22259484 chr7:22233652-22234187 chr7:22259485-22259610 chr7:22234188-22234402 49.21 K jcn_only_AD CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 82.94 N alternative_acceptor CUFF.784 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 76.25 N jcn_only_AA CUFF.409 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 2.47 N intron_retention chr19 + chr19:4311877-4323568 chr19:4311876-4311877;chr19:4323568-4323569 89.67 K intron_retention CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185404-15185405;chr9:15186941-15186942 25.00 N alternative_acceptor CUFF.1282 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 3.99 N jcn_only_AA chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 44.12 K alternative_first_exon CUFF.105 chr1 - chr1:224396714-224400456 chr1:224396714-224397942 chr1:224400457-224401020 chr1:224397943-224398114 37.04 N jcn_only_AA CUFF.736 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 16.24 N alternative_donor chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 83.20 K intron_retention CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607897-153607898;chrX:153608049-153608050 86.01 K intron_retention CUFF.231 chr11 + chr11:115267610-115267983 chr11:115267609-115267610;chr11:115267983-115267984 25.74 K intron_retention CUFF.769 chr2 - chr2:61719884-61720049 chr2:61719883-61719884;chr2:61720049-61720050 63.64 N alternative_donor CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 0.36 K cassette CUFF.193 chr11 - chr11:10827595-10828801 chr11:10827595-10828366;chr11:10828433-10828801 chr11:10828367-10828432 49.32 N intron_retention chr2 + chr2:3469480-3482616 chr2:3469479-3469480;chr2:3482616-3482617 32.89 N alternative_donor chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 52.94 K intron_retention CUFF.1036 chr4 - chr4:68927570-68927629 chr4:68927569-68927570;chr4:68927629-68927630 61.54 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 5.00 K cassette CUFF.806 chr2 + chr2:160602449-160608912 chr2:160602449-160604315;chr2:160605415-160608912 chr2:160604316-160605414 64.73 N alternative_donor CUFF.917 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 0.00 K intron_retention CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368422-31368423;chr16:31368654-31368655 25.00 K intron_retention CUFF.728 chr19 + chr19:52909897-52918376 chr19:52909896-52909897;chr19:52918376-52918377 93.22 N alternative_donor CUFF.964 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 0.00 K alternative_donor CUFF.276,CUFF.307 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 80.71 K intron_retention CUFF.925 chr22 - chr22:51017089-51017464 chr22:51017088-51017089;chr22:51017464-51017465 72.06 K intron_retention CUFF.471 chr16 + chr16:2203224-2203319 chr16:2203223-2203224;chr16:2203319-2203320 4.45 N intron_retention CUFF.208 chr11 + chr11:63999437-63999865 chr11:63999436-63999437;chr11:63999865-63999866 chr11:63999343-63999436 67.16 N alternative_donor CUFF.758 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 0.00 N alternative_first_exon chr14 - chr14:59941245-59942586 chr14:59941245-59941445 chr14:59942587-59942616 chr14:59941446-59941700 29.76 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 2.33 K cassette CUFF.846 chr2 + chr2:220094623-220096649 chr2:220094623-220094949;chr2:220095128-220096649 chr2:220094950-220095127 63.74 N cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953984;chr11:102954056-102962515 chr11:102953985-102954055 86.25 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 13.79 N alternative_donor CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 62.16 N alternative_donor CUFF.1311 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106370866-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 0.00 K alternative_donor CUFF.303 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 80.32 K cassette CUFF.191 chr11 - chr11:8483457-8494709 chr11:8483457-8486255;chr11:8486370-8494709 chr11:8486256-8486369 90.35 K intron_retention CUFF.846 chr2 + chr2:220100818-220101043 chr2:220100817-220100818;chr2:220101043-220101044 7.48 K alternative_first_exon CUFF.460 chr15 - chr15:102194934-102197124 chr15:102194934-102196069 chr15:102197125-102197239 chr15:102196070-102196146 12.12 N alternative_donor CUFF.350 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 6.54 K jcn_only_AA CUFF.796,CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 87.21 N alternative_donor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 1.21 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 13.46 K intron_retention CUFF.1262 chr7 - chr7:156473269-156474522 chr7:156473268-156473269;chr7:156474522-156474523 69.09 K alternative_first_exon CUFF.1211,CUFF.1248 chr7 - chr7:37954056-37966281 chr7:37954056-37955694 chr7:37966282-37966376 chr7:37955695-37956517 15.79 N alternative_acceptor CUFF.1201 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 3.33 N jcn_only_AD CUFF.382 chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 25.71 N jcn_only_AD CUFF.249,CUFF.256 chr12 - chr12:332401-344255;chr12:332401-333157 chr12:332401-332911 73.83 K cassette CUFF.1111 chr5 + chr5:139866646-139884405 chr5:139866646-139876104;chr5:139876864-139884405 chr5:139876105-139876863 chr5:139866543-139866645;chr5:139884406-139884551 41.67 N jcn_only_AD CUFF.530 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 6.44 N cassette CUFF.982 chr3 + chr3:125635563-125639667 chr3:125635563-125637706;chr3:125637770-125639667 chr3:125637707-125637769 96.32 K jcn_only_AD CUFF.478 chr16 - chr16:4407261-4408367 chr16:4407261-4407968 82.95 K alternative_first_exon CUFF.241 chr11 - chr11:119230945-119243416;chr11:119230945-119252182 chr11:119230945-119234558 chr11:119243417-119243478;chr11:119252183-119252421 chr11:119234559-119234915 82.22 N cassette CUFF.1411 chrX + chrX:107369418-107374489 chrX:107369418-107372010;chrX:107372083-107374489 chrX:107372011-107372082 60.58 K intron_retention CUFF.753 chr2 - chr2:27680844-27680992 chr2:27680843-27680844;chr2:27680992-27680993 31.71 K cassette CUFF.1111 chr5 + chr5:139909382-139916973 chr5:139909382-139914946;chr5:139915124-139916973 chr5:139914947-139915123 chr5:139907769-139909381;chr5:139916974-139917174 68.67 N alternative_donor chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 9.09 K alternative_donor CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 68.57 N alternative_acceptor CUFF.273 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 73.15 K jcn_only_AD CUFF.796 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 26.83 K cassette CUFF.222 chr11 - chr11:77885630-77888784 chr11:77885630-77887933;chr11:77888032-77888784 chr11:77887934-77888031 64.91 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36399275-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 3.30 N jcn_only_AD chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 40.00 K cassette CUFF.263 chr12 + chr12:12765122-12788710 chr12:12765122-12785422;chr12:12785526-12788710 chr12:12785423-12785525 96.15 N alternative_donor CUFF.1238,CUFF.1244 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 0.00 N alternative_last_exon CUFF.431 chr15 - chr15:77544869-77577299 chr15:77576373-77577299 chr15:77544709-77544868 chr15:77576140-77576372 75.70 K alternative_last_exon CUFF.1275 chr8 + chr8:27517057-27534085 chr8:27517057-27528416 chr8:27534086-27534293 chr8:27528417-27528964 chr8:27516013-27517056 79.31 N cassette CUFF.1213 chr7 - chr7:38860866-38902144 chr7:38860866-38869853;chr7:38869929-38902144 chr7:38869854-38869928 95.47 K alternative_first_exon CUFF.1208 chr7 - chr7:37172840-37236705;chr7:37172840-37250990 chr7:37172840-37243713 chr7:37250991-37251122 chr7:37243714-37243905 4.39 N jcn_only_AA CUFF.991 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 10.39 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73975868-73975964 20.06 N alternative_donor CUFF.631 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 0.32 N intron_retention chr19 - chr19:49310332-49314240 chr19:49310331-49310332;chr19:49314240-49314241 7.84 N cassette CUFF.603 chr17 - chr17:79892366-79892801;chr17:79891253-79892801 chr17:79892366-79892528,chr17:79891253-79892528;chr17:79892622-79892801 chr17:79892529-79892621 69.43 N alternative_donor CUFF.558 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 30.84 N alternative_donor chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 37.50 N alternative_acceptor CUFF.114 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 20.00 N alternative_first_exon chr15 - chr15:77474383-77578764 chr15:77474383-77544708 chr15:77578765-77578846 chr15:77544709-77544873 91.46 K intron_retention CUFF.558 chr17 + chr17:29701148-29705905 chr17:29701147-29701148;chr17:29705905-29705906 86.47 K jcn_only_AA CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 38.61 K intron_retention CUFF.1157 chr6 - chr6:43480302-43480498 chr6:43480301-43480302;chr6:43480498-43480499 25.36 N intron_retention chr17 + chr17:29683601-29683977 chr17:29683600-29683601;chr17:29683977-29683978 7.14 N alternative_acceptor chr15 + chr15:29131425-29140665;chr15:29131425-29213842 chr15:29131425-29139019 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 0.00 N cassette CUFF.193 chr11 - chr11:10825966-10827453 chr11:10825966-10826459;chr11:10826563-10827453 chr11:10826460-10826562 96.21 N intron_retention CUFF.740 chr2 - chr2:675631-676573 chr2:675630-675631;chr2:676573-676574 71.84 K jcn_only_AD CUFF.910 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 67.86 N intron_retention CUFF.1282 chr8 - chr8:56668971-56675193 chr8:56668970-56668971;chr8:56675193-56675194 43.46 N jcn_only_AA CUFF.533 chr17 - chr17:5405193-5421065;chr17:5409298-5421065 chr17:5418838-5421065 85.51 N jcn_only_AA chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 54.55 K alternative_last_exon CUFF.547 chr17 + chr17:17380580-17394592 chr17:17380580-17388613 chr17:17394593-17396540 chr17:17388614-17388904 97.22 N intron_retention chr4 - chr4:83816001-83821229 chr4:83816000-83816001;chr4:83821229-83821230 47.83 K intron_retention CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308833-50308834;chr19:50308981-50308982 75.00 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 15.15 K alternative_first_exon CUFF.1075,CUFF.1120 chr5 - chr5:148756589-148783670 chr5:148756589-148758767 chr5:148783671-148783851 chr5:148758768-148758837 21.62 N alternative_acceptor CUFF.587 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 9.65 N jcn_only_AD chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 42.22 N alternative_acceptor chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 86.36 N cassette CUFF.297 chr12 + chr12:58018390-58018648 chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018507-58018576 10.36 N jcn_only_AA CUFF.1285 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 25.00 K alternative_donor CUFF.223 chr11 - chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706453-94706661 chr11:94706661-94706662 27.07 N alternative_donor CUFF.490 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 0.51 K intron_retention chr19 - chr19:49310332-49311012 chr19:49310331-49310332;chr19:49311012-49311013 2.86 K intron_retention CUFF.533 chr17 - chr17:5487424-5487612 chr17:5487423-5487424;chr17:5487612-5487613 58.51 K cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77888784;chr11:77889032-77899618 chr11:77888785-77889031 95.74 K alternative_first_exon CUFF.288 chr12 + chr12:54388801-54396213 chr12:54394511-54396213 chr12:54388679-54388800 chr12:54393902-54394510 75.47 N jcn_only_AD CUFF.876 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 72.22 K alternative_first_exon CUFF.743 chr2 + chr2:3392442-3405547 chr2:3393551-3405547 chr2:3391391-3392441 chr2:3393395-3393550 39.35 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107670414-107691437 chr8:107630412-107691437 chr8:107531171-107531367;chr8:107670118-107670413 chr8:107630321-107630411 16.67 N alternative_acceptor CUFF.736 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 1.75 K jcn_only_AA CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 70.77 N cassette CUFF.631 chr18 + chr18:55919287-55989656 chr18:55919287-55983213;chr18:55983265-55989656 chr18:55983214-55983264 99.02 N alternative_last_exon chr16 + chr16:77759482-77775478 chr16:77759482-77769724 chr16:77775479-77775866 chr16:77769725-77770098 29.00 K cassette CUFF.1226 chr7 + chr7:75044513-75045258 chr7:75044513-75044869;chr7:75045057-75045258 chr7:75044870-75045056 35.36 N intron_retention chr7 + chr7:107221091-107221203 chr7:107221090-107221091;chr7:107221203-107221204 47.62 N jcn_only_AD CUFF.1244 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 52.63 K cassette CUFF.1215 chr7 + chr7:44250724-44251845 chr7:44250724-44251152;chr7:44251204-44251845 chr7:44251153-44251203 71.25 N jcn_only_AA CUFF.198,CUFF.204 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 34.78 N intron_retention chr22 - chr22:21830450-21832078 chr22:21830449-21830450;chr22:21832078-21832079 33.61 N coord_cassette CUFF.494 chr16 + chr16:21964778-21974081 chr16:21964778-21968555;chr16:21968640-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968556-21968639;chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 75.00 K cassette CUFF.226 chr11 - chr11:102937297-102953476 chr11:102937297-102950637;chr11:102950727-102953476 chr11:102950638-102950726 15.13 N jcn_only_AD CUFF.894 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 42.86 K alternative_first_exon CUFF.647 chr18 + chr18:77867357-77875412 chr18:77867906-77875412 chr18:77866915-77867356 chr18:77867581-77867905 54.36 N intron_retention chr12 + chr12:13366756-13367504 chr12:13366755-13366756;chr12:13367504-13367505 86.67 N jcn_only_AA CUFF.1054 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 7.14 K intron_retention CUFF.342 chr14 + chr14:50246525-50246930 chr14:50246524-50246525;chr14:50246930-50246931 42.05 K intron_retention CUFF.1222 chr7 + chr7:73111847-73111934 chr7:73111846-73111847;chr7:73111934-73111935 40.00 N intron_retention chr1 - chr1:41486606-41487294 chr1:41486605-41486606;chr1:41487294-41487295 86.96 K intron_retention CUFF.945 chr3 - chr3:38050923-38051143 chr3:38050922-38050923;chr3:38051143-38051144 2.63 N jcn_only_AD CUFF.1237 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 14.75 K cassette CUFF.923 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188565-47188659 42.95 N jcn_only_AD CUFF.740,CUFF.752 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 20.00 K alternative_last_exon CUFF.1305 chr8 - chr8:99054947-99057170;chr8:99037967-99057170 chr8:99055004-99057170 chr8:99037079-99037966 chr8:99054873-99055003 61.34 N jcn_only_AD CUFF.32 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 19.12 N alternative_acceptor chr1 + chr1:196913069-196918584;chr1:196913069-196918565 chr1:196913069-196918746 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 60.47 N cassette CUFF.607 chr17 + chr17:80441656-80443372 chr17:80441656-80442688;chr17:80442807-80443372 chr17:80442689-80442806 39.39 N cassette CUFF.584 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777238-57784731 chr17:57776232-57777237 95.54 K cassette CUFF.1249 chr7 - chr7:127251731-127253075 chr7:127251731-127251998;chr7:127252055-127253075 chr7:127251999-127252054 91.32 N cassette CUFF.1142 chr6 + chr6:31928872-31929323 chr6:31928872-31928972;chr6:31929164-31929323 chr6:31928973-31929163 27.78 K alternative_first_exon CUFF.1239 chr7 + chr7:107204693-107205032,chr7:107204655-107205032;chr7:107204192-107205032 chr7:107204505-107205032 chr7:107203929-107204191 chr7:107204336-107204504 74.75 N intron_retention chr6 - chr6:31938156-31938369 chr6:31938155-31938156;chr6:31938369-31938370 80.37 N jcn_only_AA chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 50.00 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973090-73975964 13.27 N jcn_only_AD CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 9.21 K alternative_acceptor CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766846-67766988 chr11:67766776-67766845 chr11:67766775-67766776 63.83 N jcn_only_AA CUFF.457 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 3.17 N alternative_acceptor CUFF.528 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 5.92 N jcn_only_AD chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 51.85 N jcn_only_AD CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 21.88 K jcn_only_AD CUFF.1188 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 81.94 N alternative_donor chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 70.65 K coord_cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250441-44250530;chr7:44250622-44250723;chr7:44251153-44251203 33.61 K alternative_first_exon CUFF.572,CUFF.591 chr17 - chr17:61843555-61850136;chr17:61843555-61851971 chr17:61843555-61850771 chr17:61851972-61852136 chr17:61850772-61851135 59.57 K intron_retention ENSG00000227455.2 chr6 + chr6:165241453-165243009 chr6:165241452-165241453;chr6:165243009-165243010 4.84 N cassette CUFF.977 chr3 - chr3:120389380-120394638 chr3:120389380-120393747;chr3:120393837-120394638 chr3:120393748-120393836 64.58 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46687880;chr17:46685458-46685590 chr17:46685458-46710875 chr17:46687881-46688379;chr17:46685591-46685695 chr17:46710876-46710960 49.03 N alternative_donor CUFF.355,CUFF.367 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 0.00 N intron_retention chr2 - chr2:253116-264781 chr2:253115-253116;chr2:264781-264782 7.79 K intron_retention CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905364-2905365;chr11:2906431-2906432 91.52 K cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102953476;chr11:102953569-102953984 chr11:102953477-102953568 48.04 N jcn_only_AA CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45769966 chr15:45768751-45789310 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 20.93 K alternative_donor CUFF.678 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 chr19:16593489-16593596;chr19:16594741-16594926 51.56 K intron_retention CUFF.206 chr11 - chr11:62363810-62363929 chr11:62363809-62363810;chr11:62363929-62363930 18.52 N mutually_exclusive CUFF.355 chr14 - chr14:75143456-75151156,chr14:75151384-75152302 chr14:75143456-75149998,chr14:75150237-75152302 chr14:75151157-75151383 chr14:75149999-75150236 16.67 N alternative_donor chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 0.00 K alternative_acceptor CUFF.917 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 62.86 N alternative_donor CUFF.971 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 0.46 N jcn_only_AA CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 79.60 N alternative_donor CUFF.951,CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 0.00 N alternative_donor chr20 - chr20:61982380-61987308;chr20:61982380-61986847 chr20:61982380-62005232 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 38.46 N jcn_only_AD chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 54.72 N alternative_donor chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 16.51 N intron_retention CUFF.876 chr20 + chr20:33589889-33589961 chr20:33589888-33589889;chr20:33589961-33589962 23.08 N alternative_donor CUFF.883 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 33.33 N jcn_only_AD chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 94.26 K intron_retention CUFF.1150 chr6 + chr6:33243844-33243952 chr6:33243843-33243844;chr6:33243952-33243953 10.37 K alternative_acceptor CUFF.1364 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 40.95 N alternative_donor CUFF.13,CUFF.75 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 45.83 K cassette CUFF.1362 chr9 - chr9:130931799-130932298 chr9:130931799-130931901;chr9:130931980-130932298 chr9:130931902-130931979 22.79 N alternative_donor CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 83.69 K intron_retention CUFF.1239 chr7 + chr7:107204505-107205032 chr7:107204504-107204505;chr7:107205032-107205033 30.11 K intron_retention CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411470-4411471;chr16:4411985-4411986 42.76 K alternative_donor CUFF.1233 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 74.36 K cassette CUFF.1254 chr7 + chr7:136554166-136699566 chr7:136554166-136676933;chr7:136677012-136699566 chr7:136676934-136677011 34.15 K intron_retention CUFF.471 chr16 + chr16:2202887-2202989 chr16:2202886-2202887;chr16:2202989-2202990 9.16 K jcn_only_AD CUFF.493 chr16 + chr16:21756358-21763255 chr16:21760282-21763255 50.00 K cassette CUFF.286 chr12 - chr12:53471046-53473094 chr12:53471046-53471844;chr12:53471956-53473094 chr12:53471845-53471955 38.28 N alternative_donor CUFF.178 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 25.30 N jcn_only_AD CUFF.1262 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 37.65 K intron_retention CUFF.247 chr11 - chr11:124757110-124757253 chr11:124757109-124757110;chr11:124757253-124757254 36.59 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:647497-647640;chr4:629759-647640 chr4:645547-647640 chr4:647399-647496;chr4:629669-629758 chr4:645257-645546 3.96 K cassette CUFF.1363 chr9 + chr9:130988453-130996299 chr9:130988453-130994264;chr9:130994404-130996299 chr9:130994265-130994403 22.90 N alternative_donor chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 12.50 K cassette CUFF.49 chr1 - chr1:106132408-106145898 chr1:106132408-106143891;chr1:106144008-106145898 chr1:106143892-106144007 60.26 N jcn_only_AD CUFF.607 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 3.40 N jcn_only_AD CUFF.1313 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 16.67 K alternative_first_exon CUFF.631 chr18 + chr18:55862966-55895061;chr18:55833094-55895061 chr18:55888990-55895061 chr18:55833020-55833093 chr18:55888767-55888989 92.40 N cassette CUFF.607 chr17 + chr17:80416385-80417867 chr17:80416385-80417150;chr17:80417325-80417867 chr17:80417151-80417324 94.72 N alternative_donor chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 82.56 K intron_retention CUFF.600 chr17 - chr17:79225413-79225994 chr17:79225412-79225413;chr17:79225994-79225995 0.80 K jcn_only_AD CUFF.399 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 83.76 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6192065-6199490 chr19:6176455-6199490 82.00 K alternative_first_exon CUFF.1023 chr4 + chr4:13659479-13831403 chr4:13821896-13831403 chr4:13659371-13659478 chr4:13821716-13821895 40.21 K alternative_last_exon CUFF.208,CUFF.210 chr11 + chr11:63999437-63999865;chr11:63999437-64001365 chr11:63999437-63999981,chr11:63999437-63999901 chr11:64001366-64001758 chr11:63999982-64000086 chr11:63999343-63999436 74.88 K alternative_first_exon CUFF.763,CUFF.839 chr2 - chr2:46842325-46844108 chr2:46842325-46843725 chr2:46844109-46844258 chr2:46843726-46843824 22.95 K intron_retention CUFF.171 chr11 - chr11:406060-406141 chr11:406059-406060;chr11:406141-406142 70.51 N jcn_only_AD CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 40.79 N jcn_only_AD CUFF.872 chr20 - chr20:31115717-31172371;chr20:31115717-31120119 chr20:31115717-31123243 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 20.00 K alternative_last_exon CUFF.715,CUFF.725 chr19 + chr19:52085136-52092800 chr19:52085136-52089879 chr19:52092801-52092991 chr19:52089880-52090127 52.98 N alternative_acceptor CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 40.43 N coord_cassette CUFF.116 chr10 + chr10:6266177-6274857 chr10:6266177-6267123;chr10:6267212-6268154;chr10:6268329-6274857 chr10:6267124-6267211;chr10:6268155-6268328 68.89 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 57.58 K jcn_only_AD CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 77.78 K jcn_only_AA CUFF.375 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 68.75 N alternative_acceptor CUFF.967 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 0.00 N alternative_acceptor chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 65.62 N jcn_only_AA CUFF.736 chr2 - chr2:263369-264781;chr2:263373-264781 chr2:263763-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 5.00 N jcn_only_AD CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 6.68 N jcn_only_AD CUFF.1292 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 3.64 K intron_retention CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887329-64887330;chr5:64887698-64887699 50.00 K intron_retention CUFF.331 chr13 + chr13:103518262-103518611 chr13:103518261-103518262;chr13:103518611-103518612 44.74 N alternative_acceptor CUFF.650 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 6.25 N alternative_donor CUFF.341 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 63.83 K coord_cassette CUFF.1360 chr9 + chr9:125047567-125054027 chr9:125047567-125048058;chr9:125048226-125048317;chr9:125048446-125054027 chr9:125048059-125048225;chr9:125048318-125048445 10.73 N coord_cassette CUFF.766 chr2 + chr2:48848430-48873591 chr2:48848430-48869540;chr2:48869597-48872171;chr2:48872257-48873591 chr2:48869541-48869596;chr2:48872172-48872256 65.12 N alternative_acceptor chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 3.53 N alternative_acceptor CUFF.409 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 57.50 K intron_retention CUFF.763 chr2 - chr2:46840925-46842075 chr2:46840924-46840925;chr2:46842075-46842076 33.33 K intron_retention CUFF.698 chr19 - chr19:41350678-41351198 chr19:41350677-41350678;chr19:41351198-41351199 94.12 N alternative_acceptor CUFF.1285 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 30.00 N jcn_only_AD CUFF.631 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 40.79 N jcn_only_AD chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 50.00 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27409013 chr3:27394411-27410521 2.88 N alternative_donor CUFF.239 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 chr11:119057188-119057399;chr11:119056634-119056874 75.78 K intron_retention CUFF.180 chr11 - chr11:2906697-2906863 chr11:2906696-2906697;chr11:2906863-2906864 88.14 K jcn_only_AA CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 22.22 N alternative_last_exon CUFF.541 chr17 - chr17:15555261-15562115;chr17:15546131-15562115 chr17:15557749-15562115 chr17:15546035-15546130 chr17:15557647-15557748 41.30 N jcn_only_AD CUFF.1421 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 78.90 K intron_retention chr22 + chr22:21057981-21058106 chr22:21057980-21057981;chr22:21058106-21058107 44.93 N jcn_only_AD CUFF.917 chr22 + chr22:37699444-37705252 chr22:37700328-37705252 chr22:37699444-37700327 chr22:37699443-37699444 1.21 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25650729-25656671;chr12:25629395-25656671 chr12:25562365-25656671 chr12:25650513-25650728;chr12:25629088-25629394 chr12:25562235-25562364 37.78 K cassette CUFF.1158 chr6 + chr6:46630236-46636445 chr6:46630236-46632510;chr6:46632624-46636445 chr6:46632511-46632623 86.57 K intron_retention CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462486-49462487;chr3:49462799-49462800 43.33 K intron_retention CUFF.391 chr15 + chr15:40531337-40532799 chr15:40531336-40531337;chr15:40532799-40532800 46.41 K cassette CUFF.1369 chr9 + chr9:137772768-137775147 chr9:137772768-137774371;chr9:137774486-137775147 chr9:137774372-137774485 76.09 K intron_retention CUFF.486 chr16 + chr16:14026262-14028048 chr16:14026261-14026262;chr16:14028048-14028049 64.71 N alternative_donor CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 0.00 N jcn_only_AD CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 53.85 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 44.72 N alternative_acceptor chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 8.70 N cassette CUFF.1208 chr7 - chr7:37382368-37488277;chr7:37382368-37488462 chr7:37382368-37433424;chr7:37433521-37488277,chr7:37433521-37488462 chr7:37433425-37433520 86.03 N alternative_acceptor chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61378569-61390228 chr18:61390228-61390229 31.25 N alternative_donor CUFF.399,CUFF.422 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 5.56 K cassette CUFF.116 chr10 + chr10:6266177-6268154 chr10:6266177-6267123;chr10:6267212-6268154 chr10:6267124-6267211 13.42 N jcn_only_AA CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 75.00 N cassette CUFF.350 chr14 + chr14:61509931-61512063 chr14:61509931-61510167;chr14:61510222-61512063 chr14:61510168-61510221 87.00 N cassette CUFF.1341 chr9 - chr9:86514720-86523366 chr9:86514720-86517974;chr9:86518934-86523366 chr9:86517975-86518933 80.49 N alternative_acceptor CUFF.587 chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 89.47 N jcn_only_AA chr15 + chr15:69576672-69587411 chr15:69576672-69580746 chr15:69580747-69587411 chr15:69587411-69587412 97.76 N intron_retention chr16 - chr16:57513601-57513772 chr16:57513600-57513601;chr16:57513772-57513773 84.54 N cassette CUFF.896 chr21 - chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558967-47565330 chr21:47558794-47558966 82.02 K intron_retention CUFF.1362 chr9 - chr9:130929444-130931354 chr9:130929443-130929444;chr9:130931354-130931355 79.79 N jcn_only_AD CUFF.1219 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 52.27 K cassette CUFF.1213 chr7 - chr7:38766589-38768141 chr7:38766589-38767940;chr7:38768035-38768141 chr7:38767941-38768034 40.57 N cassette CUFF.255 chr12 + chr12:4654479-4655474;chr12:4653071-4655474 chr12:4654479-4654947,chr12:4653071-4654947;chr12:4654999-4655474 chr12:4654948-4654998 11.62 K cassette CUFF.839 chr2 - chr2:207989129-208030190 chr2:207989129-208013705;chr2:208013925-208030190 chr2:208013706-208013924 18.24 K cassette CUFF.304 chr12 - chr12:102796345-102813286 chr12:102796345-102811732;chr12:102811782-102813286 chr12:102811733-102811781 61.84 K alternative_last_exon CUFF.908 chr22 + chr22:25855483-25905149;chr22:25855483-25915889 chr22:25855483-25856833 chr22:25915890-25916129 chr22:25856834-25857645 chr22:25855383-25855482 33.63 N jcn_only_AA CUFF.1008 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 77.36 K intron_retention CUFF.945 chr3 - chr3:38051303-38051394 chr3:38051302-38051303;chr3:38051394-38051395 11.25 N alternative_donor CUFF.631 chr18 + chr18:55895121-55912658;chr18:55865102-55912658 chr18:55895140-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 69.57 K jcn_only_AD CUFF.736 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 60.26 K cassette CUFF.1381 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13834962 chrX:13825769-13825888 39.04 N alternative_acceptor CUFF.55 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 1.20 N cassette CUFF.478 chr16 - chr16:4458253-4466459 chr16:4458253-4462356;chr16:4462432-4466459 chr16:4462357-4462431 95.10 K intron_retention CUFF.299 chr12 + chr12:69237613-69237713 chr12:69237612-69237613;chr12:69237713-69237714 77.78 N jcn_only_AD CUFF.341 chr14 + chr14:50067416-50074117;chr14:50070337-50074117 chr14:50069187-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 93.13 K alternative_acceptor CUFF.210 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 74.12 K alternative_first_exon CUFF.1292 chr8 + chr8:74888197-74890990 chr8:74888727-74890990 chr8:74888065-74888196 chr8:74888456-74888726 61.93 N jcn_only_AA CUFF.325 chr13 + chr13:51805516-51825603 chr13:51805516-51819447 chr13:51819448-51825603 chr13:51825603-51825604 87.10 K alternative_donor CUFF.878 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 21.82 N intron_retention chr8 - chr8:99054947-99057170 chr8:99054946-99054947;chr8:99057170-99057171 47.97 K cassette CUFF.102 chr1 + chr1:222835675-222837339 chr1:222835675-222836229;chr1:222836374-222837339 chr1:222836230-222836373 13.89 K alternative_last_exon CUFF.613 chr18 - chr18:4775123-4946880 chr18:4807995-4946880 chr18:4775053-4775122 chr18:4807934-4807994 76.47 N jcn_only_AA CUFF.1360 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 9.90 K cassette CUFF.541 chr17 - chr17:15584268-15586349 chr17:15584268-15586174;chr17:15586266-15586349 chr17:15586175-15586265 31.61 K alternative_last_exon CUFF.1122 chr5 - chr5:162439295-162516250 chr5:162465480-162516250 chr5:162439271-162439294 chr5:162465072-162465479 76.79 N jcn_only_AD CUFF.1146 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 5.42 K cassette CUFF.120 chr10 + chr10:18280233-18284584 chr10:18280233-18282112;chr10:18282221-18284584 chr10:18282113-18282220 70.29 K alternative_acceptor CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 43.81 N jcn_only_AD CUFF.138 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 4.08 K alternative_donor CUFF.512,CUFF.517 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 24.78 N jcn_only_AA CUFF.142 chr10 - chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964;chr10:73973110-73975964 chr10:73973036-73975964 23.15 K alternative_first_exon CUFF.739 chr2 - chr2:286344-287162;chr2:286344-287582 chr2:286344-286869 chr2:287163-287261;chr2:287583-287892 chr2:286870-286951 65.62 K alternative_last_exon CUFF.363 chr14 - chr14:81728276-81737013 chr14:81734842-81737013 chr14:81727000-81728275 chr14:81734393-81734841 chr14:81737014-81737216 89.39 N jcn_only_AA chr14 - chr14:104251252-104263707;chr14:104245159-104263707 chr14:104261001-104263707 19.39 N alternative_last_exon chr12 + chr12:26164755-26208168 chr12:26164755-26173077 chr12:26208169-26208379 chr12:26173078-26173434 90.36 K jcn_only_AD CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 81.42 K intron_retention CUFF.286 chr12 - chr12:53468569-53468878 chr12:53468568-53468569;chr12:53468878-53468879 28.34 N intron_retention CUFF.593 chr17 + chr17:61904875-61905478 chr17:61904874-61904875;chr17:61905478-61905479 chr17:61904778-61904874 51.24 N jcn_only_AA CUFF.341 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 2.33 K alternative_acceptor CUFF.188 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 80.00 K intron_retention CUFF.729 chr19 + chr19:54657578-54658995 chr19:54657577-54657578;chr19:54658995-54658996 51.92 N jcn_only_AA chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 86.67 N jcn_only_AA CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 15.38 K intron_retention CUFF.740 chr2 - chr2:675631-675757 chr2:675630-675631;chr2:675757-675758 81.73 K cassette CUFF.728 chr19 + chr19:52901873-52905199 chr19:52901873-52904937;chr19:52905007-52905199 chr19:52904938-52905006 96.43 K intron_retention CUFF.235 chr11 + chr11:118403177-118403631 chr11:118403176-118403177;chr11:118403631-118403632 3.39 N intron_retention chr12 + chr12:13364475-13367969 chr12:13364474-13364475;chr12:13367969-13367970 52.75 K cassette CUFF.210 chr11 + chr11:65480530-65481063 chr11:65480530-65480818;chr11:65480975-65481063 chr11:65480819-65480974 47.20 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546 chr11:36420378-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 0.37 N alternative_acceptor CUFF.162 chr10 - chr10:119774622-119798482 chr10:119793553-119798482 chr10:119774622-119793552 chr10:119774621-119774622 0.00 K alternative_last_exon CUFF.490 chr16 + chr16:19663413-19680481 chr16:19663413-19663676 chr16:19680482-19680621 chr16:19663677-19664007 37.32 K alternative_donor CUFF.1361 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 44.90 N alternative_acceptor chr16 + chr16:3115712-3115784 chr16:3115712-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 59.65 N alternative_donor CUFF.1311 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 1.82 K alternative_last_exon CUFF.106 chr1 + chr1:227597586-227617105 chr1:227597586-227613456 chr1:227617106-227618736 chr1:227613457-227613758 32.39 N jcn_only_AA CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 42.11 N alternative_acceptor CUFF.1188 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 0.00 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 1.92 N cassette CUFF.981 chr3 - chr3:125042289-125093945 chr3:125042289-125050001;chr3:125050083-125093945 chr3:125050002-125050082 97.85 K intron_retention CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537896-51537897;chr19:51538061-51538062 1.27 K alternative_first_exon CUFF.324 chr13 + chr13:33590452-33627903 chr13:33591398-33627903 chr13:33590164-33590451 chr13:33590601-33591397 54.67 K jcn_only_AD CUFF.30 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 22.59 N alternative_acceptor CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 0.34 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927711 chr11:118926880-118927515 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 5.88 N alternative_donor chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 72.00 N jcn_only_AD CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 2.27 K intron_retention CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058328-21058329;chr22:21058475-21058476 26.80 K intron_retention CUFF.846 chr2 + chr2:220097406-220097800 chr2:220097405-220097406;chr2:220097800-220097801 32.70 K jcn_only_AA CUFF.285 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 61.70 K alternative_first_exon CUFF.133,CUFF.144 chr10 - chr10:46143983-46147413 chr10:46143983-46145179 chr10:46147414-46147481 chr10:46145180-46145181 chr10:46143742-46143982 7.55 N jcn_only_AD CUFF.1311 chr8 + chr8:106427235-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106370866-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 9.86 K intron_retention CUFF.1149 chr6 + chr6:32823983-32825781 chr6:32823982-32823983;chr6:32825781-32825782 23.08 N jcn_only_AD CUFF.409 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 19.35 K cassette CUFF.291 chr12 - chr12:56565217-56566211 chr12:56565217-56565462;chr12:56565722-56566211 chr12:56565463-56565721 chr12:56565055-56565216;chr12:56566212-56566274 85.22 N jcn_only_AA CUFF.1391 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 3.96 N alternative_acceptor CUFF.148 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0.00 N alternative_donor CUFF.35,CUFF.53 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 4.65 K alternative_first_exon CUFF.615 chr18 + chr18:11981130-11999052;chr18:11981205-11999052 chr18:11981765-11999052 chr18:11980978-11981204 chr18:11981377-11981764 75.49 N jcn_only_AD CUFF.270 chr12 - chr12:22610096-22611417;chr12:22610096-22622642 chr12:22610096-22612425 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 7.91 K intron_retention CUFF.108 chr1 + chr1:245133101-245180543 chr1:245133100-245133101;chr1:245180543-245180544 75.38 K alternative_first_exon CUFF.777,CUFF.788 chr2 - chr2:69870407-69870874;chr2:69870407-69901154 chr2:69870407-69870923,chr2:69870407-69870706 chr2:69901155-69901243 chr2:69870924-69871160 67.04 K alternative_first_exon CUFF.254 chr12 + chr12:4430470-4440445 chr12:4433930-4440445 chr12:4430371-4430469 chr12:4433831-4433929 9.38 N intron_retention chr19 - chr19:14876617-14883153 chr19:14876616-14876617;chr19:14883153-14883154 72.09 N jcn_only_AD CUFF.690,CUFF.695 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 20.37 N alternative_acceptor CUFF.796 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 52.38 K alternative_donor CUFF.160 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 13.33 K intron_retention CUFF.1331 chr9 - chr9:35075080-35075275 chr9:35075079-35075080;chr9:35075275-35075276 18.52 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75262814-75272371 chr8:75263702-75272371 chr8:75233365-75233480;chr8:75262628-75262813 chr8:75263549-75263701 12.14 K intron_retention chr22 - chr22:30735024-30735118 chr22:30735023-30735024;chr22:30735118-30735119 5.13 N jcn_only_AD CUFF.742 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 25.93 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 23.08 N jcn_only_AD CUFF.980 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 24.53 N alternative_acceptor CUFF.126 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 90.00 K intron_retention CUFF.193 chr11 - chr11:10822635-10823207 chr11:10822634-10822635;chr11:10823207-10823208 68.03 N jcn_only_AA chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 80.00 N jcn_only_AD chr14 - chr14:104245159-104263707 chr14:104245159-104251131 90.29 K jcn_only_AD CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 59.32 K jcn_only_AD CUFF.255 chr12 + chr12:4665669-4668022;chr12:4665717-4668022 chr12:4662256-4668022 63.16 N alternative_acceptor CUFF.138 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 0.26 N jcn_only_AA CUFF.1125 chr5 - chr5:178047675-178050256;chr5:178045780-178050256;chr5:178049461-178050256 chr5:178046898-178050256 6.88 K alternative_donor CUFF.705 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 38.36 N jcn_only_AD CUFF.883 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 80.65 N alternative_acceptor chr15 + chr15:29131425-29213842;chr15:29131425-29139019 chr15:29131425-29140665 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 0.00 N coord_cassette CUFF.967 chr3 - chr3:107586425-107596748 chr3:107586425-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 63.64 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149785235-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 4.30 N alternative_acceptor CUFF.883 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 0.00 N cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8502029;chr11:8502162-8615290 chr11:8502030-8502161 75.00 N jcn_only_AD CUFF.585 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 14.85 N jcn_only_AD CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 15.79 N jcn_only_AD CUFF.607 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 6.31 N intron_retention CUFF.518 chr16 + chr16:70399035-70399835 chr16:70399034-70399035;chr16:70399835-70399836 25.00 N cassette CUFF.674 chr19 - chr19:14863339-14866465;chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465,chr19:14865940-14867049 chr19:14865766-14865939 32.61 N cassette CUFF.355 chr14 - chr14:75150237-75152302 chr14:75150237-75151156;chr14:75151384-75152302 chr14:75151157-75151383 85.23 K jcn_only_AA CUFF.512 chr16 - chr16:67221042-67222922 chr16:67222844-67222922 78.06 K cassette CUFF.731 chr19 + chr19:55087577-55098667 chr19:55087577-55098476;chr19:55098528-55098667 chr19:55098477-55098527 50.31 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 98.21 K intron_retention chr17 - chr17:79994890-79995489 chr17:79994889-79994890;chr17:79995489-79995490 80.24 N alternative_donor CUFF.408 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 0.26 N intron_retention chr9 - chr9:130953142-130954133 chr9:130953141-130953142;chr9:130954133-130954134 33.33 N alternative_acceptor CUFF.1408 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 0.00 N jcn_only_AD CUFF.113 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 chr10:410314-410522;chr10:412215-412351 61.54 K intron_retention CUFF.291 chr12 - chr12:56572319-56572593 chr12:56572318-56572319;chr12:56572593-56572594 chr12:56572188-56572318;chr12:56572594-56572631 49.06 N jcn_only_AA chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 39.66 K jcn_only_AA CUFF.490 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 51.83 K intron_retention CUFF.210 chr11 + chr11:65484454-65486060 chr11:65484453-65484454;chr11:65486060-65486061 22.30 K cassette CUFF.808 chr2 - chr2:166714915-166727306 chr2:166714915-166719453;chr2:166719576-166727306 chr2:166719454-166719575 20.00 K intron_retention CUFF.1125 chr5 - chr5:178044436-178045556 chr5:178044435-178044436;chr5:178045556-178045557 20.73 N alternative_donor chr9 - chr9:130929444-130929817;chr9:130929444-130931330 chr9:130929444-130931354 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 6.81 N jcn_only_AA chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 81.03 K cassette CUFF.1163 chr6 + chr6:90143095-90305634 chr6:90143095-90276552;chr6:90276816-90305634 chr6:90276553-90276815 67.89 K alternative_donor CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 23.29 N jcn_only_AA CUFF.490 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 5.09 N alternative_donor CUFF.587 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 chr17:61555292-61555459;chr17:61554422-61554704 44.00 N alternative_acceptor CUFF.817 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 68.18 K jcn_only_AA CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 16.67 N jcn_only_AA chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 85.29 K intron_retention CUFF.758 chr2 + chr2:38244379-38244720 chr2:38244378-38244379;chr2:38244720-38244721 47.22 N alternative_donor CUFF.452 chr15 - chr15:90380955-90391824;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90395592 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 0.60 N mutually_exclusive CUFF.626 chr18 - chr18:44435579-44470542,chr18:44471018-44497284 chr18:44435579-44444126,chr18:44444212-44497284 chr18:44470543-44471017 chr18:44444127-44444211 48.23 N coord_cassette CUFF.1232 chr7 + chr7:91712970-91714808 chr7:91712970-91713953;chr7:91714018-91714132;chr7:91714255-91714808 chr7:91713954-91714017;chr7:91714133-91714254 91.53 N intron_retention chrX + chrX:103357938-103358124 chrX:103357937-103357938;chrX:103358124-103358125 34.09 K alternative_last_exon CUFF.1111 chr5 + chr5:139918669-139921756 chr5:139918669-139918943 chr5:139921757-139921866 chr5:139918944-139919441 chr5:139918504-139918668 94.52 N jcn_only_AA CUFF.361 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 81.25 N alternative_last_exon CUFF.1043 chr4 - chr4:77979789-77996624 chr4:77987559-77996624 chr4:77979660-77979788 chr4:77987322-77987558 85.12 K intron_retention CUFF.683 chr19 + chr19:18121168-18121380 chr19:18121167-18121168;chr19:18121380-18121381 14.55 N jcn_only_AD CUFF.631 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 3.11 N coord_cassette CUFF.1226 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75043917;chr7:75044077-75044162 chr7:75040938-75041042;chr7:75042067-75042210;chr7:75043918-75044076 45.00 N cassette CUFF.347 chr14 - chr14:59939809-59941445;chr14:59939809-59942586 chr14:59939809-59941156;chr14:59941245-59942586,chr14:59941245-59941445 chr14:59941157-59941244 93.29 N intron_retention chr11 - chr11:10821157-10821636 chr11:10821156-10821157;chr11:10821636-10821637 46.75 N jcn_only_AD CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345825-167353093 chr1:167345393-167345824 chr1:167345392-167345393 5.23 K intron_retention CUFF.911 chr22 + chr22:29684745-29688488 chr22:29684744-29684745;chr22:29688488-29688489 62.79 K intron_retention CUFF.65 chr1 - chr1:153927466-153927540 chr1:153927465-153927466;chr1:153927540-153927541 11.11 N jcn_only_AA CUFF.547,CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560051-61560389 chr17:61560390-61560820 chr17:61560820-61560821 48.78 K cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46993437 chr17:46988170-46988242 45.07 K jcn_only_AA CUFF.1330 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 93.90 K coord_cassette CUFF.846 chr2 + chr2:220094623-220097211 chr2:220094623-220096649;chr2:220096763-220096981;chr2:220097085-220097211 chr2:220096650-220096762;chr2:220096982-220097084 76.69 K jcn_only_AA CUFF.428,CUFF.437 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 66.04 K cassette CUFF.1363 chr9 + chr9:131013220-131016932 chr9:131013220-131015379;chr9:131015417-131016932 chr9:131015380-131015416 47.37 K jcn_only_AA CUFF.1190 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 71.13 N alternative_donor CUFF.113 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 chr10:415434-415573;chr10:428587-428701 0.00 K intron_retention CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399034-70399035;chr16:70399987-70399988 5.33 N jcn_only_AA CUFF.956 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 8.82 N alternative_acceptor CUFF.1030 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 7.69 N intron_retention chr17 - chr17:79894738-79895055 chr17:79894737-79894738;chr17:79895055-79895056 79.03 N alternative_acceptor CUFF.729 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 31.25 K intron_retention CUFF.1177 chr6 - chr6:133044194-133044872 chr6:133044193-133044194;chr6:133044872-133044873 2.38 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 14.85 N jcn_only_AA chr3 - chr3:124996654-125042231 chr3:125032501-125042231 45.90 K cassette CUFF.299 chr12 + chr12:69229765-69233053 chr12:69229765-69230451;chr12:69230530-69233053 chr12:69230452-69230529 53.63 K intron_retention CUFF.246 chr11 + chr11:124078396-124078521 chr11:124078395-124078396;chr11:124078521-124078522 chr11:124077890-124078395;chr11:124078522-124078819 27.03 N jcn_only_AA CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 19.15 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 46.14 K cassette CUFF.1013 chr4 - chr4:2933193-2933551 chr4:2933193-2933281;chr4:2933391-2933551 chr4:2933282-2933390 80.90 K cassette CUFF.903 chr22 + chr22:21056998-21057293 chr22:21056998-21057117;chr22:21057182-21057293 chr22:21057118-21057181 19.32 N jcn_only_AD CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 9.52 N coord_cassette CUFF.275 chr12 + chr12:27628665-27648612 chr12:27628665-27641392;chr12:27641481-27647232;chr12:27647290-27648612 chr12:27641393-27641480;chr12:27647233-27647289 12.21 N alternative_acceptor CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 52.13 K mutually_exclusive CUFF.611 chr18 + chr18:163454-178900,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178901-179037 chr18:166787-166819 84.81 N intron_retention chr17 + chr17:29686034-29687504 chr17:29686033-29686034;chr17:29687504-29687505 25.23 N jcn_only_AD CUFF.794 chr2 + chr2:101565943-101584742 chr2:101582229-101584742 63.49 N alternative_first_exon CUFF.1040 chr4 - chr4:77979789-77985865;chr4:77979789-77996624 chr4:77979789-77987401 chr4:77996625-77997158 chr4:77987402-77987558 75.14 K cassette CUFF.1401 chrX + chrX:78003532-78005670 chrX:78003532-78004459;chrX:78004728-78005670 chrX:78004460-78004727 6.56 N cassette CUFF.1282 chr8 - chr8:56663717-56675193 chr8:56663717-56668802;chr8:56668971-56675193 chr8:56668803-56668970 88.80 N cassette CUFF.1021 chr4 + chr4:7008454-7011603 chr4:7008454-7009250;chr4:7009353-7011603 chr4:7009251-7009352 87.27 N alternative_first_exon chr3 - chr3:49315885-49318176 chr3:49315885-49316246 chr3:49318177-49318280 chr3:49316247-49316699 83.75 K cassette CUFF.690 chr19 - chr19:33954969-33968951 chr19:33954969-33967985;chr19:33968206-33968951 chr19:33967986-33968205 17.85 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 16.46 K alternative_first_exon CUFF.983,CUFF.995 chr3 - chr3:156271571-156272525;chr3:156271571-156272745 chr3:156271571-156271781 chr3:156272746-156272973 chr3:156271782-156271982 51.10 N intron_retention chr2 - chr2:262787-264781 chr2:262786-262787;chr2:264781-264782 33.33 N jcn_only_AA CUFF.355 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 18.18 N intron_retention CUFF.1241 chr7 + chr7:107220747-107221090 chr7:107220746-107220747;chr7:107221090-107221091 7.32 N alternative_donor CUFF.1174 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 73.81 K intron_retention CUFF.537 chr17 + chr17:6353393-6353558 chr17:6353392-6353393;chr17:6353558-6353559 73.33 K alternative_acceptor CUFF.375 chr14 + chr14:105054647-105054958 chr14:105054647-105054914 chr14:105054915-105054958 chr14:105054958-105054959 61.54 N alternative_acceptor CUFF.106 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 55.56 N jcn_only_AD CUFF.30 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 61.54 N jcn_only_AA chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 66.67 N intron_retention chr20 + chr20:30126163-30132749 chr20:30126162-30126163;chr20:30132749-30132750 3.23 K intron_retention CUFF.1144 chr6 - chr6:31937981-31938119 chr6:31937980-31937981;chr6:31938119-31938120 7.57 K intron_retention CUFF.1262 chr7 - chr7:156469319-156471770 chr7:156469318-156469319;chr7:156471770-156471771 70.00 K cassette CUFF.367 chr14 - chr14:92185823-92191423 chr14:92185823-92189392;chr14:92189534-92191423 chr14:92189393-92189533 78.43 N alternative_first_exon CUFF.618 chr18 + chr18:12658205-12658572 chr18:12658343-12658572 chr18:12658039-12658204 chr18:12658206-12658342 7.96 K alternative_donor CUFF.1041 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 55.00 N jcn_only_AA CUFF.241 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 55.56 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515 chr11:118926880-118927711 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 3.46 N alternative_acceptor CUFF.401 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 10.70 N jcn_only_AA CUFF.1108 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 48.05 N jcn_only_AA CUFF.108,CUFF.8 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 5.05 N cassette CUFF.299 chr12 + chr12:69203073-69229608;chr12:69203073-69214104;chr12:69203073-69210591;chr12:69203073-69233053;chr12:69203073-69218142 chr12:69203073-69207333;chr12:69207409-69210591,chr12:69207409-69233053,chr12:69207409-69214104,chr12:69207409-69218142,chr12:69207409-69229608 chr12:69207334-69207408 63.72 K jcn_only_AA CUFF.705,CUFF.729 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 15.04 K intron_retention CUFF.945 chr3 - chr3:38051545-38051621 chr3:38051544-38051545;chr3:38051621-38051622 30.71 N alternative_donor CUFF.935 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 2.50 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127292614-127396835;chr5:127359991-127396835 chr5:127302621-127396835 chr5:127292496-127292613;chr5:127359827-127359990 chr5:127302269-127302620 39.90 K coord_cassette CUFF.844 chr2 + chr2:219433702-219445283 chr2:219433702-219438443;chr2:219438515-219438713;chr2:219438957-219445283 chr2:219438444-219438514;chr2:219438714-219438956 60.25 N jcn_only_AA chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 45.00 K intron_retention CUFF.680 chr19 + chr19:17445921-17448816 chr19:17445920-17445921;chr19:17448816-17448817 27.57 N jcn_only_AA chr6 + chr6:31927178-31928817 chr6:31927178-31927786 96.52 N alternative_donor chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 25.00 N jcn_only_AD CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 16.42 N jcn_only_AA CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 6.49 K alternative_acceptor CUFF.1241 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 82.69 K cassette CUFF.284 chr12 - chr12:52962174-52963642 chr12:52962174-52963273;chr12:52963316-52963642 chr12:52963274-52963315 24.14 N mutually_exclusive CUFF.1362 chr9 - chr9:130948056-130952607,chr9:130952724-130952966 chr9:130948056-130950141,chr9:130950214-130952966 chr9:130952608-130952723 chr9:130950142-130950213 14.29 N intron_retention chr2 - chr2:175711686-175712040 chr2:175711685-175711686;chr2:175712040-175712041 97.01 K alternative_first_exon CUFF.391 chr15 + chr15:40532297-40532799,chr15:40532004-40532799;chr15:40509869-40532799 chr15:40531337-40532799 chr15:40509629-40509868 chr15:40530862-40531336 82.48 K intron_retention CUFF.171 chr11 - chr11:406994-407061 chr11:406993-406994;chr11:407061-407062 2.15 N coord_cassette CUFF.1222 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73111934 chr7:73107659-73107744;chr7:73107954-73107999 86.45 K jcn_only_AA CUFF.392,CUFF.402 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 86.11 N jcn_only_AD CUFF.857 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 2.95 N alternative_donor CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 14.22 N jcn_only_AD CUFF.1022,CUFF.1037 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 6.86 N jcn_only_AD CUFF.350 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 11.11 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115621 chr16:3115496-3115781 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 28.03 N alternative_acceptor CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 21.09 K jcn_only_AD CUFF.1039 chr4 - chr4:74459311-74481607 chr4:74459311-74464356 17.39 K intron_retention CUFF.705 chr19 + chr19:44771115-44777457 chr19:44771114-44771115;chr19:44777457-44777458 64.52 N alternative_acceptor CUFF.1275 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 12.50 K intron_retention CUFF.195 chr11 + chr11:18477626-18478218 chr11:18477625-18477626;chr11:18478218-18478219 17.39 K cassette CUFF.1093 chr5 - chr5:60199544-60214091 chr5:60199544-60200618;chr5:60200701-60214091 chr5:60200619-60200700 90.05 K alternative_first_exon CUFF.902 chr22 + chr22:20755663-20759666;chr22:20755049-20759666 chr22:20748953-20759666 chr22:20755530-20755662;chr22:20754922-20755048 chr22:20748389-20748952 chr22:20759667-20761968 23.91 K alternative_first_exon CUFF.1374 chr9 + chr9:139796849-139802521;chr9:139794973-139802521 chr9:139795129-139802521 chr9:139794874-139794972 chr9:139795073-139795128 0.62 N mutually_exclusive CUFF.1230 chr7 - chr7:86574363-86594219,chr7:86594341-86688640 chr7:86574363-86577042,chr7:86577239-86688640 chr7:86594220-86594340 chr7:86577043-86577238 chr7:86574215-86574362;chr7:86688641-86689015 91.30 N alternative_acceptor CUFF.821 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 7.59 N jcn_only_AD chr11 + chr11:3427841-3428851 chr11:3427946-3428851 50.00 K alternative_acceptor CUFF.248 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 34.29 K jcn_only_AD CUFF.700 chr19 - chr19:41938314-41939441 chr19:41938314-41939176 59.44 N intron_retention chr17 - chr17:79994185-79994289 chr17:79994184-79994185;chr17:79994289-79994290 76.77 K intron_retention CUFF.1226 chr7 + chr7:75045309-75045380 chr7:75045308-75045309;chr7:75045380-75045381 30.19 K intron_retention CUFF.1216 chr7 + chr7:54617864-54618445 chr7:54617863-54617864;chr7:54618445-54618446 21.92 N coord_cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11595467;chr2:11595601-11597304;chr2:11597360-11605897 chr2:11595468-11595600;chr2:11597305-11597359 69.05 N alternative_first_exon CUFF.189 chr11 - chr11:8486370-8615629 chr11:8486370-8494709 chr11:8615630-8615931 chr11:8494710-8494823 96.39 K cassette CUFF.52 chr1 + chr1:110214005-110217368 chr1:110214005-110214094;chr1:110214206-110217368 chr1:110214095-110214205 91.48 K cassette CUFF.1033 chr4 - chr4:56475347-56496568 chr4:56475347-56482504;chr4:56482553-56496568 chr4:56482505-56482552 69.80 K intron_retention CUFF.65 chr1 - chr1:153924923-153925046 chr1:153924922-153924923;chr1:153925046-153925047 11.41 N jcn_only_AA CUFF.935 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 17.14 N alternative_donor CUFF.593 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61905498-61905569;chr17:61904778-61904874 47.50 N cassette CUFF.1326 chr9 - chr9:15192694-15203820 chr9:15192694-15199858;chr9:15199924-15203820 chr9:15199859-15199923 90.91 N cassette CUFF.987 chr3 - chr3:127294109-127294782;chr3:127294349-127294782 chr3:127294109-127294591,chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294592-127294652 37.50 N alternative_acceptor CUFF.1170 chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 chr6:112664600-112664980;chr6:112668494-112668609 6.00 K jcn_only_AD CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 6.00 K jcn_only_AA CUFF.1090 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 50.68 K intron_retention CUFF.784 chr2 - chr2:79362890-79363090 chr2:79362889-79362890;chr2:79363090-79363091 33.46 K mutually_exclusive CUFF.808 chr2 - chr2:166714915-166721493,chr2:166721588-166727306 chr2:166714915-166719453,chr2:166719576-166727306 chr2:166721494-166721587 chr2:166719454-166719575 15.79 N jcn_only_AD CUFF.1123 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 82.86 K cassette CUFF.1250 chr7 + chr7:128850955-128851476 chr7:128850955-128851223;chr7:128851352-128851476 chr7:128851224-128851351 93.75 N intron_retention chr5 + chr5:137515023-137515348 chr5:137515022-137515023;chr5:137515348-137515349 33.33 N jcn_only_AA CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483834-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 35.45 N jcn_only_AA CUFF.1326 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 77.06 K intron_retention CUFF.210 chr11 + chr11:65479751-65479849 chr11:65479750-65479751;chr11:65479849-65479850 30.00 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133418748;chr3:133407209-133410566 chr3:133407209-133419725 22.47 K intron_retention CUFF.1215 chr7 + chr7:44247798-44250621 chr7:44247797-44247798;chr7:44250621-44250622 55.26 K cassette CUFF.579 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990384-46993437 chr17:46990196-46990383 42.86 K alternative_last_exon CUFF.996 chr3 - chr3:165495584-165503932;chr3:165491295-165503932 chr3:165496527-165503932 chr3:165490692-165491294 chr3:165496443-165496526 17.92 K intron_retention CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073888-117073889;chr11:117074022-117074023 51.55 N coord_cassette CUFF.653 chr19 - chr19:6026249-6110403 chr19:6026249-6039990;chr19:6040253-6042054;chr19:6042135-6047417;chr19:6047516-6110403 chr19:6039991-6040252;chr19:6042055-6042134;chr19:6047418-6047515 52.05 N intron_retention chr6 + chr6:33243435-33243573 chr6:33243434-33243435;chr6:33243573-33243574 21.69 K cassette CUFF.662 chr19 - chr19:8154555-8154982 chr19:8154555-8154777;chr19:8154844-8154982 chr19:8154778-8154843 73.53 K coord_cassette CUFF.1222 chr7 + chr7:73106977-73111934 chr7:73106977-73107658;chr7:73107745-73107953;chr7:73108000-73108321;chr7:73108381-73111934 chr7:73107659-73107744;chr7:73107954-73107999;chr7:73108322-73108380 94.45 N alternative_acceptor CUFF.1341 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 0.00 N intron_retention chr7 + chr7:100771765-100771809 chr7:100771764-100771765;chr7:100771809-100771810 54.55 N jcn_only_AA chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 12.39 K mutually_exclusive CUFF.159 chr10 + chr10:103113986-103213257,chr10:103213314-103221737 chr10:103113986-103190101,chr10:103190210-103221737 chr10:103213258-103213313 chr10:103190102-103190209 36.84 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26205930-26208168;chr12:26174452-26208168 chr12:26148064-26208168 chr12:26205724-26205929;chr12:26174301-26174451 chr12:26147970-26148063 6.28 K alternative_first_exon CUFF.1104 chr5 + chr5:128796176-128844769 chr5:128797451-128844769 chr5:128795958-128796175 chr5:128796795-128797450 13.33 N cassette CUFF.1123 chr5 + chr5:177636434-177637553;chr5:177636449-177637553 chr5:177636449-177637132,chr5:177636434-177637132;chr5:177637274-177637553 chr5:177637133-177637273 56.06 N cassette CUFF.127 chr10 + chr10:35464634-35468061 chr10:35464634-35467816;chr10:35467915-35468061 chr10:35467817-35467914 96.21 K cassette CUFF.1186 chr6 - chr6:151757690-151773150 chr6:151757690-151766442;chr6:151766961-151773150 chr6:151766443-151766960 29.69 K alternative_donor CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 86.63 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130966464 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 29.41 N intron_retention chr6 + chr6:32122172-32122363 chr6:32122171-32122172;chr6:32122363-32122364 80.00 K cassette CUFF.520 chr16 - chr16:75576582-75579723 chr16:75576582-75579249;chr16:75579394-75579723 chr16:75579250-75579393 96.30 N jcn_only_AD chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:61945388-62007313 chr15:62007313-62007314 85.28 K intron_retention CUFF.1385 chrX - chrX:19932387-19932468 chrX:19932386-19932387;chrX:19932468-19932469 71.64 N alternative_acceptor CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 chr7:86541388-86541561;chr7:86539128-86539317 3.64 K jcn_only_AA CUFF.1091,CUFF.1098 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 88.99 N jcn_only_AA CUFF.830,CUFF.844 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 3.02 K jcn_only_AA CUFF.1065 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 32.35 K intron_retention CUFF.624 chr18 - chr18:44268883-44272131 chr18:44268882-44268883;chr18:44272131-44272132 29.27 N jcn_only_AD CUFF.452 chr15 - chr15:90380955-90395592;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90391824 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 13.24 K alternative_acceptor CUFF.357 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 35.71 N cassette CUFF.177 chr11 - chr11:2187780-2188664 chr11:2187780-2187862;chr11:2187999-2188664 chr11:2187863-2187998 58.56 N jcn_only_AD chr12 - chr12:22610096-22611417;chr12:22610096-22612425 chr12:22610096-22622642 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 1.12 N alternative_acceptor CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2.65 N alternative_donor chr2 - chr2:263373-263563;chr2:263373-264083 chr2:263373-264781 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 85.23 K cassette CUFF.494 chr16 + chr16:21969921-21973780 chr16:21969921-21972648;chr16:21972787-21973780 chr16:21972649-21972786 32.47 N alternative_acceptor CUFF.148 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 0.26 K alternative_first_exon CUFF.328 chr13 - chr13:97644827-97646822 chr13:97644827-97646551 chr13:97646823-97646966 chr13:97646552-97646795 95.32 K intron_retention CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335066-107335067;chrX:107369306-107369307 7.69 N alternative_acceptor chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 22.22 N jcn_only_AD CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 39.18 N jcn_only_AD CUFF.42 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 8.46 N alternative_donor CUFF.1120 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 73.33 N alternative_donor CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 78.67 K intron_retention CUFF.193 chr11 - chr11:10827595-10828366 chr11:10827594-10827595;chr11:10828366-10828367 2.74 K cassette CUFF.1016 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951320-3952865 chr4:3951175-3951319 22.47 N alternative_acceptor CUFF.600 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 5.65 K jcn_only_AA CUFF.446 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 30.88 N jcn_only_AA CUFF.270 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 42.86 K alternative_acceptor CUFF.896 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 19.07 N jcn_only_AA CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 69.41 N coord_cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3948870;chr4:3949735-3949816;chr4:3949948-3954837 chr4:3948871-3949734;chr4:3949817-3949947 92.86 K intron_retention chr2 - chr2:177042223-177042730 chr2:177042222-177042223;chr2:177042730-177042731 36.42 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 3.23 N jcn_only_AD CUFF.270 chr12 - chr12:120158391-120287977 chr12:120158391-120159113 19.57 K alternative_first_exon CUFF.35 chr1 - chr1:53904722-53905447 chr1:53904722-53905099 chr1:53905448-53905787 chr1:53905100-53905250 20.54 K intron_retention CUFF.680 chr19 + chr19:17452543-17452964 chr19:17452542-17452543;chr19:17452964-17452965 67.50 K alternative_acceptor CUFF.1272 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 83.05 N alternative_donor CUFF.341 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 36.17 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45122515-45182336 chr22:45162070-45182336 chr22:45130907-45131042;chr22:45148404-45148507;chr22:45122457-45122514 chr22:45161895-45162069 5.80 N jcn_only_AA CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45789310 chr15:45768751-45769966 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 7.14 N jcn_only_AD chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 86.96 K intron_retention CUFF.1013 chr4 - chr4:2932681-2932787 chr4:2932680-2932681;chr4:2932787-2932788 23.85 K intron_retention CUFF.1144 chr6 - chr6:31938603-31938688 chr6:31938602-31938603;chr6:31938688-31938689 34.46 K cassette CUFF.1115 chr5 + chr5:140028123-140031298 chr5:140028123-140028467;chr5:140028566-140031298 chr5:140028468-140028565 37.55 K coord_cassette CUFF.295 chr12 + chr12:57854339-57858455 chr12:57854339-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 16.67 N alternative_donor CUFF.452 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 40.00 N cassette CUFF.851 chr2 + chr2:232026224-232029913 chr2:232026224-232028348;chr2:232028442-232029913 chr2:232028349-232028441 65.96 N intron_retention CUFF.478 chr16 - chr16:4411471-4411749 chr16:4411470-4411471;chr16:4411749-4411750 77.01 N alternative_acceptor CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504909-23505623 chr16:23504780-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 86.85 N alternative_donor CUFF.1067 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 4.17 K jcn_only_AA CUFF.1010 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 15.58 K intron_retention CUFF.1215 chr7 + chr7:44247798-44250440 chr7:44247797-44247798;chr7:44250440-44250441 26.47 N alternative_acceptor CUFF.1121 chr5 - chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149781568-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 47.85 N alternative_acceptor CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 3.44 K jcn_only_AA CUFF.1006 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 14.29 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895403 6.14 N jcn_only_AA CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 28.38 K alternative_first_exon CUFF.1031 chr4 - chr4:36231268-36245312 chr4:36231268-36245230 chr4:36245313-36245583 chr4:36245231-36245274 37.50 N jcn_only_AD CUFF.437 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 18.52 N jcn_only_AA chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 78.57 N jcn_only_AD CUFF.13,CUFF.75 chr1 - chr1:158581180-158582606 chr1:158581180-158581575 chr1:158581576-158582606 chr1:158582606-158582607 45.83 N cassette CUFF.489 chr16 - chr16:15170508-15177369 chr16:15170508-15173854;chr16:15173954-15177369 chr16:15173855-15173953 94.15 K alternative_donor CUFF.743 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 90.62 K intron_retention CUFF.208 chr11 + chr11:64000338-64001365 chr11:64000337-64000338;chr11:64001365-64001366 chr11:64000176-64000337;chr11:64001366-64001758 31.14 N jcn_only_AD chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 62.50 K intron_retention CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205779-119205780;chr3:119207775-119207776 63.33 K cassette CUFF.825 chr2 - chr2:177041421-177042438 chr2:177041421-177042059;chr2:177042223-177042438 chr2:177042060-177042222 86.42 N coord_cassette CUFF.299 chr12 + chr12:69214155-69222550 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 82.61 K alternative_first_exon CUFF.580,CUFF.602 chr17 - chr17:79479387-79479489,chr17:79479387-79479631,chr17:79479387-79479640,chr17:79479387-79490667;chr17:79479387-79481572 chr17:79479387-79479759 chr17:79481573-79481596 chr17:79479760-79479900 66.96 N jcn_only_AD chr3 - chr3:49343322-49365118 chr3:49343322-49348052 68.67 K alternative_last_exon CUFF.742,CUFF.818 chr2 + chr2:171264355-171300476 chr2:171264355-171268210 chr2:171300477-171300556 chr2:171268211-171268928 77.30 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927737 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 31.77 N jcn_only_AA chr3 - chr3:27405336-27410715;chr3:27409054-27410715 chr3:27394411-27410715 44.87 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 78.48 N alternative_acceptor CUFF.1391 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 42.86 N cassette CUFF.421 chr15 - chr15:64658275-64673156 chr15:64658275-64668941;chr15:64669105-64673156 chr15:64668942-64669104 92.05 N cassette CUFF.1213 chr7 - chr7:38908854-38948753 chr7:38908854-38937690;chr7:38937730-38948753 chr7:38937691-38937729 51.58 N jcn_only_AA CUFF.530 chr17 + chr17:29664899-29665042;chr17:29664899-29667522 chr17:29664899-29665019 12.61 N jcn_only_AA CUFF.168 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 22.22 K coord_cassette CUFF.409 chr15 + chr15:57213297-57383986 chr15:57213297-57293546;chr15:57293583-57355947;chr15:57356022-57383986 chr15:57293547-57293582;chr15:57355948-57356021 15.86 K intron_retention CUFF.786 chr2 - chr2:86398436-86400772 chr2:86398435-86398436;chr2:86400772-86400773 37.08 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26148064-26208168;chr12:26205930-26208168 chr12:26174452-26208168 chr12:26147970-26148063;chr12:26205724-26205929 chr12:26174301-26174451 81.40 K coord_cassette CUFF.624 chr18 - chr18:44284628-44338957 chr18:44284628-44301324;chr18:44301433-44310168;chr18:44310325-44311643;chr18:44311807-44338957 chr18:44301325-44301432;chr18:44310169-44310324;chr18:44311644-44311806 38.00 K cassette CUFF.750 chr2 + chr2:16573595-16613772 chr2:16573595-16612998;chr2:16613076-16613772 chr2:16612999-16613075 69.57 K jcn_only_AA CUFF.642 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 75.51 N jcn_only_AA CUFF.824 chr2 - chr2:175816931-175869933 chr2:175869809-175869933 98.83 K mutually_exclusive CUFF.1363 chr9 + chr9:130985140-130988313,chr9:130988453-130996299 chr9:130985140-130986529,chr9:130986669-130996299 chr9:130988314-130988452 chr9:130986530-130986668 29.73 N intron_retention CUFF.1111 chr5 + chr5:139915124-139916922 chr5:139915123-139915124;chr5:139916922-139916923 chr5:139914947-139915123 47.87 K mutually_exclusive CUFF.786 chr2 - chr2:86393768-86398330,chr2:86398436-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398435 chr2:86397872-86397964 94.25 N alternative_acceptor chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 78.20 K jcn_only_AD CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 44.00 N cassette CUFF.1127 chr6 + chr6:320365-345853;chr6:311963-345853 chr6:311963-335113,chr6:320365-335113;chr6:335164-345853 chr6:335114-335163 13.20 N cassette CUFF.422 chr15 - chr15:66641776-66644466 chr15:66641776-66643862;chr15:66643939-66644466 chr15:66643863-66643938 67.33 N jcn_only_AD CUFF.325 chr13 + chr13:51805516-51825603 chr13:51819556-51825603 chr13:51805516-51819555 chr13:51805515-51805516 87.88 K alternative_acceptor CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 93.87 K alternative_acceptor CUFF.1204 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 85.71 K intron_retention CUFF.1222 chr7 + chr7:73098135-73105245 chr7:73098134-73098135;chr7:73105245-73105246 29.03 K jcn_only_AD CUFF.743 chr2 + chr2:3383611-3391390 chr2:3383648-3391390 chr2:3383611-3383647 chr2:3383610-3383611 92.86 N coord_cassette CUFF.824 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175779786-175779899;chr2:175783262-175783293;chr2:175809616-175809671 96.21 N jcn_only_AD CUFF.967 chr3 - chr3:107567966-107568669;chr3:107567966-107575926 chr3:107567966-107572719 61.02 N alternative_donor chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 14.04 N jcn_only_AA CUFF.680,CUFF.681 chr19 + chr19:17581517-17597371;chr19:17581517-17598268 chr19:17581517-17594690 10.83 N intron_retention CUFF.736 chr2 - chr2:263373-263563 chr2:263372-263373;chr2:263563-263564 64.58 N jcn_only_AD CUFF.805 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 33.33 N jcn_only_AD CUFF.175 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 47.78 N mutually_exclusive CUFF.1177 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133047978-133055391 chr6:133049880-133050072 chr6:133047861-133047977 60.00 K cassette CUFF.357 chr14 + chr14:76100040-76129397 chr14:76100040-76101252;chr14:76101357-76129397 chr14:76101253-76101356 23.53 K cassette CUFF.587 chr17 + chr17:61562734-61563917 chr17:61562734-61563719;chr17:61563733-61563917 chr17:61563720-61563732 34.78 N alternative_donor CUFF.175 chr11 + chr11:827319-828259 chr11:827460-828259 chr11:827319-827459 chr11:827318-827319 48.35 N intron_retention CUFF.798 chr2 - chr2:110881641-110882795 chr2:110881640-110881641;chr2:110882795-110882796 80.43 N cassette CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907310-61907492;chr17:61907550-61907630 chr17:61907493-61907549 chr17:61907212-61907309;chr17:61907631-61907861 77.12 N alternative_acceptor CUFF.963 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 50.00 K intron_retention CUFF.1157 chr6 - chr6:43480613-43480806 chr6:43480612-43480613;chr6:43480806-43480807 26.27 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 5.41 N intron_retention chr14 + chr14:69520532-69521913 chr14:69520531-69520532;chr14:69521913-69521914 94.44 K jcn_only_AA CUFF.641 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 30.77 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350319-49351092 chr12:49349478-49349543;chr12:49349881-49350318 76.27 N jcn_only_AA CUFF.160 chr10 + chr10:106976881-106982873 chr10:106976881-106977601 chr10:106977602-106982873 chr10:106982873-106982874 85.71 N jcn_only_AA CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 10.23 N jcn_only_AA CUFF.373 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 45.36 N jcn_only_AA chr18 + chr18:61377596-61390228 chr18:61377596-61378568 chr18:61378569-61390228 chr18:61390228-61390229 95.05 N jcn_only_AD CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 71.11 N alternative_acceptor CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 0.00 N cassette CUFF.631 chr18 + chr18:56001125-56010137 chr18:56001125-56008909;chr18:56009030-56010137 chr18:56008910-56009029 41.94 N jcn_only_AA CUFF.933 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 63.54 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 0.00 N jcn_only_AA CUFF.596 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 2.50 N intron_retention chr2 - chr2:242440212-242440942 chr2:242440211-242440212;chr2:242440942-242440943 86.26 N jcn_only_AD CUFF.385 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 20.00 N alternative_donor CUFF.954 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 7.10 N jcn_only_AD CUFF.766 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 55.56 N intron_retention chr16 - chr16:23505700-23507009 chr16:23505699-23505700;chr16:23507009-23507010 8.02 N jcn_only_AD CUFF.399 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 44.86 N jcn_only_AD CUFF.935 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 69.68 N jcn_only_AA CUFF.646 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 chr18:77455225-77455308 56.25 N jcn_only_AA chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:105794-105882 79.67 N cassette CUFF.171 chr11 - chr11:408894-409867 chr11:408894-409216;chr11:409309-409867 chr11:409217-409308 26.57 N jcn_only_AD chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 16.13 N alternative_acceptor chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 25.71 K jcn_only_AD CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 94.69 N jcn_only_AD CUFF.825,CUFF.835 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 31.76 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 61.49 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133327431-133327610 chr9:133320383-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 52.63 N jcn_only_AD chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 11.52 N alternative_donor CUFF.664 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 27.50 N alternative_first_exon chr19 - chr19:20243397-20351308;chr19:20243397-20349096 chr19:20243397-20261169 chr19:20349097-20349332 chr19:20261170-20261357 20.37 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 3.03 N alternative_acceptor CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 47.79 N mutually_exclusive CUFF.490 chr16 + chr16:19584564-19590373,chr16:19590451-19592846 chr16:19584564-19586419,chr16:19586445-19592846 chr16:19590374-19590450 chr16:19586420-19586444 40.00 N alternative_donor chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 0.00 N jcn_only_AA CUFF.907 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 8.82 N alternative_donor CUFF.277 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 16.39 K alternative_last_exon CUFF.1096,CUFF.1106 chr5 + chr5:81608671-81637517 chr5:81608671-81613816 chr5:81637518-81637609 chr5:81613817-81614622 80.30 N jcn_only_AD CUFF.385 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 12.37 N alternative_acceptor chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 0.00 N jcn_only_AD CUFF.846 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 0.75 K alternative_last_exon CUFF.709 chr19 - chr19:49116565-49117964 chr19:49117885-49117964 chr19:49116165-49116564 chr19:49117433-49117884 40.74 K intron_retention CUFF.193 chr11 - chr11:10821304-10821790 chr11:10821303-10821304;chr11:10821790-10821791 50.00 N alternative_donor CUFF.758 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 90.00 N alternative_first_exon CUFF.176 chr11 - chr11:102960048-102962515,chr11:102960048-102962412 chr11:102960048-102962244 chr11:102962516-102962991 chr11:102962245-102962391 27.62 K alternative_first_exon CUFF.830 chr2 + chr2:191334376-191334483;chr2:191302288-191334483 chr2:191307732-191334483 chr2:191300703-191302287 chr2:191307282-191307731 24.17 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 15.53 K intron_retention chr11 - chr11:119291097-119291578 chr11:119291096-119291097;chr11:119291578-119291579 32.61 K alternative_last_exon CUFF.1321,CUFF.1324 chr8 + chr8:144822119-144826029 chr8:144822119-144823921 chr8:144826030-144828507 chr8:144823922-144824298 45.13 K intron_retention CUFF.1013 chr4 - chr4:2934486-2934832 chr4:2934485-2934486;chr4:2934832-2934833 6.67 N alternative_acceptor chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 16.33 N alternative_donor chr11 - chr11:118926880-118926990;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927730 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 15.38 N alternative_acceptor CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 33.96 N alternative_acceptor CUFF.1016 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 40.43 N alternative_donor CUFF.473 chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 29.10 N alternative_acceptor CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37257362-37262219 chr7:37256301-37257361 chr7:37256300-37256301 8.62 K intron_retention chr16 - chr16:57513601-57514241 chr16:57513600-57513601;chr16:57514241-57514242 11.47 N alternative_donor chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 11.90 N jcn_only_AA CUFF.1013 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 90.52 N jcn_only_AA CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 6.38 K alternative_first_exon CUFF.204 chr11 + chr11:61583899-61605249,chr11:61594904-61605249;chr11:61584169-61605249 chr11:61596070-61605249 chr11:61584108-61584168 chr11:61595967-61596069 33.93 N jcn_only_AA CUFF.736 chr2 - chr2:242177-243502;chr2:234273-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 79.26 K alternative_first_exon CUFF.251 chr12 + chr12:1684008-1740463,chr12:1640117-1740463,chr12:1739393-1740463,chr12:1738538-1740463;chr12:1639176-1740463 chr12:1726310-1740463 chr12:1639057-1639175 chr12:1725768-1726309 75.90 N alternative_acceptor CUFF.277 chr12 - chr12:48396825-48398019;chr12:48394878-48398019 chr12:48393909-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 73.91 N alternative_acceptor CUFF.1038 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 52.00 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649277;chr19:54648069-54649333 chr19:54648069-54649330 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 51.33 K intron_retention CUFF.490 chr16 + chr16:19584564-19590373 chr16:19584563-19584564;chr16:19590373-19590374 44.44 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 22.78 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 10.30 N alternative_acceptor CUFF.1368 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 7.14 K cassette CUFF.249 chr12 - chr12:352980-371954 chr12:352980-369016;chr12:369224-371954 chr12:369017-369223 34.60 K cassette CUFF.58 chr1 + chr1:145575405-145578061 chr1:145575405-145577651;chr1:145577754-145578061 chr1:145577652-145577753 26.19 N alternative_first_exon CUFF.107 chr1 + chr1:230193826-230313963 chr1:230203154-230313963 chr1:230193536-230193825 chr1:230202938-230203153 13.89 N alternative_acceptor CUFF.528 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 10.66 K alternative_first_exon CUFF.453 chr15 + chr15:91304486-91306195 chr15:91305653-91306195 chr15:91303824-91304485 chr15:91305527-91305652 61.29 N alternative_acceptor CUFF.198 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 0.62 N intron_retention chr17 + chr17:80417949-80426639 chr17:80417948-80417949;chr17:80426639-80426640 22.22 N alternative_donor CUFF.788 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 0.00 N alternative_donor CUFF.1255 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 9.41 K intron_retention CUFF.428 chr15 + chr15:74753760-74754223 chr15:74753759-74753760;chr15:74754223-74754224 58.33 K intron_retention CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215477-73215478;chr2:73226077-73226078 1.88 K intron_retention CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741775-125741776;chr3:125745235-125745236 77.93 N alternative_acceptor chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 64.00 N cassette CUFF.86 chr1 - chr1:169696667-169697198;chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169698326,chr1:169697069-169697198 chr1:169696880-169697068 25.66 K cassette CUFF.391 chr15 + chr15:40565878-40568127 chr15:40565878-40566342;chr15:40566478-40568127 chr15:40566343-40566477 83.56 N alternative_acceptor CUFF.148 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 0.00 N alternative_first_exon CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48293619;chr12:48276558-48336645 chr12:48276558-48298737 chr12:48293620-48293692;chr12:48336646-48336831 chr12:48298738-48298880 13.64 N jcn_only_AA chr12 - chr12:22611520-22612425;chr12:22611490-22612425 chr12:22610096-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 9.52 K alternative_first_exon CUFF.176 chr11 - chr11:1782699-1785021 chr11:1782699-1783362 chr11:1785022-1785289 chr11:1783363-1783461 35.29 N alternative_acceptor CUFF.513,CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 5.88 N coord_cassette CUFF.1152 chr6 - chr6:35477090-35479424 chr6:35477090-35477410;chr6:35477528-35477603;chr6:35477706-35478637;chr6:35478788-35479424 chr6:35477411-35477527;chr6:35477604-35477705;chr6:35478638-35478787 72.00 N alternative_donor CUFF.206 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 53.23 N alternative_donor CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 2.72 N cassette CUFF.265 chr12 + chr12:13349807-13366412 chr12:13349807-13364402;chr12:13364523-13366412 chr12:13364403-13364522 97.41 N intron_retention chr11 - chr11:102960048-102962412 chr11:102960047-102960048;chr11:102962412-102962413 38.55 K intron_retention CUFF.950 chr3 - chr3:46963630-46963725 chr3:46963629-46963630;chr3:46963725-46963726 10.85 K intron_retention CUFF.243 chr11 - chr11:119291046-119291578 chr11:119291045-119291046;chr11:119291578-119291579 67.50 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241375502-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241375088-241375501 18.39 N jcn_only_AD CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888995-11889144 chr19:11888553-11888994 chr19:11888552-11888553 93.10 K alternative_first_exon CUFF.739 chr2 - chr2:286344-286869;chr2:286344-287582 chr2:286344-287162 chr2:286870-286951;chr2:287583-287892 chr2:287163-287261 8.98 K intron_retention chr12 - chr12:7086688-7086759 chr12:7086687-7086688;chr12:7086759-7086760 59.38 N jcn_only_AD chr17 - chr17:79354385-79358745;chr17:79354385-79355676 chr17:79354385-79358928 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 55.77 K intron_retention CUFF.930 chr3 + chr3:19992554-20017134 chr3:19992553-19992554;chr3:20017134-20017135 71.43 K cassette CUFF.998 chr3 - chr3:173628660-173632679 chr3:173628660-173630335;chr3:173630408-173632679 chr3:173630336-173630407 30.16 K intron_retention CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711970-169711971;chr2:169713199-169713200 20.65 K intron_retention CUFF.953 chr3 - chr3:49460997-49461507 chr3:49460996-49460997;chr3:49461507-49461508 82.93 K intron_retention CUFF.638 chr18 + chr18:61826223-61826329 chr18:61826222-61826223;chr18:61826329-61826330 6.96 N coord_cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49350134-49350767 chr12:49349478-49349543;chr12:49349881-49350133 25.00 N jcn_only_AD CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 13.70 K intron_retention CUFF.361 chr14 + chr14:77929103-77930940 chr14:77929102-77929103;chr14:77930940-77930941 2.66 N cassette CUFF.1127 chr6 + chr6:304662-335113;chr6:292561-345853 chr6:292561-311879,chr6:304662-311879;chr6:311963-335113,chr6:311963-345853 chr6:311880-311962 83.37 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508690-66511127 chr17:66508284-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 14.49 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619660 chr14:69589078-69619205 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 18.42 N alternative_acceptor CUFF.270 chr12 - chr12:22610096-22622642 chr12:22612477-22622642 chr12:22610096-22612476 chr12:22610095-22610096 84.62 K alternative_last_exon CUFF.1086 chr5 - chr5:54429357-54436141 chr5:54433465-54436141 chr5:54429240-54429356 chr5:54432467-54433464 42.29 K intron_retention chr5 + chr5:54456072-54456157 chr5:54456071-54456072;chr5:54456157-54456158 20.15 N jcn_only_AD CUFF.1421 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 11.93 K jcn_only_AA CUFF.514 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 73.88 N jcn_only_AD CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 42.53 K cassette CUFF.367 chr14 - chr14:92195824-92246919 chr14:92195824-92245318;chr14:92245415-92246919 chr14:92245319-92245414 17.07 N coord_cassette CUFF.624 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44301324;chr18:44301433-44336340 chr18:44284535-44284627;chr18:44301325-44301432 50.00 K alternative_last_exon CUFF.1094 chr5 - chr5:64900873-64905069 chr5:64902995-64905069 chr5:64900738-64900872 chr5:64902746-64902994 30.91 N alternative_acceptor chr11 + chr11:36398255-36415395;chr11:36398255-36422546 chr11:36398255-36400930 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 7.55 K intron_retention chr3 + chr3:122880303-122880726 chr3:122880302-122880303;chr3:122880726-122880727 16.67 N alternative_acceptor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 1.32 N jcn_only_AA chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 97.02 N intron_retention chr12 + chr12:53861078-53862560 chr12:53861077-53861078;chr12:53862560-53862561 28.48 N alternative_acceptor CUFF.624 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 95.88 N intron_retention chr17 + chr17:25969375-25972339 chr17:25969374-25969375;chr17:25972339-25972340 38.24 N jcn_only_AA CUFF.133 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 23.26 N cassette CUFF.1003 chr3 + chr3:186648624-186769036 chr3:186648624-186681572;chr3:186681715-186769036 chr3:186681573-186681714 88.50 K intron_retention chr8 - chr8:56675588-56676195 chr8:56675587-56675588;chr8:56676195-56676196 38.78 K intron_retention CUFF.672 chr19 + chr19:12917894-12918019 chr19:12917893-12917894;chr19:12918019-12918020 9.44 N intron_retention CUFF.235 chr11 + chr11:118403177-118403804 chr11:118403176-118403177;chr11:118403804-118403805 92.06 K intron_retention CUFF.925 chr22 - chr22:51018701-51018786 chr22:51018700-51018701;chr22:51018786-51018787 44.70 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927737 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 34.84 K coord_cassette CUFF.841 chr2 + chr2:219225383-219231746 chr2:219225383-219227457;chr2:219227626-219229350;chr2:219229476-219231746 chr2:219227458-219227625;chr2:219229351-219229475 8.79 K mutually_exclusive CUFF.763 chr2 - chr2:46808731-46818941,chr2:46819065-46819613 chr2:46808731-46815213,chr2:46815319-46819613 chr2:46818942-46819064 chr2:46815214-46815318 51.28 N cassette CUFF.553 chr17 + chr17:25974145-25975861 chr17:25974145-25974295;chr17:25974459-25975861 chr17:25974296-25974458 75.20 K intron_retention CUFF.856 chr2 - chr2:242437765-242438053 chr2:242437764-242437765;chr2:242438053-242438054 31.88 N intron_retention chr12 - chr12:56705238-56708634 chr12:56705237-56705238;chr12:56708634-56708635 85.71 K intron_retention CUFF.1373 chr9 + chr9:139744590-139744954 chr9:139744589-139744590;chr9:139744954-139744955 26.32 K intron_retention CUFF.715 chr19 + chr19:50309035-50309128 chr19:50309034-50309035;chr19:50309128-50309129 33.80 N cassette CUFF.1167 chr6 + chr6:111306342-111312949 chr6:111306342-111310190;chr6:111310269-111312949 chr6:111310191-111310268 98.49 N alternative_acceptor CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483852-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 3.30 N jcn_only_AD CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 60.00 N alternative_donor CUFF.607 chr17 + chr17:80417949-80422162 chr17:80418200-80422162 chr17:80417949-80418199 chr17:80417948-80417949 7.39 K intron_retention CUFF.861 chr20 - chr20:3171885-3172410 chr20:3171884-3171885;chr20:3172410-3172411 19.78 K intron_retention CUFF.607 chr17 + chr17:80441619-80446077 chr17:80441618-80441619;chr17:80446077-80446078 52.46 N cassette CUFF.287 chr12 + chr12:53861078-53862560 chr12:53861078-53861588;chr12:53861628-53862560 chr12:53861589-53861627 88.58 K alternative_acceptor CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 31.25 K cassette CUFF.336 chr14 + chr14:24459569-24473545;chr14:24459569-24470071 chr14:24459569-24464240;chr14:24464343-24473545,chr14:24464343-24470071 chr14:24464241-24464342 47.37 N jcn_only_AD CUFF.964 chr3 + chr3:97643256-97652537;chr3:97634581-97652537 chr3:97652352-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 26.76 K alternative_acceptor CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 chr11:63999903-64000086;chr11:64000176-64000337 16.72 K intron_retention chr1 - chr1:41486606-41487201 chr1:41486605-41486606;chr1:41487201-41487202 48.33 N alternative_donor CUFF.497 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 11.36 N jcn_only_AD CUFF.1169 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 37.42 K alternative_first_exon CUFF.126 chr10 - chr10:35360268-35363119,chr10:35360268-35379106;chr10:35360268-35379357 chr10:35360268-35378823 chr10:35379358-35379560 chr10:35378824-35379040 24.51 N mutually_exclusive CUFF.207 chr11 + chr11:63672516-63675731,chr11:63675777-63676348 chr11:63672516-63673559,chr11:63673587-63676348 chr11:63675732-63675776 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678492 7.85 N alternative_donor CUFF.1127 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 3.57 K alternative_first_exon CUFF.1385,CUFF.1408 chrX - chrX:19954017-19955622 chrX:19954017-19955535 chrX:19955623-19955650 chrX:19955536-19955615 29.41 K jcn_only_AD CUFF.16 chr1 - chr1:16909254-16918341 chr1:16909254-16910088 10.71 N alternative_donor CUFF.1378,CUFF.1402 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 9.68 N intron_retention CUFF.593 chr17 + chr17:61907310-61907492 chr17:61907309-61907310;chr17:61907492-61907493 chr17:61907212-61907309;chr17:61907493-61907549 15.69 K jcn_only_AA CUFF.120 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 21.21 K cassette CUFF.1370 chr9 + chr9:138480579-138482636 chr9:138480579-138481256;chr9:138481331-138482636 chr9:138481257-138481330 75.00 K alternative_last_exon CUFF.1262 chr7 - chr7:156589187-156619298 chr7:156616618-156619298 chr7:156589083-156589186 chr7:156616563-156616617 13.77 N jcn_only_AD CUFF.883 chr21 + chr21:15685442-15688521 chr21:15685453-15688521 chr21:15685442-15685452 chr21:15685441-15685442 60.00 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 3.21 N jcn_only_AA CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 14.03 N intron_retention CUFF.593 chr17 + chr17:61908296-61908379 chr17:61908295-61908296;chr17:61908379-61908380 chr17:61908169-61908295;chr17:61908380-61908586 75.00 K alternative_first_exon CUFF.806 chr2 + chr2:160585687-160599571 chr2:160590594-160599571 chr2:160585520-160585686 chr2:160590509-160590593 13.18 K jcn_only_AD CUFF.297 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 62.63 K coord_cassette CUFF.207 chr11 + chr11:63672516-63676348 chr11:63672516-63673559;chr11:63673587-63675731;chr11:63675777-63676348 chr11:63673560-63673586;chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678492 37.10 N jcn_only_AA CUFF.967 chr3 - chr3:107586273-107591814;chr3:107586425-107591814 chr3:107591328-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 3.11 K cassette CUFF.285 chr12 - chr12:52981636-52985247 chr12:52981636-52984619;chr12:52984746-52985247 chr12:52984620-52984745 84.72 N alternative_donor chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 56.94 K jcn_only_AD CUFF.1424 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 79.17 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 3.85 N alternative_donor CUFF.935 chr3 + chr3:28360371-28360999;chr3:28358351-28360999 chr3:28357915-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 90.00 N intron_retention chr4 + chr4:120379233-120381897 chr4:120379232-120379233;chr4:120381897-120381898 83.06 K jcn_only_AA CUFF.327 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 57.14 N jcn_only_AA CUFF.941 chr3 - chr3:33626413-33633886 chr3:33633732-33633886 chr3:33626413-33633731 chr3:33626412-33626413 6.67 K intron_retention CUFF.1336 chr9 - chr9:46687684-46687798 chr9:46687683-46687684;chr9:46687798-46687799 23.53 K intron_retention CUFF.1394 chrX - chrX:53563629-53564516 chrX:53563628-53563629;chrX:53564516-53564517 19.61 N alternative_acceptor CUFF.1378 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 0.00 N jcn_only_AD chr6 - chr6:128540242-128551876;chr6:128540242-128643183 chr6:128540242-128561179 70.79 N jcn_only_AA chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 chr16:3115782-3115827;chr16:3117444-3117886 86.69 N alternative_donor CUFF.794 chr2 + chr2:101565943-101580519 chr2:101579296-101580519 chr2:101565943-101579295 chr2:101565942-101565943 0.00 K alternative_first_exon CUFF.1300 chr8 + chr8:82192910-82195600 chr8:82193549-82195600 chr8:82192598-82192909 chr8:82193023-82193548 73.75 K cassette CUFF.742 chr2 + chr2:1094097-1133307 chr2:1094097-1099090;chr2:1099129-1133307 chr2:1099091-1099128 19.15 N alternative_donor CUFF.110 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 40.00 K alternative_last_exon CUFF.686 chr19 - chr19:21627226-21637184 chr19:21636580-21637184 chr19:21627043-21627225 chr19:21636352-21636579 69.14 N jcn_only_AD chr14 - chr14:71227900-71249939;chr14:71227900-71232158 chr14:71227900-71267383 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 26.92 N jcn_only_AD chr17 + chr17:29677337-29683477 chr17:29679433-29683477 63.64 N intron_retention chrX - chrX:119374209-119378618 chrX:119374208-119374209;chrX:119378618-119378619 40.54 N jcn_only_AA chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 42.31 K intron_retention CUFF.1248 chr7 - chr7:117398025-117400488 chr7:117398024-117398025;chr7:117400488-117400489 4.37 K intron_retention CUFF.175 chr11 + chr11:829541-829985 chr11:829540-829541;chr11:829985-829986 6.25 K cassette CUFF.615 chr18 + chr18:12014373-12028041 chr18:12014373-12021700;chr18:12021822-12028041 chr18:12021701-12021821 15.68 N jcn_only_AA CUFF.1262 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 9.31 K alternative_last_exon CUFF.219 chr11 + chr11:74108951-74195221 chr11:74108951-74139377 chr11:74195222-74195293 chr11:74139378-74139610 42.42 N mutually_exclusive CUFF.987 chr3 - chr3:127294109-127294591,chr3:127294653-127294782 chr3:127294109-127294245,chr3:127294349-127294782 chr3:127294592-127294652 chr3:127294246-127294348 54.76 N cassette CUFF.541 chr17 - chr17:15535029-15539349 chr17:15535029-15535822;chr17:15535989-15539349 chr17:15535823-15535988 91.03 N intron_retention CUFF.593 chr17 + chr17:61904875-61905188 chr17:61904874-61904875;chr17:61905188-61905189 chr17:61904778-61904874 83.33 K intron_retention CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131484853-131484854;chr9:131486272-131486273 68.72 K alternative_acceptor CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 41.41 N jcn_only_AD CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560535-61560820 chr17:61560051-61560534 chr17:61560050-61560051 47.50 N jcn_only_AA CUFF.600 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 2.44 K intron_retention CUFF.1183 chr6 + chr6:145157678-145160308 chr6:145157677-145157678;chr6:145160308-145160309 40.95 K cassette CUFF.430 chr15 - chr15:75762341-75766029 chr15:75762341-75763020;chr15:75763172-75766029 chr15:75763021-75763171 26.67 N jcn_only_AA CUFF.991 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 1.66 N cassette CUFF.674 chr19 - chr19:14854597-14857707 chr19:14854597-14857043;chr19:14857136-14857707 chr19:14857044-14857135 93.46 K alternative_first_exon CUFF.619 chr18 + chr18:14728514-14797659 chr18:14796415-14797659 chr18:14728219-14728513 chr18:14796342-14796414 32.26 N cassette CUFF.953 chr3 - chr3:49462872-49463684 chr3:49462872-49463315;chr3:49463430-49463684 chr3:49463316-49463429 73.53 N jcn_only_AA chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 89.51 N intron_retention chr19 + chr19:1438892-1440024 chr19:1438891-1438892;chr19:1440024-1440025 68.33 N alternative_donor CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 74.00 N intron_retention chr11 + chr11:59861032-59861436 chr11:59861031-59861032;chr11:59861436-59861437 78.57 N alternative_donor CUFF.1154 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 14.29 K cassette CUFF.611 chr18 + chr18:158715-163307 chr18:158715-162982;chr18:163175-163307 chr18:162983-163174 37.33 K intron_retention CUFF.972 chr3 + chr3:119207835-119209397 chr3:119207834-119207835;chr3:119209397-119209398 26.06 K alternative_acceptor CUFF.1353,CUFF.1374 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 26.64 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133320383-133327610 chr9:133327431-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 16.22 N jcn_only_AD chrX + chrX:148863691-148867418 chrX:148864250-148867418 69.84 N cassette CUFF.897 chr22 - chr22:18082862-18095577 chr22:18082862-18083857;chr22:18083948-18095577 chr22:18083858-18083947 92.81 N intron_retention chr12 + chr12:69218349-69233554 chr12:69218348-69218349;chr12:69233554-69233555 94.03 N jcn_only_AD CUFF.385 chr15 + chr15:29131425-29213842;chr15:29211691-29213842 chr15:29140756-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 14.51 K intron_retention CUFF.1144 chr6 - chr6:31937802-31937885 chr6:31937801-31937802;chr6:31937885-31937886 4.31 K alternative_first_exon CUFF.493 chr16 + chr16:21693147-21696550 chr16:21695874-21696550 chr16:21693059-21693146 chr16:21695817-21695873 3.28 K intron_retention CUFF.763 chr2 - chr2:46842325-46843725 chr2:46842324-46842325;chr2:46843725-46843726 30.00 N jcn_only_AA CUFF.357 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76353043-76368484 chr14:76368484-76368485 35.23 N cassette CUFF.1282 chr8 - chr8:56675588-56676494 chr8:56675588-56676195;chr8:56676261-56676494 chr8:56676196-56676260 16.01 N alternative_acceptor CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 3.56 N alternative_donor CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 100.00 K alternative_last_exon CUFF.315,CUFF.331 chr13 + chr13:103510769-103513856 chr13:103510769-103511260 chr13:103513857-103514064 chr13:103511261-103511288 14.29 K cassette CUFF.1344 chr9 + chr9:95588861-95599058 chr9:95588861-95591219;chr9:95591446-95599058 chr9:95591220-95591445 86.60 K coord_cassette CUFF.405 chr15 - chr15:50833462-50838669 chr15:50833462-50835794;chr15:50835991-50836783;chr15:50836979-50838669 chr15:50835795-50835990;chr15:50836784-50836978 43.33 N intron_retention chr12 - chr12:22666314-22672048 chr12:22666313-22666314;chr12:22672048-22672049 32.39 N jcn_only_AD CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 23.13 N alternative_acceptor CUFF.712 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 16.67 K jcn_only_AA CUFF.198 chr11 + chr11:36317989-36422546 chr11:36317989-36318920 21.13 K cassette CUFF.446 chr15 - chr15:83333696-83334208 chr15:83333696-83333998;chr15:83334056-83334208 chr15:83333999-83334055 47.37 K alternative_acceptor CUFF.650 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 45.39 N alternative_donor CUFF.1391 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46382372-46387769 chrX:46387769-46387770 52.63 K jcn_only_AD CUFF.526 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 77.86 K jcn_only_AD CUFF.619 chr18 + chr18:14797854-14808549 chr18:14803824-14808549 72.73 N jcn_only_AA CUFF.587 chr17 + chr17:61564435-61565721;chr17:61564435-61565930 chr17:61564435-61566008 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 85.00 N mutually_exclusive CUFF.256 chr12 - chr12:7088742-7090755,chr12:7090794-7090971 chr12:7088742-7090165,chr12:7090345-7090971 chr12:7090756-7090793 chr12:7090166-7090344 60.00 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15693092-15706783;chrX:15693902-15706783 chrX:15699171-15706783,chrX:15699311-15706783 chrX:15692965-15693091;chrX:15693813-15693901 chrX:15699124-15699170 40.83 N intron_retention chr7 - chr7:37382368-37488462 chr7:37382367-37382368;chr7:37488462-37488463 91.30 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141747883 chr3:141724387-141772956 31.20 N intron_retention CUFF.728 chr19 + chr19:52909897-52918191 chr19:52909896-52909897;chr19:52918191-52918192 69.23 K alternative_first_exon CUFF.1199,CUFF.1217 chr7 - chr7:55755618-55759006 chr7:55755618-55756605 chr7:55759007-55759193 chr7:55756606-55756994 43.75 N intron_retention chr5 + chr5:137514892-137515348 chr5:137514891-137514892;chr5:137515348-137515349 54.43 N jcn_only_AA CUFF.490 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 58.00 N intron_retention chr2 - chr2:61761039-61764153 chr2:61761038-61761039;chr2:61764153-61764154 80.00 N cassette CUFF.142 chr10 - chr10:73862171-73887839;chr10:73857209-73887839 chr10:73862171-73862607,chr10:73857209-73862607;chr10:73862726-73887839 chr10:73862608-73862725 11.95 K intron_retention CUFF.19 chr1 - chr1:25558703-25558934 chr1:25558702-25558703;chr1:25558934-25558935 9.30 N jcn_only_AA CUFF.537 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 3.76 K intron_retention CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34991413-34991414;chr9:34993196-34993197 3.85 K coord_cassette CUFF.769 chr2 - chr2:61727030-61749745 chr2:61727030-61729130;chr2:61729176-61729383;chr2:61729446-61749745 chr2:61729131-61729175;chr2:61729384-61729445 69.37 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821 chr5:149782189-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 27.74 N jcn_only_AD CUFF.1378,CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 16.67 K intron_retention chr17 - chr17:76993727-76993921 chr17:76993726-76993727;chr17:76993921-76993922 22.34 K alternative_first_exon CUFF.1170 chr6 + chr6:112604730-112627530,chr6:112604370-112627530;chr6:112558118-112627530 chr6:112604395-112627530 chr6:112557939-112558117 chr6:112604378-112604394 chr6:112627531-112627885 32.50 K intron_retention CUFF.710 chr19 - chr19:49311494-49314240 chr19:49311493-49311494;chr19:49314240-49314241 32.14 N alternative_acceptor CUFF.1067 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 82.64 N alternative_donor chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 100.00 N alternative_donor CUFF.847 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 75.00 N jcn_only_AA CUFF.1157 chr6 - chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483929-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 16.36 N intron_retention chr1 + chr1:145580323-145580504 chr1:145580322-145580323;chr1:145580504-145580505 82.76 K alternative_first_exon CUFF.65 chr1 - chr1:153925846-153930820 chr1:153925846-153926013 chr1:153930821-153931091 chr1:153926014-153926082 71.70 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 41.05 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38971877;chr7:38937730-38969071 chr7:38937730-38948753 chr7:38971878-38972085;chr7:38969072-38969236 chr7:38948754-38948865 47.20 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 19.23 K cassette CUFF.345 chr14 + chr14:59006855-59014498 chr14:59006855-59010600;chr14:59010686-59014498 chr14:59010601-59010685 5.28 N jcn_only_AA CUFF.1111 chr5 + chr5:149779794-149781420 chr5:149779794-149781193 60.00 K intron_retention CUFF.729 chr19 + chr19:54657578-54657680 chr19:54657577-54657578;chr19:54657680-54657681 43.48 N intron_retention chr12 + chr12:53854210-53854798 chr12:53854209-53854210;chr12:53854798-53854799 42.22 N jcn_only_AA chr15 + chr15:29131425-29140665;chr15:29131425-29213842 chr15:29131425-29139019 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 73.53 N jcn_only_AD CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 28.92 N alternative_donor CUFF.1411 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 7.14 N jcn_only_AA CUFF.752 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 29.41 N coord_cassette CUFF.299 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 35.48 K cassette CUFF.367 chr14 - chr14:92195824-92246919 chr14:92195824-92203037;chr14:92203194-92246919 chr14:92203038-92203193 33.98 N alternative_donor CUFF.165 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 16.67 N alternative_donor CUFF.277 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 21.21 N alternative_acceptor chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 1.72 N alternative_acceptor chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 29.31 K alternative_first_exon CUFF.729 chr19 + chr19:54656737-54657451 chr19:54656820-54657451 chr19:54656604-54656736 chr19:54656764-54656819 11.76 N alternative_acceptor CUFF.497 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 4.68 N mutually_exclusive CUFF.399 chr15 - chr15:44859791-44864880,chr15:44865019-44876011 chr15:44859791-44862722,chr15:44862857-44876011 chr15:44864881-44865018 chr15:44862723-44862856 54.17 K cassette CUFF.818 chr2 + chr2:171400499-171508137 chr2:171400499-171503418;chr2:171503450-171508137 chr2:171503419-171503449 19.44 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371 chr8:106400154-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 20.00 N alternative_acceptor CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251903-127251998 chr7:127251731-127251902 chr7:127251730-127251731 3.10 K coord_cassette CUFF.102 chr1 + chr1:222824246-222826349 chr1:222824246-222825318;chr1:222825391-222825569;chr1:222825675-222826349 chr1:222825319-222825390;chr1:222825570-222825674 15.58 N cassette CUFF.122 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048168-27054146 chr10:27047991-27048167 72.50 N jcn_only_AD CUFF.533,CUFF.576 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 13.86 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125802935;chr3:125787090-125820271 chr3:125787090-125797816 chr3:125802897-125802924;chr3:125802936-125803107;chr3:125820272-125820503 chr3:125797817-125797906 5.79 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144354565;chr8:144351691-144356889 chr8:144351691-144356873 78.86 K alternative_first_exon CUFF.954 chr3 + chr3:51743450-51746488 chr3:51745736-51746488 chr3:51742864-51743449 chr3:51745600-51745735 4.33 K alternative_donor CUFF.458 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 33.58 N alternative_donor CUFF.980 chr3 + chr3:122849464-122864368;chr3:122843191-122864368 chr3:122863677-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 5.00 N intron_retention chr13 + chr13:21141925-21142023 chr13:21141924-21141925;chr13:21142023-21142024 70.83 N alternative_acceptor CUFF.350 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 33.00 N alternative_donor chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 36.72 N alternative_donor chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 11.11 K coord_cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990384-46993437 chr17:46988170-46988242;chr17:46990196-46990383 37.10 K cassette CUFF.994 chr3 - chr3:155520381-155523927 chr3:155520381-155523385;chr3:155523513-155523927 chr3:155523386-155523512 52.83 K alternative_first_exon CUFF.743 chr2 + chr2:3464108-3469367 chr2:3466843-3469367 chr2:3464034-3464107 chr2:3466835-3466842 3.03 N jcn_only_AA ENSG00000187156.4 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 9.91 K jcn_only_AD CUFF.277 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 91.03 K jcn_only_AD CUFF.29 chr1 + chr1:31769923-31782890 chr1:31769944-31782890 chr1:31769923-31769943 chr1:31769922-31769923 22.58 K alternative_last_exon CUFF.452 chr15 - chr15:90380955-90414706 chr15:90408926-90414706 chr15:90380847-90380954 chr15:90408836-90408925 19.86 K cassette CUFF.1204 chr7 + chr7:30793555-30818047 chr7:30793555-30805960;chr7:30806178-30818047 chr7:30805961-30806177 5.13 K intron_retention CUFF.1066 chr4 + chr4:165675328-165675462 chr4:165675327-165675328;chr4:165675462-165675463 29.03 K alternative_acceptor CUFF.204 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 71.20 K alternative_first_exon CUFF.639 chr18 + chr18:63417617-63429882 chr18:63418387-63429882 chr18:63417488-63417616 chr18:63418196-63418386 84.62 N intron_retention chr11 - chr11:102960048-102962515 chr11:102960047-102960048;chr11:102962515-102962516 68.64 N alternative_donor CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 0.00 N alternative_donor chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 7.32 N alternative_acceptor CUFF.76 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 23.81 K jcn_only_AA CUFF.954 chr3 + chr3:51741184-51749077 chr3:51741184-51742863 83.74 N jcn_only_AD CUFF.361 chr14 + chr14:77928586-77934425 chr14:77932011-77934425 94.87 K jcn_only_AA CUFF.565 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 50.00 N cassette CUFF.1222 chr7 + chr7:73108000-73111934 chr7:73108000-73108321;chr7:73108381-73111934 chr7:73108322-73108380 88.75 N intron_retention chr16 - chr16:57507408-57507524 chr16:57507407-57507408;chr16:57507524-57507525 73.86 N alternative_donor CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 11.11 N jcn_only_AA CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 60.53 N alternative_donor CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246905-34252681 chr20:34252682-34252800 chr20:34252800-34252801 15.79 K cassette CUFF.527 chr17 - chr17:651273-655372 chr17:651273-653053;chr17:653150-655372 chr17:653054-653149 76.82 N cassette CUFF.191 chr11 - chr11:8496364-8615290;chr11:8496614-8615290 chr11:8496614-8502080,chr11:8496364-8502080;chr11:8502162-8615290 chr11:8502081-8502161 75.00 N jcn_only_AA CUFF.1361 chr9 - chr9:125652825-125667388 chr9:125659856-125667388 63.16 K alternative_first_exon CUFF.116 chr10 + chr10:6188460-6255585;chr10:6245300-6255585 chr10:6186977-6255585 chr10:6188258-6188459;chr10:6244810-6245299 chr10:6186814-6186976 3.29 N coord_cassette CUFF.541 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15580888;chr17:15581036-15584178 chr17:15562116-15562190;chr17:15580490-15580594;chr17:15580889-15581035 75.53 K alternative_donor CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 30.22 K alternative_acceptor CUFF.1330 chr9 + chr9:34993442-34996391 chr9:34993442-34996261 chr9:34996262-34996391 chr9:34996391-34996392 92.40 N jcn_only_AA CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491299-45492924 chr15:45491319-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 26.78 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 20.51 N alternative_acceptor CUFF.1175 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 8.33 N alternative_donor CUFF.301 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 6.38 N coord_cassette CUFF.127 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 78.14 K cassette CUFF.1065 chr4 - chr4:162421287-162459317 chr4:162421287-162431549;chr4:162431577-162459317 chr4:162431550-162431576 65.00 N jcn_only_AA chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 13.95 N alternative_acceptor CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 1.85 K coord_cassette CUFF.490 chr16 + chr16:19613046-19621643 chr16:19613046-19619499;chr16:19619597-19620295;chr16:19620344-19621643 chr16:19619500-19619596;chr16:19620296-19620343 53.78 N jcn_only_AA CUFF.1173 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 88.89 N jcn_only_AD CUFF.1381 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 3.68 K alternative_first_exon CUFF.132 chr10 - chr10:44273299-44274154 chr10:44273299-44274029 chr10:44274155-44274300 chr10:44274030-44274074 56.25 N jcn_only_AD chr18 + chr18:61377596-61390228 chr18:61388221-61390228 chr18:61377596-61388220 chr18:61377595-61377596 63.93 N jcn_only_AD chr15 + chr15:63047893-63053879 chr15:63050859-63053879 82.76 K cassette CUFF.990 chr3 - chr3:133894884-133901845 chr3:133894884-133896784;chr3:133896918-133901845 chr3:133896785-133896917 62.61 N alternative_first_exon CUFF.360 chr14 - chr14:75127644-75130601 chr14:75127644-75130214 chr14:75130602-75130777 chr14:75130215-75130581 91.78 K cassette CUFF.1230 chr7 - chr7:86577239-86688640 chr7:86577239-86594219;chr7:86594341-86688640 chr7:86594220-86594340 chr7:86577043-86577238;chr7:86688641-86689015 93.48 K intron_retention CUFF.602 chr17 - chr17:79477356-79477504 chr17:79477355-79477356;chr17:79477504-79477505 94.93 K alternative_donor CUFF.1424 chrX + chrX:153238312-153247300 chrX:153238338-153247300 chrX:153238312-153238337 chrX:153238311-153238312 chrX:153247301-153248646;chrX:153237778-153238311 66.67 K alternative_last_exon CUFF.1234 chr7 + chr7:93621479-93640352 chr7:93621479-93629608 chr7:93640353-93640423 chr7:93629609-93629684 63.33 K cassette CUFF.748 chr2 - chr2:11593925-11597304 chr2:11593925-11595467;chr2:11595601-11597304 chr2:11595468-11595600 54.39 K jcn_only_AA CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 14.34 N jcn_only_AD CUFF.146 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 68.97 K jcn_only_AD CUFF.803 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 55.00 N jcn_only_AA CUFF.462 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 3.57 N intron_retention chr2 - chr2:48873754-48874167 chr2:48873753-48873754;chr2:48874167-48874168 94.12 K alternative_acceptor CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 14.53 N alternative_donor CUFF.872 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 100.00 K alternative_first_exon CUFF.1279 chr8 - chr8:30643824-30648712 chr8:30643824-30643947 chr8:30648713-30648857 chr8:30643948-30644053 24.74 N intron_retention chr12 + chr12:69237045-69237520 chr12:69237044-69237045;chr12:69237520-69237521 78.28 N alternative_donor CUFF.255 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 1.75 K jcn_only_AA CUFF.668 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 70.09 N alternative_acceptor CUFF.736 chr2 - chr2:242177-243502;chr2:234273-243502 chr2:242872-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 21.05 N jcn_only_AD CUFF.587 chr17 + chr17:61568730-61571282;chr17:61567390-61571282 chr17:61571021-61571282 63.43 K alternative_first_exon CUFF.643 chr18 - chr18:72914296-72917147;chr18:72914296-72920374 chr18:72914296-72920315 chr18:72920375-72920507 chr18:72920316-72920370 26.37 N cassette CUFF.631 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895121-55912658 chr18:55895062-55895120 72.28 K intron_retention CUFF.213 chr11 - chr11:67766776-67766988 chr11:67766775-67766776;chr11:67766988-67766989 49.12 N cassette CUFF.856 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441215-242447420 chr2:242440893-242441214 95.37 K intron_retention CUFF.309 chr12 - chr12:120135644-120135780 chr12:120135643-120135644;chr12:120135780-120135781 13.82 N jcn_only_AA CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 4.74 K cassette CUFF.291 chr12 - chr12:56557550-56558431 chr12:56557550-56558086;chr12:56558153-56558431 chr12:56558087-56558152 chr12:56556763-56557549;chr12:56558432-56558515 86.92 K alternative_acceptor CUFF.175 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 28.71 K intron_retention CUFF.294 chr12 - chr12:56705199-56708634 chr12:56705198-56705199;chr12:56708634-56708635 40.56 N jcn_only_AD CUFF.945 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 17.72 K cassette CUFF.9 chr1 + chr1:11074023-11076900 chr1:11074023-11075580;chr1:11075704-11076900 chr1:11075581-11075703 68.78 N alternative_acceptor CUFF.930 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 64.58 K cassette CUFF.494 chr16 + chr16:21969921-21972648 chr16:21969921-21970659;chr16:21970877-21972648 chr16:21970660-21970876 60.00 K intron_retention CUFF.1142 chr6 + chr6:31937198-31937291 chr6:31937197-31937198;chr6:31937291-31937292 69.72 N cassette CUFF.636 chr18 + chr18:61379928-61387246 chr18:61379928-61383268;chr18:61383387-61387246 chr18:61383269-61383386 94.90 K intron_retention CUFF.846 chr2 + chr2:220097914-220098007 chr2:220097913-220097914;chr2:220098007-220098008 27.65 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 60.78 K jcn_only_AD CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 79.69 K intron_retention CUFF.500 chr16 - chr16:30006539-30006663 chr16:30006538-30006539;chr16:30006663-30006664 32.00 K alternative_last_exon CUFF.1041,CUFF.1059 chr4 + chr4:77184997-77230296 chr4:77184997-77189812 chr4:77230297-77232284 chr4:77189813-77189966 48.00 N jcn_only_AD CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 11.11 N alternative_first_exon CUFF.710 chr19 - chr19:49311494-49314240 chr19:49311494-49314065 chr19:49314241-49314352 chr19:49314066-49314216 85.54 N jcn_only_AA CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 21.23 N cassette CUFF.1411 chrX + chrX:107381222-107393381 chrX:107381222-107381342;chrX:107381422-107393381 chrX:107381343-107381421 69.70 N intron_retention chr11 + chr11:3427841-3428851 chr11:3427840-3427841;chr11:3428851-3428852 66.67 N jcn_only_AD CUFF.462 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 2.07 N jcn_only_AA CUFF.635 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 20.29 K intron_retention CUFF.419 chr15 + chr15:64444050-64444441 chr15:64444049-64444050;chr15:64444441-64444442 31.94 K alternative_acceptor CUFF.1115 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 22.22 N alternative_donor CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 83.33 N cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196919981;chr1:196920159-196927020 chr1:196919982-196920158 64.55 N jcn_only_AA CUFF.910 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 31.71 K intron_retention CUFF.856 chr2 - chr2:242432956-242434257 chr2:242432955-242432956;chr2:242434257-242434258 66.67 N jcn_only_AD CUFF.736 chr2 - chr2:175711686-175740515;chr2:175711686-175712446 chr2:175711686-175712040 51.43 K intron_retention chr2 - chr2:253116-260084 chr2:253115-253116;chr2:260084-260085 3.27 N jcn_only_AD CUFF.382 chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 48.57 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61761692 chr2:61761039-61765626 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 74.07 N jcn_only_AD CUFF.1380,CUFF.1381 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 20.91 N jcn_only_AD CUFF.995 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 12.47 N jcn_only_AA chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 96.71 K alternative_first_exon CUFF.1072 chr5 - chr5:2749902-2752772 chr5:2749902-2751278 chr5:2752773-2752780 chr5:2751279-2751776 83.44 N coord_cassette CUFF.736 chr2 - chr2:253116-264781 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263373-264781 chr2:260085-260702;chr2:262631-262786;chr2:263211-263372 58.24 N intron_retention CUFF.1150 chr6 + chr6:33239900-33240363 chr6:33239899-33239900;chr6:33240363-33240364 11.36 N cassette CUFF.857 chr2 + chr2:242590751-242592926;chr2:242591390-242592926 chr2:242590751-242592721,chr2:242591390-242592721;chr2:242592785-242592926 chr2:242592722-242592784 16.00 K intron_retention CUFF.856 chr2 - chr2:242436794-242437030 chr2:242436793-242436794;chr2:242437030-242437031 50.00 K alternative_last_exon CUFF.1414 chrX - chrX:119312412-119378618,chrX:119374209-119378618;chrX:119271100-119378618 chrX:119355498-119378618 chrX:119270952-119271099 chrX:119355194-119355497 80.95 N cassette CUFF.452 chr15 - chr15:90414779-90431752;chr15:90414779-90421496 chr15:90414779-90420537;chr15:90420657-90421496,chr15:90420657-90431752 chr15:90420538-90420656 49.46 K intron_retention chr8 - chr8:80976829-81083441 chr8:80976828-80976829;chr8:81083441-81083442 94.89 N coord_cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102950638-102950726;chr11:102953477-102953568;chr11:102953985-102954055 74.42 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25629395-25656671;chr12:25562365-25656671 chr12:25650729-25656671 chr12:25629088-25629394;chr12:25562235-25562364 chr12:25650513-25650728 16.89 N jcn_only_AA CUFF.352 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 4.64 K intron_retention CUFF.857 chr2 + chr2:242598603-242606059 chr2:242598602-242598603;chr2:242606059-242606060 41.82 K intron_retention CUFF.753 chr2 - chr2:27699594-27700083 chr2:27699593-27699594;chr2:27700083-27700084 10.39 N cassette CUFF.824 chr2 - chr2:175742857-175816891 chr2:175742857-175779785;chr2:175779900-175816891 chr2:175779786-175779899 94.01 N intron_retention CUFF.925 chr22 - chr22:51020292-51020457 chr22:51020291-51020292;chr22:51020457-51020458 52.00 N jcn_only_AA chr20 - chr20:31115717-31123243 chr20:31121289-31123243 chr20:31115717-31121288 chr20:31115716-31115717 45.45 K intron_retention CUFF.1222 chr7 + chr7:73108381-73111795 chr7:73108380-73108381;chr7:73111795-73111796 46.15 K jcn_only_AA CUFF.1115 chr5 + chr5:140031392-140031672 chr5:140031392-140031651 chr5:140031652-140031672 chr5:140031672-140031673 37.73 N jcn_only_AA CUFF.1391 chrX - chrX:46360768-46387784;chrX:46382561-46387784 chrX:46384874-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 71.29 K intron_retention CUFF.208 chr11 + chr11:63999437-64001365 chr11:63999436-63999437;chr11:64001365-64001366 chr11:63999343-63999436;chr11:64001366-64001758 55.75 K jcn_only_AD CUFF.175 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 12.50 N jcn_only_AA chr2 + chr2:1079342-1204788 chr2:1079342-1093881 93.51 K alternative_first_exon CUFF.704 chr19 - chr19:43724395-43727042 chr19:43724395-43724782 chr19:43727043-43727110 chr19:43724783-43725116 99.61 K mutually_exclusive CUFF.37 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370338,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370339-54370482 42.02 N alternative_donor chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 13.06 N intron_retention chr16 - chr16:4445341-4466785 chr16:4445340-4445341;chr16:4466785-4466786 87.50 N alternative_last_exon chr3 + chr3:132793203-132948109 chr3:132793203-132837881 chr3:132948110-132948195 chr3:132837882-132838228 94.12 N intron_retention CUFF.1410 chrX - chrX:106184863-106185167 chrX:106184862-106184863;chrX:106185167-106185168 66.67 N mutually_exclusive CUFF.653 chr19 - chr19:6040253-6044203,chr19:6044294-6047417 chr19:6040253-6042054,chr19:6042135-6047417 chr19:6044204-6044293 chr19:6042055-6042134 37.74 K alternative_first_exon CUFF.987 chr3 - chr3:127313777-127317038 chr3:127313777-127314294 chr3:127317039-127317069 chr3:127314295-127314533 70.91 K alternative_last_exon CUFF.1241 chr7 + chr7:107253878-107254098,chr7:107253878-107256705,chr7:107253878-107269266;chr7:107253878-107262074,chr7:107253878-107258772 chr7:107253878-107255690 chr7:107262075-107262315 chr7:107255691-107255736 12.43 N jcn_only_AA CUFF.681 chr19 + chr19:17581517-17594690;chr19:17581517-17597371 chr19:17581517-17598268 7.50 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36399275-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 0.00 N intron_retention chrX - chrX:152988744-152989470 chrX:152988743-152988744;chrX:152989470-152989471 52.17 K cassette CUFF.873 chr20 + chr20:33114149-33122431 chr20:33114149-33117655;chr20:33118039-33122431 chr20:33117656-33118038 24.39 N jcn_only_AD CUFF.925 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 84.09 N intron_retention chr7 + chr7:148991108-148991470 chr7:148991107-148991108;chr7:148991470-148991471 57.89 N jcn_only_AD CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 15.00 K alternative_first_exon CUFF.175 chr11 + chr11:827712-828229;chr11:826267-828229 chr11:827460-828229 chr11:826144-826266 chr11:827206-827459 20.00 K cassette CUFF.940 chr3 - chr3:33454320-33458249 chr3:33454320-33457497;chr3:33457593-33458249 chr3:33457498-33457592 22.45 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 0.00 K intron_retention ENSG00000260669.2 chr14 - chr14:24683602-24683697 chr14:24683601-24683602;chr14:24683697-24683698 16.67 K intron_retention CUFF.388 chr15 + chr15:30773111-30776704 chr15:30773110-30773111;chr15:30776704-30776705 66.67 N alternative_acceptor CUFF.357 chr14 + chr14:76349246-76368484 chr14:76349246-76353042 chr14:76353043-76368484 chr14:76368484-76368485 1.72 N alternative_acceptor CUFF.361 chr14 + chr14:76174051-76184203 chr14:76174051-76175521 chr14:76175522-76184203 chr14:76184203-76184204 81.05 K intron_retention CUFF.696 chr19 + chr19:40486054-40486192 chr19:40486053-40486054;chr19:40486192-40486193 36.84 K alternative_first_exon CUFF.499 chr16 - chr16:28515372-28523148 chr16:28515372-28518101 chr16:28523149-28523415 chr16:28518102-28518155 31.25 N alternative_donor CUFF.777,CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 24.44 N cassette CUFF.91 chr1 + chr1:196913069-196919981 chr1:196913069-196918746;chr1:196918780-196919981 chr1:196918747-196918779 49.41 N jcn_only_AA chr4 - chr4:152091944-152095821;chr4:152080505-152095821 chr4:152086849-152095821 36.36 N jcn_only_AA CUFF.260 chr12 + chr12:9723489-9725598 chr12:9723489-9724056 chr12:9724057-9725598 chr12:9725598-9725599 45.45 N jcn_only_AD CUFF.294,CUFF.307 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 33.33 N cassette CUFF.991 chr3 - chr3:141697525-141747420;chr3:141713984-141811902;chr3:141713984-141747420 chr3:141697525-141724282,chr3:141713984-141724282;chr3:141724387-141747420,chr3:141724387-141811902 chr3:141724283-141724386 87.16 K cassette CUFF.1241 chr7 + chr7:107220747-107224326 chr7:107220747-107221203;chr7:107221310-107224326 chr7:107221204-107221309 80.59 N jcn_only_AD chr15 - chr15:84873728-84898603 chr15:84873728-84873982 chr15:84873983-84898603 chr15:84898603-84898604 35.29 K cassette CUFF.512 chr16 - chr16:67218508-67218804 chr16:67218508-67218588;chr16:67218714-67218804 chr16:67218589-67218713 48.51 K jcn_only_AD CUFF.1094 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 22.56 K intron_retention CUFF.239 chr11 + chr11:119056220-119056633 chr11:119056219-119056220;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 7.94 K cassette CUFF.360 chr14 - chr14:77270256-77272758 chr14:77270256-77270717;chr14:77270759-77272758 chr14:77270718-77270758 91.80 N alternative_acceptor chr8 + chr8:107593480-107691437 chr8:107593480-107617009 chr8:107617010-107691437 chr8:107691437-107691438 5.00 N coord_cassette CUFF.1013 chr4 - chr4:2932878-2933281 chr4:2932878-2932953;chr4:2933002-2933101;chr4:2933193-2933281 chr4:2932954-2933001;chr4:2933102-2933192 74.36 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54621559;chr7:54617864-54618445 chr7:54617864-54636823,chr7:54617864-54636701 chr7:54621560-54621619;chr7:54618446-54620224 chr7:54636824-54638776 65.83 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:647497-647640;chr4:645547-647640 chr4:629759-647640 chr4:647399-647496;chr4:645257-645546 chr4:629669-629758 1.32 N alternative_donor CUFF.743 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 18.65 N coord_cassette CUFF.299 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 28.00 N jcn_only_AD CUFF.941,CUFF.950 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 27.12 K alternative_first_exon CUFF.1074,CUFF.1125 chr5 - chr5:36703067-36705822 chr5:36703067-36705781 chr5:36705823-36705953 chr5:36705782-36705797 44.90 N alternative_acceptor CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 53.85 N intron_retention chr16 + chr16:21974143-21974274 chr16:21974142-21974143;chr16:21974274-21974275 96.88 K cassette CUFF.1322 chr8 + chr8:144375236-144377909 chr8:144375236-144377548;chr8:144377641-144377909 chr8:144377549-144377640 14.29 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 90.24 K alternative_acceptor CUFF.349 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 14.71 K intron_retention CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486450-41486451;chr1:41487287-41487288 77.36 N alternative_donor CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 33.73 K intron_retention CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685403-5685404;chr11:5686885-5686886 36.71 N jcn_only_AA chr22 + chr22:37695348-37696193;chr22:37695348-37696110 chr22:37695348-37696947 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 83.74 N jcn_only_AA CUFF.142 chr10 - chr10:73956748-73972944;chr10:73972044-73972944 chr10:73970590-73972944 85.71 K alternative_acceptor CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 38.57 N alternative_acceptor CUFF.1232 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 59.09 N intron_retention chr11 - chr11:410028-417324 chr11:410027-410028;chr11:417324-417325 23.33 K intron_retention CUFF.391 chr15 + chr15:40568307-40569316 chr15:40568306-40568307;chr15:40569316-40569317 90.00 K jcn_only_AD CUFF.1355 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 73.68 K intron_retention CUFF.297 chr12 + chr12:58019536-58019780 chr12:58019535-58019536;chr12:58019780-58019781 18.95 N intron_retention chr16 + chr16:3117417-3117984 chr16:3117416-3117417;chr16:3117984-3117985 chr16:3117378-3117416 49.77 N alternative_acceptor CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 0.71 N alternative_donor CUFF.951,CUFF.995 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 1.48 N alternative_last_exon CUFF.345 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-58987639 chr14:58979346-59006788 chr14:59014499-59015215;chr14:58987640-58987922 chr14:59006789-59006854 43.18 N jcn_only_AD CUFF.135 chr10 + chr10:48231815-48235818 chr10:48235174-48235818 chr10:48231815-48235173 chr10:48231814-48231815 50.00 N jcn_only_AA CUFF.135 chr10 + chr10:48231815-48235818 chr10:48231815-48235121 chr10:48235122-48235818 chr10:48235818-48235819 50.00 N alternative_acceptor CUFF.758,CUFF.805 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 0.00 N alternative_donor CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 54.21 K intron_retention CUFF.1402 chrX - chrX:85118100-85282494 chrX:85118099-85118100;chrX:85282494-85282495 79.41 K intron_retention CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617863-54617864;chr7:54636823-54636824 10.65 N jcn_only_AD CUFF.1067 chr4 + chr4:186209237-186231788 chr4:186217185-186231788 chr4:186209237-186217184 chr4:186209236-186209237 37.84 K intron_retention CUFF.993 chr3 - chr3:149051187-149051299 chr3:149051186-149051187;chr3:149051299-149051300 19.15 N alternative_acceptor CUFF.1381 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 19.31 K alternative_last_exon CUFF.954,CUFF.960 chr3 + chr3:75500554-75505767 chr3:75500554-75501682 chr3:75505768-75506637 chr3:75501683-75501781 69.23 K cassette CUFF.285 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993194-52994810 chr12:52993055-52993193 46.67 N alternative_acceptor CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 73.36 K cassette CUFF.146 chr10 - chr10:76269268-76287523 chr10:76269268-76276480;chr10:76276660-76287523 chr10:76276481-76276659 18.92 N jcn_only_AD CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 71.11 K intron_retention chr12 + chr12:53861078-53861588 chr12:53861077-53861078;chr12:53861588-53861589 3.55 K jcn_only_AA CUFF.524 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 91.46 K jcn_only_AA CUFF.1131 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 94.10 N cassette CUFF.700 chr19 - chr19:41939579-41945378 chr19:41939579-41944122;chr19:41944320-41945378 chr19:41944123-41944319 89.47 N jcn_only_AD CUFF.935 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 51.58 N alternative_donor CUFF.805 chr2 + chr2:153476233-153481951 chr2:153479072-153481951 chr2:153476233-153479071 chr2:153476232-153476233 0.00 N intron_retention chr21 + chr21:15646434-15646458 chr21:15646433-15646434;chr21:15646458-15646459 73.33 N jcn_only_AA chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 22.06 N jcn_only_AA chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 53.33 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 5.48 K alternative_donor CUFF.469 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 6.67 K jcn_only_AD CUFF.645 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 73.55 K intron_retention CUFF.580 chr17 - chr17:47304121-47307938 chr17:47304120-47304121;chr17:47307938-47307939 36.67 N cassette CUFF.518 chr16 + chr16:70380952-70389387 chr16:70380952-70384459;chr16:70384509-70389387 chr16:70384460-70384508 98.81 N jcn_only_AD CUFF.357 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 57.02 K cassette CUFF.897 chr22 - chr22:18096087-18111368 chr22:18096087-18102226;chr22:18102293-18111368 chr22:18102227-18102292 57.22 K intron_retention chr8 - chr8:99057628-99057735 chr8:99057627-99057628;chr8:99057735-99057736 18.14 N jcn_only_AA CUFF.980 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 79.27 N cassette CUFF.653 chr19 - chr19:6016283-6110403;chr19:6016283-6039990 chr19:6016283-6026173;chr19:6026249-6039990,chr19:6026249-6110403 chr19:6026174-6026248 41.09 N alternative_acceptor CUFF.741,CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 57.50 K intron_retention chr14 - chr14:75152364-75158743 chr14:75152363-75152364;chr14:75158743-75158744 18.18 N cassette CUFF.846 chr2 + chr2:220095073-220096981;chr2:220095128-220096981 chr2:220095073-220096649,chr2:220095128-220096649;chr2:220096763-220096981 chr2:220096650-220096762 80.42 N jcn_only_AA CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302367-47304008 chr17:47302494-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 47.62 K intron_retention CUFF.175 chr11 + chr11:828964-829359 chr11:828963-828964;chr11:829359-829360 31.71 N alternative_donor CUFF.5 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 0.21 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104313111 chr14:104263856-104306415 6.43 N cassette CUFF.537 chr17 + chr17:6352728-6353681 chr17:6352728-6353347;chr17:6353393-6353681 chr17:6353348-6353392 72.65 K intron_retention CUFF.337 chr14 + chr14:24567597-24567683 chr14:24567596-24567597;chr14:24567683-24567684 4.91 K cassette CUFF.72 chr1 - chr1:156908306-156909339 chr1:156908306-156908940;chr1:156909078-156909339 chr1:156908941-156909077 66.67 K intron_retention CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055522-133055523;chr6:133055618-133055619 2.36 N alternative_donor CUFF.113 chr10 - chr10:410523-412214 chr10:410523-410754 chr10:410755-412214 chr10:412214-412215 chr10:410314-410522;chr10:412215-412351 28.57 K cassette CUFF.533 chr17 - chr17:5437309-5442734 chr17:5437309-5440170;chr17:5440261-5442734 chr17:5440171-5440260 79.87 K alternative_first_exon CUFF.1093 chr5 - chr5:60214216-60217880 chr5:60214216-60214338 chr5:60217881-60217982 chr5:60214339-60214419 31.98 N alternative_donor CUFF.357 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 16.80 K cassette CUFF.42 chr1 + chr1:70820892-70832126 chr1:70820892-70832009;chr1:70832012-70832126 chr1:70832010-70832011 30.52 N alternative_acceptor CUFF.148 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 100.00 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 13.39 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4466459;chr16:4463406-4464307 chr16:4463406-4465715 chr16:4466460-4466962;chr16:4464308-4464367 chr16:4465716-4465751 11.50 K intron_retention CUFF.652 chr19 - chr19:5894866-5896463 chr19:5894865-5894866;chr19:5896463-5896464 13.95 N alternative_donor CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 44.74 N coord_cassette CUFF.814 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169674681;chr2:169674807-169681143 chr2:169668077-169668162;chr2:169674682-169674806 90.95 N jcn_only_AA chr17 + chr17:29664899-29665019;chr17:29664899-29667522 chr17:29664899-29665042 54.62 N jcn_only_AA CUFF.1202 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 chr7:22357657-22396230 chr7:22357656-22357657 88.44 N intron_retention chr5 + chr5:54456072-54456947 chr5:54456071-54456072;chr5:54456947-54456948 83.06 K cassette CUFF.569 chr17 - chr17:37599882-37604050 chr17:37599882-37601663;chr17:37601823-37604050 chr17:37601664-37601822 73.81 N jcn_only_AD CUFF.148 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 1.11 K cassette CUFF.459 chr15 - chr15:99514388-99548657 chr15:99514388-99544415;chr15:99544509-99548657 chr15:99544416-99544508 53.33 N jcn_only_AA chr22 - chr22:21832391-21832873 chr22:21832451-21832873 59.79 N alternative_acceptor CUFF.583 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 69.77 K alternative_last_exon CUFF.460 chr15 - chr15:102239639-102241288;chr15:102226266-102241288 chr15:102236243-102241288 chr15:102226099-102226265 chr15:102235957-102236242 65.43 K jcn_only_AD CUFF.972 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 42.80 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313635 80.00 N coord_cassette CUFF.355 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75165466;chr14:75165560-75179635 chr14:75158744-75159031;chr14:75165467-75165559 60.00 K intron_retention CUFF.1251 chr7 + chr7:129028782-129028896 chr7:129028781-129028782;chr7:129028896-129028897 5.48 N mutually_exclusive CUFF.337 chr14 + chr14:24563464-24566100,chr14:24566347-24567411 chr14:24563464-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 38.98 K alternative_acceptor CUFF.1389 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 22.22 K alternative_donor CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 31.94 K alternative_acceptor CUFF.892 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 50.00 N coord_cassette CUFF.857 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592926 chr2:242590679-242590750;chr2:242591299-242591389 89.91 N alternative_donor CUFF.152,CUFF.164 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 0.00 N alternative_acceptor CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 27.72 K alternative_first_exon CUFF.755 chr2 - chr2:31428366-31449393 chr2:31428366-31440321 chr2:31449394-31449517 chr2:31440322-31440498 94.59 K alternative_donor CUFF.1384 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 65.15 K cassette CUFF.1206 chr7 + chr7:34888276-34889176 chr7:34888276-34888934;chr7:34889035-34889176 chr7:34888935-34889034 17.65 K intron_retention CUFF.940 chr3 - chr3:33437773-33438236 chr3:33437772-33437773;chr3:33438236-33438237 57.63 K cassette CUFF.62 chr1 + chr1:150249041-150253245 chr1:150249041-150252053;chr1:150252153-150253245 chr1:150252054-150252152 23.19 K alternative_acceptor CUFF.787 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 46.59 N alternative_donor CUFF.988 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 0.00 N jcn_only_AA chr19 + chr19:40478152-40478368 chr19:40478152-40478275 chr19:40478276-40478368 chr19:40478368-40478369 85.31 K alternative_first_exon CUFF.723 chr19 - chr19:51528923-51529011,chr19:51528923-51531199;chr19:51528923-51530712 chr19:51528923-51529793 chr19:51530713-51530946 chr19:51529794-51529858 23.80 K cassette CUFF.181 chr11 + chr11:3239790-3242799 chr11:3239790-3241456;chr11:3241590-3242799 chr11:3241457-3241589 chr11:3239562-3239789;chr11:3242800-3244361 70.65 N alternative_donor chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 83.33 K alternative_first_exon CUFF.902 chr22 + chr22:20748953-20759666;chr22:20755049-20759666 chr22:20755663-20759666 chr22:20748389-20748952;chr22:20754922-20755048 chr22:20755530-20755662 chr22:20759667-20761968 67.39 K alternative_acceptor CUFF.1361 chr9 - chr9:125616861-125617462 chr9:125616895-125617462 chr9:125616861-125616894 chr9:125616860-125616861 19.75 N jcn_only_AA CUFF.309 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 68.42 K intron_retention CUFF.175 chr11 + chr11:831033-831223 chr11:831032-831033;chr11:831223-831224 28.99 N jcn_only_AA CUFF.600 chr17 - chr17:79223894-79225292;chr17:79220862-79225292 chr17:79220859-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 2.95 K cassette CUFF.1088 chr5 + chr5:54456225-54459882 chr5:54456225-54456821;chr5:54457084-54459882 chr5:54456822-54457083 88.26 N jcn_only_AA CUFF.1249 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 74.72 N cassette CUFF.923 chr22 + chr22:47189739-47274548 chr22:47189739-47193340;chr22:47193518-47274548 chr22:47193341-47193517 78.18 K intron_retention CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094658-72094659;chr12:72097756-72097757 57.89 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31938925-31939705 chr6:31939359-31939705 10.70 N alternative_donor CUFF.603 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 40.00 N intron_retention chr16 + chr16:3115657-3115784 chr16:3115656-3115657;chr16:3115784-3115785 chr16:3115785-3115827 44.99 N alternative_acceptor chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 22.13 K intron_retention CUFF.745 chr2 - chr2:4007365-4007505 chr2:4007364-4007365;chr2:4007505-4007506 78.21 N jcn_only_AA CUFF.1381 chrX - chrX:13791150-13794356 chrX:13792744-13794356 chrX:13791150-13792743 chrX:13791149-13791150 23.89 N jcn_only_AA CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 51.06 N jcn_only_AA CUFF.322 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 17.39 K intron_retention CUFF.686 chr19 - chr19:21636580-21637184 chr19:21636579-21636580;chr19:21637184-21637185 5.08 N alternative_donor CUFF.736 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 0.82 K cassette CUFF.1149 chr6 + chr6:32823983-32825781 chr6:32823983-32825039;chr6:32825172-32825781 chr6:32825040-32825171 80.95 N jcn_only_AD CUFF.255 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 11.11 K jcn_only_AA CUFF.249 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 72.81 N cassette CUFF.951 chr3 - chr3:49365250-49377356 chr3:49365250-49372901;chr3:49373030-49377356 chr3:49372902-49373029 23.53 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669726;chr22:29668421-29674119 chr22:29668421-29669729 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 14.07 K jcn_only_AD CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 7.84 N intron_retention chr1 - chr1:161953196-161953385 chr1:161953195-161953196;chr1:161953385-161953386 22.92 N jcn_only_AD CUFF.21,CUFF.72 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 66.67 K alternative_donor CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146393-160147308 chr1:160146353-160146392 chr1:160146352-160146353 44.19 K intron_retention CUFF.1111 chr5 + chr5:139865318-139866542 chr5:139865317-139865318;chr5:139866542-139866543 chr5:139865174-139865317;chr5:139866543-139866645 59.57 N jcn_only_AA CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908296-61908379 chr17:61908380-61908395 chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 1.86 N jcn_only_AA CUFF.48 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 34.29 N cassette CUFF.214 chr11 + chr11:67782930-67786241 chr11:67782930-67785996;chr11:67786107-67786241 chr11:67785997-67786106 87.93 K cassette CUFF.528 chr17 - chr17:1617309-1619423 chr17:1617309-1617664;chr17:1617748-1619423 chr17:1617665-1617747 77.58 K alternative_last_exon CUFF.1361 chr9 - chr9:125627937-125639749 chr9:125637648-125639749 chr9:125627628-125627936 chr9:125636065-125637647 73.75 N alternative_acceptor chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 64.44 N alternative_donor CUFF.463 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 0.00 K intron_retention CUFF.526 chr16 + chr16:89799821-89799889 chr16:89799820-89799821;chr16:89799889-89799890 17.65 N jcn_only_AD CUFF.583 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 5.18 N alternative_donor CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888995-11889144 chr19:11888553-11888994 chr19:11888552-11888553 84.62 K intron_retention CUFF.576 chr17 - chr17:42340095-42340219 chr17:42340094-42340095;chr17:42340219-42340220 87.27 K intron_retention CUFF.107 chr1 + chr1:230391091-230398318 chr1:230391090-230391091;chr1:230398318-230398319 27.06 K jcn_only_AA CUFF.1360 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 31.43 N jcn_only_AD CUFF.239 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 chr11:119058649-119058853;chr11:119058273-119058367 93.26 N jcn_only_AA chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 38.83 N alternative_donor chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 0.00 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178047675-178050256;chr5:178045780-178050256 chr5:178049461-178050256 12.07 K intron_retention chr16 + chr16:19592976-19603111 chr16:19592975-19592976;chr16:19603111-19603112 5.88 N mutually_exclusive CUFF.287 chr12 + chr12:53856352-53859715,chr12:53859758-53861004 chr12:53856352-53858543,chr12:53858637-53861004 chr12:53859716-53859757 chr12:53858544-53858636 5.26 K alternative_donor CUFF.650 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 13.79 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 30.90 K cassette CUFF.690 chr19 - chr19:33984244-34001933 chr19:33984244-33991843;chr19:33991908-34001933 chr19:33991844-33991907 34.17 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90193278-90276552 chr6:90218678-90276552 8.09 K cassette CUFF.65 chr1 - chr1:153921861-153924493 chr1:153921861-153923735;chr1:153924143-153924493 chr1:153923736-153924142 89.66 N alternative_donor CUFF.369 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 13.79 K mutually_exclusive CUFF.86 chr1 - chr1:169696667-169697198,chr1:169697388-169698326 chr1:169696667-169696879,chr1:169697069-169698326 chr1:169697199-169697387 chr1:169696880-169697068 47.47 N alternative_donor CUFF.674 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 3.05 N alternative_last_exon CUFF.539 chr17 - chr17:15498141-15499827;chr17:15492542-15499827 chr17:15498205-15499827 chr17:15492326-15492541 chr17:15498062-15498204 71.30 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110251102 chr1:110214206-110224430 chr1:110217369-110217890;chr1:110251103-110252171 chr1:110224431-110224456 16.43 K jcn_only_AA CUFF.855 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 43.75 N cassette CUFF.518 chr16 + chr16:70389439-70395320 chr16:70389439-70390014;chr16:70390151-70395320 chr16:70390015-70390150 79.81 N jcn_only_AD CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 3.52 K jcn_only_AD CUFF.160 chr10 + chr10:106937825-106959756 chr10:106937932-106959756 chr10:106937825-106937931 chr10:106937824-106937825 18.75 K intron_retention chr14 + chr14:24563464-24563974 chr14:24563463-24563464;chr14:24563974-24563975 75.00 N alternative_acceptor CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 2.38 N jcn_only_AD chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 90.48 N jcn_only_AD CUFF.676 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 6.88 N coord_cassette CUFF.255 chr12 + chr12:4653071-4655474 chr12:4653071-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 3.13 N cassette CUFF.5 chr1 + chr1:2075781-2080310 chr1:2075781-2077465;chr1:2077548-2080310 chr1:2077466-2077547 89.59 N alternative_donor CUFF.883 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 28.00 N jcn_only_AA CUFF.460 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 11.36 K cassette CUFF.967 chr3 - chr3:107595034-107596159 chr3:107595034-107595301;chr3:107595379-107596159 chr3:107595302-107595378 29.49 N jcn_only_AD CUFF.113 chr10 - chr10:415574-428586 chr10:415574-418952 chr10:418953-428586 chr10:428586-428587 chr10:415434-415573;chr10:428587-428701 12.20 N jcn_only_AA CUFF.1037 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 88.31 K intron_retention CUFF.954 chr3 + chr3:51747327-51747979 chr3:51747326-51747327;chr3:51747979-51747980 0.82 N jcn_only_AD CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 14.94 K alternative_first_exon CUFF.950 chr3 - chr3:46982556-47007473;chr3:46982556-47018126 chr3:46982556-47017842 chr3:47018127-47018333 chr3:47017843-47018015 13.58 N mutually_exclusive CUFF.646 chr18 + chr18:77478017-77496354,chr18:77496522-77513651 chr18:77478017-77488906,chr18:77489070-77513651 chr18:77496355-77496521 chr18:77488907-77489069 chr18:77477810-77478016;chr18:77513652-77514510 7.25 N cassette CUFF.923 chr22 + chr22:47193518-47287161 chr22:47193518-47274548;chr22:47274620-47287161 chr22:47274549-47274619 91.58 N jcn_only_AD chr2 + chr2:48996261-49003418;chr2:48996214-49003418 chr2:48898820-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 22.50 N alternative_donor CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 3.68 N jcn_only_AA CUFF.686 chr19 - chr19:21632180-21636351 chr19:21636082-21636351 chr19:21632180-21636081 chr19:21632179-21632180 45.24 N alternative_donor CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 0.00 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 62.50 N jcn_only_AD CUFF.705 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 26.83 K intron_retention CUFF.210 chr11 + chr11:65479917-65480236 chr11:65479916-65479917;chr11:65480236-65480237 13.24 N jcn_only_AD CUFF.1188 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161413116-161443259 chr6:161413115-161413116 93.33 K alternative_first_exon CUFF.955 chr3 - chr3:52258329-52263676 chr3:52258329-52259542 chr3:52263677-52263688 chr3:52259543-52260179 chr3:52255096-52258328 57.14 N intron_retention chr2 - chr2:253116-256206 chr2:253115-253116;chr2:256206-256207 69.23 N jcn_only_AA chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 68.18 K intron_retention chr17 + chr17:25974145-25974295 chr17:25974144-25974145;chr17:25974295-25974296 14.09 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 17.31 K intron_retention CUFF.1385 chrX - chrX:19932545-19933056 chrX:19932544-19932545;chrX:19933056-19933057 4.61 N jcn_only_AD CUFF.254 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440484-4444817 chr12:4440483-4440484 23.81 N jcn_only_AA CUFF.668 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 52.73 N intron_retention chr11 + chr11:118402587-118403004 chr11:118402586-118402587;chr11:118403004-118403005 93.81 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118926990 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 16.05 N alternative_donor CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 47.62 N jcn_only_AD CUFF.597 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 58.33 N jcn_only_AD CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 39.02 N alternative_donor CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 10.42 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476369-36483891 chr11:36476997-36483891 6.02 N alternative_acceptor CUFF.956 chr3 - chr3:57569788-57570110;chr3:57569735-57570110 chr3:57569760-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 7.45 K jcn_only_AA CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005878-38006158 chr8:38005846-38005877 chr8:38005845-38005846 33.33 N coord_cassette CUFF.553 chr17 + chr17:25969375-25972886 chr17:25969375-25970550;chr17:25970647-25972339;chr17:25972376-25972886 chr17:25970551-25970646;chr17:25972340-25972375 82.61 N jcn_only_AA CUFF.533 chr17 - chr17:5405193-5421065;chr17:5418838-5421065 chr17:5409298-5421065 4.35 N alternative_acceptor CUFF.798 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 17.24 N alternative_donor CUFF.1292 chr8 + chr8:74891407-74893389;chr8:74891111-74893389 chr8:74891097-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 6.45 N jcn_only_AD CUFF.304 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 54.17 K jcn_only_AA CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 11.97 K intron_retention CUFF.1226 chr7 + chr7:75044077-75044162 chr7:75044076-75044077;chr7:75044162-75044163 63.86 K alternative_last_exon CUFF.145 chr10 - chr10:75476951-75478917 chr10:75477924-75478917 chr10:75476878-75476950 chr10:75477773-75477923 67.74 K alternative_first_exon CUFF.520 chr16 - chr16:75579853-75589701 chr16:75579853-75589116 chr16:75589702-75590233 chr16:75589117-75589234 64.18 K intron_retention CUFF.1125 chr5 - chr5:178030759-178030844 chr5:178030758-178030759;chr5:178030844-178030845 47.28 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133327431-133327610 chr9:133320383-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 27.03 N jcn_only_AA CUFF.784 chr2 - chr2:79364464-79365092 chr2:79364469-79365092 chr2:79364464-79364468 chr2:79364463-79364464 86.69 K alternative_first_exon CUFF.1043 chr4 - chr4:77987559-77996251;chr4:77987559-77996624 chr4:77987559-77995942 chr4:77996625-77997158 chr4:77995943-77996062 31.54 N alternative_acceptor CUFF.373 chr14 - chr14:104202540-104205015 chr14:104204198-104205015 chr14:104202540-104204197 chr14:104202539-104202540 58.59 K alternative_first_exon CUFF.854 chr2 + chr2:237476485-237489082 chr2:237478568-237489082 chr2:237476430-237476484 chr2:237478486-237478567 21.95 N intron_retention chrX - chrX:152988744-152989941 chrX:152988743-152988744;chrX:152989941-152989942 38.85 K intron_retention CUFF.964 chr3 + chr3:97662415-97663677 chr3:97662414-97662415;chr3:97663677-97663678 51.19 N alternative_acceptor CUFF.270 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 5.04 N jcn_only_AD CUFF.788 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 50.00 N jcn_only_AA CUFF.996 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 41.82 K intron_retention CUFF.1222 chr7 + chr7:73108381-73111934 chr7:73108380-73108381;chr7:73111934-73111935 1.67 N coord_cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136768-30136917;chr20:30137010-30137135 87.56 N alternative_donor CUFF.887,CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 48.91 K alternative_first_exon CUFF.518 chr16 + chr16:70380952-70384459 chr16:70381894-70384459 chr16:70380732-70380951 chr16:70381801-70381893 0.88 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 0.00 K cassette CUFF.653 chr19 - chr19:6047516-6110403 chr19:6047516-6072015;chr19:6072159-6110403 chr19:6072016-6072158 33.52 N alternative_acceptor CUFF.736 chr2 - chr2:263369-264781;chr2:263373-264781 chr2:263763-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 15.77 K alternative_last_exon CUFF.886 chr21 - chr21:15981890-15985196 chr21:15984967-15985196 chr21:15981803-15981889 chr21:15984826-15984966 56.76 K mutually_exclusive CUFF.222 chr11 - chr11:77885630-77897726,chr11:77897863-77899618 chr11:77885630-77888784,chr11:77889032-77899618 chr11:77897727-77897862 chr11:77888785-77889031 17.35 N jcn_only_AD CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 28.30 N cassette CUFF.1008 chr4 + chr4:660404-663834 chr4:660404-661644;chr4:661796-663834 chr4:661645-661795 66.13 N jcn_only_AD CUFF.951,CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125042231 chr3:125032501-125033780 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 8.70 N alternative_donor CUFF.631 chr18 + chr18:55919287-55983213 chr18:55981822-55983213 chr18:55919287-55981821 chr18:55919286-55919287 0.00 N alternative_acceptor CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 29.79 N coord_cassette CUFF.553 chr17 + chr17:25969375-25974055 chr17:25969375-25972886;chr17:25972938-25973572;chr17:25973615-25974055 chr17:25972887-25972937;chr17:25973573-25973614 82.84 N jcn_only_AA CUFF.798 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 8.19 N jcn_only_AA CUFF.108,CUFF.84 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 12.90 N alternative_donor CUFF.512 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 16.00 N alternative_acceptor CUFF.1016 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 0.87 N alternative_acceptor CUFF.1078,CUFF.1083 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 13.25 K intron_retention CUFF.1142 chr6 + chr6:31936239-31936677 chr6:31936238-31936239;chr6:31936677-31936678 91.73 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4524849-4555484;chr16:4533756-4555484 chr16:4526489-4555484 chr16:4524691-4524848;chr16:4533743-4533755 chr16:4525835-4526488 41.86 K alternative_last_exon CUFF.383,CUFF.441 chr15 + chr15:78819906-78829641 chr15:78819906-78825551 chr15:78829642-78829714 chr15:78825552-78826007 72.41 K cassette CUFF.787 chr2 - chr2:86839398-86847452 chr2:86839398-86842277;chr2:86842381-86847452 chr2:86842278-86842380 63.64 N jcn_only_AD CUFF.1255 chr7 + chr7:148982588-148984655 chr7:148982788-148984655 chr7:148982588-148982787 chr7:148982587-148982588 9.41 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115642;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115784 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 23.72 N intron_retention chr2 - chr2:253116-263983 chr2:253115-253116;chr2:263983-263984 64.52 N cassette CUFF.345 chr14 + chr14:58956959-58965500 chr14:58956959-58958861;chr14:58958994-58965500 chr14:58958862-58958993 82.80 N alternative_acceptor CUFF.1157 chr6 - chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483929-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 14.84 K intron_retention CUFF.1383 chrX - chrX:15338902-15339542 chrX:15338901-15338902;chrX:15339542-15339543 94.44 K cassette CUFF.44 chr1 - chr1:85724406-85725040 chr1:85724406-85724617;chr1:85724745-85725040 chr1:85724618-85724744 50.59 N jcn_only_AA CUFF.980 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 68.42 K intron_retention CUFF.514 chr16 - chr16:67970389-67970596 chr16:67970388-67970389;chr16:67970596-67970597 24.44 K intron_retention chr11 + chr11:118402587-118402960 chr11:118402586-118402587;chr11:118402960-118402961 91.90 N alternative_acceptor CUFF.796,CUFF.834 chr2 + chr2:200496619-200512396 chr2:200496619-200511776 chr2:200511777-200512396 chr2:200512396-200512397 2.94 N alternative_acceptor CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20017078 chr3:19992554-20012039 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 4.17 K cassette CUFF.294 chr12 - chr12:56708751-56709604 chr12:56708751-56708913;chr12:56709027-56709604 chr12:56708914-56709026 76.45 N jcn_only_AD chr11 - chr11:118926880-118926990;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927730 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 18.52 K intron_retention CUFF.291 chr12 - chr12:56574886-56575265 chr12:56574885-56574886;chr12:56575265-56575266 chr12:56574761-56574885;chr12:56575266-56575381 37.23 N alternative_acceptor CUFF.543 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 3.70 K jcn_only_AD CUFF.363 chr14 - chr14:81745084-81837331 chr14:81745084-81772975 chr14:81743245-81745083 92.31 K intron_retention CUFF.680 chr19 + chr19:17447844-17448816 chr19:17447843-17447844;chr19:17448816-17448817 78.65 N jcn_only_AA CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86541012-86541387 chr7:86539318-86541011 chr7:86539317-86539318 chr7:86541388-86541561;chr7:86539128-86539317 26.90 N alternative_acceptor CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 0.00 K intron_retention CUFF.1142 chr6 + chr6:31930576-31930761 chr6:31930575-31930576;chr6:31930761-31930762 29.09 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927711 chr11:118926880-118927515 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 10.59 N jcn_only_AD CUFF.303 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 21.59 K intron_retention CUFF.856 chr2 - chr2:242435950-242436714 chr2:242435949-242435950;chr2:242436714-242436715 69.57 N alternative_donor CUFF.830 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 0.77 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 68.57 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115642;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115784 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 32.12 K intron_retention CUFF.1241 chr7 + chr7:107220747-107224326 chr7:107220746-107220747;chr7:107224326-107224327 6.49 N alternative_acceptor CUFF.753 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 7.41 N cassette CUFF.1313 chr8 + chr8:107726214-107751685;chr8:107738538-107751685 chr8:107726214-107749747,chr8:107738538-107749747;chr8:107749829-107751685 chr8:107749748-107749828 61.67 N cassette CUFF.756 chr2 + chr2:33505226-33525517 chr2:33505226-33518226;chr2:33518350-33525517 chr2:33518227-33518349 24.73 N cassette CUFF.116 chr10 + chr10:6263491-6264817 chr10:6263491-6263603;chr10:6263709-6264817 chr10:6263604-6263708 96.20 N alternative_acceptor CUFF.600 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 92.63 K cassette CUFF.887 chr21 - chr21:30909707-30927372 chr21:30909707-30910118;chr21:30910206-30927372 chr21:30910119-30910205 chr21:30909254-30909706;chr21:30927373-30927623 40.28 K alternative_first_exon CUFF.1090,CUFF.1125 chr5 - chr5:54577344-54579030 chr5:54577344-54578943 chr5:54579031-54579639 chr5:54578944-54578982 12.90 K coord_cassette CUFF.1045 chr4 + chr4:81105210-81117505 chr4:81105210-81112625;chr4:81112724-81115266;chr4:81115394-81117505 chr4:81112626-81112723;chr4:81115267-81115393 86.21 K cassette CUFF.1360 chr9 + chr9:125054120-125084818 chr9:125054120-125075505;chr9:125075666-125084818 chr9:125075506-125075665 45.54 N cassette CUFF.615 chr18 + chr18:12009987-12014263 chr18:12009987-12012168;chr18:12012215-12014263 chr18:12012169-12012214 93.46 N alternative_acceptor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 1.55 K intron_retention CUFF.876 chr20 + chr20:33589153-33589233 chr20:33589152-33589153;chr20:33589233-33589234 37.91 N jcn_only_AD CUFF.681 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 40.35 N jcn_only_AD CUFF.269 chr12 + chr12:21229504-21279041;chr12:21242864-21279041 chr12:21272562-21279041 32.63 K cassette CUFF.851 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927390-231931619 chr2:231927220-231927389 82.86 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36317989-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 98.88 N jcn_only_AA CUFF.631 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 15.57 N jcn_only_AD chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 31.82 N cassette CUFF.1257 chr7 + chr7:150817233-150819811;chr7:150817233-150820880 chr7:150817233-150817606;chr7:150817833-150820880,chr7:150817833-150819811 chr7:150817607-150817832 65.57 N jcn_only_AA CUFF.270 chr12 - chr12:22610096-22622642 chr12:22612477-22622642 chr12:22610096-22612476 chr12:22610095-22610096 98.65 N jcn_only_AA CUFF.119 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 14.81 N jcn_only_AA chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 22.05 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4533756-4555484;chr16:4526489-4555484 chr16:4524849-4555484 chr16:4533743-4533755;chr16:4525835-4526488 chr16:4524691-4524848 2.96 N cassette CUFF.870 chr20 + chr20:30115386-30132749 chr20:30115386-30125981;chr20:30126065-30132749 chr20:30125982-30126064 91.67 N alternative_donor CUFF.1326 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 10.34 K intron_retention CUFF.175 chr11 + chr11:827319-828259 chr11:827318-827319;chr11:828259-828260 44.71 N jcn_only_AA chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 chr17:61905498-61905569 18.66 K alternative_last_exon CUFF.1100 chr5 - chr5:127396337-127396835;chr5:127302621-127396835;chr5:127292614-127396835 chr5:127359991-127396835 chr5:127302269-127302620;chr5:127292496-127292613 chr5:127359827-127359990 28.57 K cassette CUFF.674 chr19 - chr19:14876617-14877789 chr19:14876617-14877046;chr19:14877194-14877789 chr19:14877047-14877193 24.53 K cassette CUFF.279 chr12 - chr12:49334972-49349880 chr12:49334972-49349477;chr12:49349544-49349880 chr12:49349478-49349543 43.21 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175740515 chr2:175711686-175712446 30.00 K cassette CUFF.449 chr15 - chr15:83689515-83698887 chr15:83689515-83697367;chr15:83697481-83698887 chr15:83697368-83697480 36.36 K cassette CUFF.833 chr2 - chr2:197298183-197458231 chr2:197298183-197357967;chr2:197358100-197458231 chr2:197357968-197358099 14.85 N cassette CUFF.345 chr14 + chr14:58899176-58909423 chr14:58899176-58907938;chr14:58908062-58909423 chr14:58907939-58908061 34.52 K cassette CUFF.543 chr17 + chr17:15611562-15638243 chr17:15611562-15619372;chr17:15620628-15638243 chr17:15619373-15620627 26.23 K cassette CUFF.104 chr1 + chr1:224378022-224380033 chr1:224378022-224378793;chr1:224378859-224380033 chr1:224378794-224378858 62.50 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 31.25 N cassette CUFF.1219 chr7 + chr7:65592728-65599266 chr7:65592728-65595730;chr7:65595830-65599266 chr7:65595731-65595829 20.83 N alternative_first_exon CUFF.1219 chr7 + chr7:65579958-65610429 chr7:65599362-65610429 chr7:65579591-65579957 chr7:65599267-65599361 78.57 N intron_retention chr17 - chr17:1616350-1617149 chr17:1616349-1616350;chr17:1617149-1617150 80.79 N jcn_only_AD CUFF.1316 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 54.55 N intron_retention CUFF.728 chr19 + chr19:52917622-52918191 chr19:52917621-52917622;chr19:52918191-52918192 25.00 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44486189;chr18:44486279-44500021 chr18:44473394-44473494;chr18:44483490-44483596;chr18:44486190-44486278 74.29 N intron_retention chr17 + chr17:66509120-66511534 chr17:66509119-66509120;chr17:66511534-66511535 chr17:66511535-66511717 8.12 K intron_retention CUFF.1154 chr6 - chr6:39851801-39853526 chr6:39851800-39851801;chr6:39853526-39853527 20.00 N cassette CUFF.357 chr14 + chr14:76368568-76420766 chr14:76368568-76407766;chr14:76407838-76420766 chr14:76407767-76407837 73.53 K intron_retention CUFF.1273 chr8 - chr8:23177566-23179642 chr8:23177565-23177566;chr8:23179642-23179643 7.93 N alternative_donor CUFF.1022,CUFF.1037 chr4 - chr4:69057035-69071752 chr4:69057035-69057124 chr4:69057125-69071752 chr4:69071752-69071753 0.52 K intron_retention CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188715-2188716;chr11:2189095-2189096 4.19 N mutually_exclusive CUFF.923 chr22 + chr22:47189739-47274548,chr22:47274620-47287161 chr22:47189739-47193340,chr22:47193518-47287161 chr22:47274549-47274619 chr22:47193341-47193517 25.00 K alternative_first_exon CUFF.33 chr1 - chr1:41486451-41487287 chr1:41486451-41486535 chr1:41487288-41487387 chr1:41486536-41486605 83.33 N jcn_only_AD CUFF.71 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 45.00 K jcn_only_AD CUFF.794 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 21.23 N jcn_only_AD chr19 - chr19:6176455-6199490 chr19:6176455-6199486 29.31 N cassette CUFF.1190 chr6 - chr6:170112636-170115803 chr6:170112636-170114828;chr6:170114939-170115803 chr6:170114829-170114938 88.00 K alternative_last_exon CUFF.440 chr15 - chr15:78471174-78471891 chr15:78471323-78471891 chr15:78470956-78471173 chr15:78471296-78471322 21.82 N cassette CUFF.780 chr2 - chr2:73268061-73297588 chr2:73268061-73285656;chr2:73285726-73297588 chr2:73285657-73285725 94.30 N alternative_donor CUFF.1237 chr7 - chr7:102251590-102256969;chr7:102251590-102257071 chr7:102251590-102252518 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 0.00 K jcn_only_AA CUFF.349 chr14 - chr14:60018141-60027836 chr14:60018155-60027836 chr14:60018141-60018154 chr14:60018140-60018141 25.00 N jcn_only_AA CUFF.1285 chr8 + chr8:71564988-71572379 chr8:71564988-71565929 chr8:71565930-71572379 chr8:71572379-71572380 81.58 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23392287 chr14:23390330-23393509 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 6.12 K cassette CUFF.138 chr10 - chr10:69571422-69583071 chr10:69571422-69575797;chr10:69575892-69583071 chr10:69575798-69575891 91.38 K intron_retention CUFF.431 chr15 - chr15:77470366-77471131 chr15:77470365-77470366;chr15:77471131-77471132 57.89 N cassette CUFF.541 chr17 - chr17:15546131-15584178;chr17:15555261-15580489;chr17:15546131-15580489 chr17:15546131-15562115,chr17:15555261-15562115;chr17:15562191-15580489,chr17:15562191-15584178 chr17:15562116-15562190 37.13 N alternative_acceptor CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 0.00 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 17.81 N jcn_only_AA CUFF.352 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 83.21 N jcn_only_AA chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 93.41 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927863 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 35.75 N coord_cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76993922-76994045;chr17:76994230-76994368;chr17:76996182-76996352 56.25 N alternative_donor CUFF.1378 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 25.81 N alternative_acceptor chr11 + chr11:119056662-119057324 chr11:119056662-119056800 chr11:119056801-119057324 chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 94.87 N intron_retention chr7 - chr7:73118587-73118679 chr7:73118586-73118587;chr7:73118679-73118680 96.92 N jcn_only_AA CUFF.4 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 43.55 N jcn_only_AD CUFF.354 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 90.38 K intron_retention CUFF.925 chr22 - chr22:51007511-51007764 chr22:51007510-51007511;chr22:51007764-51007765 11.96 K alternative_last_exon CUFF.1083 chr5 + chr5:52161652-52177704 chr5:52161652-52162871 chr5:52177705-52177853 chr5:52162872-52163049 45.71 N jcn_only_AA CUFF.1408 chrX - chrX:106059017-106236459;chrX:106229431-106236459 chrX:106235661-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 14.29 K mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042550-177042730 chr2:177041421-177042059,chr2:177042223-177042730 chr2:177042439-177042549 chr2:177042060-177042222 78.67 N jcn_only_AD CUFF.299 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 73.38 N intron_retention chr17 + chr17:61905570-61907211 chr17:61905569-61905570;chr17:61907211-61907212 chr17:61905498-61905569;chr17:61907212-61907309 67.44 N jcn_only_AD CUFF.960 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 82.14 N intron_retention chr16 - chr16:23504843-23505623 chr16:23504842-23504843;chr16:23505623-23505624 43.12 N cassette CUFF.315 chr13 + chr13:21157159-21165105 chr13:21157159-21163949;chr13:21164007-21165105 chr13:21163950-21164006 76.19 K alternative_first_exon CUFF.165 chr10 + chr10:124134323-124152696 chr10:124151889-124152696 chr10:124134142-124134322 chr10:124151819-124151888 31.25 K intron_retention CUFF.1399 chrX - chrX:53658435-53658518 chrX:53658434-53658435;chrX:53658518-53658519 86.67 N jcn_only_AD ENSG00000163961.4 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 34.38 N coord_cassette CUFF.29 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791013;chr1:31791084-31791955 chr1:31782891-31783011;chr1:31791014-31791083 79.25 N alternative_acceptor CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 48.21 K coord_cassette CUFF.37 chr1 + chr1:54360221-54371767 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54371767 chr1:54368730-54368939;chr1:54370339-54370482 19.68 N alternative_donor CUFF.758 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 1.83 K intron_retention CUFF.1243 chr7 - chr7:107569651-107569856 chr7:107569650-107569651;chr7:107569856-107569857 60.55 N alternative_acceptor CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 40.52 N intron_retention chr14 - chr14:24684869-24684942 chr14:24684868-24684869;chr14:24684942-24684943 70.00 N intron_retention chr6 - chr6:133055526-133055618 chr6:133055525-133055526;chr6:133055618-133055619 26.67 N alternative_acceptor CUFF.933 chr3 - chr3:27329235-27332752 chr3:27332246-27332752 chr3:27329235-27332245 chr3:27329234-27329235 20.45 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45479651 chr15:45470505-45492924 chr15:45473305-45473384;chr15:45479652-45480154 chr15:45492925-45493460 53.32 K alternative_acceptor CUFF.1232 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 60.67 N jcn_only_AA CUFF.684 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 76.00 K alternative_acceptor CUFF.642 chr18 - chr18:67614007-67614596 chr18:67614306-67614596 chr18:67614007-67614305 chr18:67614006-67614007 73.63 K cassette CUFF.183 chr11 - chr11:5687312-5699433 chr11:5687312-5688918;chr11:5688942-5699433 chr11:5688919-5688941 30.95 K mutually_exclusive CUFF.1330 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990495,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990496-34990608 27.32 N jcn_only_AA CUFF.1273 chr8 - chr8:23225948-23282563 chr8:23261587-23282563 83.56 N alternative_first_exon CUFF.680 chr19 + chr19:17445932-17447628 chr19:17447537-17447628 chr19:17445729-17445931 chr19:17447460-17447536 10.08 N alternative_donor CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 0.00 N alternative_donor CUFF.1421 chrX + chrX:148867506-148867663;chrX:148863691-148867663 chrX:148863659-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 93.48 N alternative_acceptor CUFF.1360 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 4.37 K jcn_only_AD CUFF.1341 chr9 - chr9:86485548-86498727 chr9:86485548-86495211 20.93 N alternative_donor CUFF.742 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 0.00 N alternative_donor CUFF.1219 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 0.75 N jcn_only_AD CUFF.1175 chr6 - chr6:128540242-128561179;chr6:128540242-128643183 chr6:128540242-128551876 14.61 K alternative_donor CUFF.1104 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 89.09 K alternative_first_exon CUFF.907 chr22 - chr22:25158489-25170288 chr22:25158489-25165637 chr22:25170289-25170683 chr22:25165638-25165726 6.38 N jcn_only_AD CUFF.355,CUFF.367 chr14 - chr14:92105595-92126180;chr14:92105595-92136157 chr14:92105595-92112480 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 37.84 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77276431 chr14:77275987-77278647 chr14:77280650-77280764;chr14:77276432-77276494 chr14:77278648-77278992 70.37 K alternative_last_exon CUFF.361 chr14 + chr14:77929103-77935419 chr14:77929103-77930940 chr14:77935420-77935817 chr14:77930941-77931029 98.02 N alternative_acceptor CUFF.247 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 43.40 K intron_retention CUFF.399 chr15 - chr15:44912602-44913956 chr15:44912601-44912602;chr15:44913956-44913957 60.00 K cassette CUFF.1385 chrX - chrX:19935453-19947902 chrX:19935453-19936189;chrX:19936218-19947902 chrX:19936190-19936217 29.63 N cassette CUFF.543 chr17 + chr17:15638385-15638910 chr17:15638385-15638661;chr17:15638738-15638910 chr17:15638662-15638737 41.94 K jcn_only_AA CUFF.584 chr17 - chr17:57777238-57784731;chr17:57777551-57784731 chr17:57756906-57784731 13.54 K cassette CUFF.140 chr10 + chr10:70679738-70694554 chr10:70679738-70693954;chr10:70694117-70694554 chr10:70693955-70694116 76.92 N mutually_exclusive CUFF.164 chr10 - chr10:123670667-123681863,chr10:123681927-123683780 chr10:123670667-123673304,chr10:123673409-123683780 chr10:123681864-123681926 chr10:123673305-123673408 7.29 N cassette CUFF.1160 chr6 - chr6:75975055-75994117 chr6:75975055-75977356;chr6:75977465-75994117 chr6:75977357-75977464 81.48 N jcn_only_AD CUFF.528 chr17 - chr17:79355741-79358928 chr17:79355741-79358745 chr17:79358746-79358928 chr17:79358928-79358929 66.67 N cassette CUFF.449 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83698887 chr15:83689427-83689514 74.42 K jcn_only_AA CUFF.650 chr19 + chr19:4317278-4318380 chr19:4317278-4318342 chr19:4318343-4318380 chr19:4318380-4318381 57.92 K intron_retention CUFF.1373 chr9 + chr9:139743233-139743562 chr9:139743232-139743233;chr9:139743562-139743563 68.33 K cassette CUFF.994 chr3 - chr3:155520381-155523385 chr3:155520381-155521839;chr3:155521963-155523385 chr3:155521840-155521962 59.81 K intron_retention chr17 + chr17:1945170-1945898 chr17:1945169-1945170;chr17:1945898-1945899 20.38 N alternative_acceptor chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 8.82 K jcn_only_AA CUFF.821 chr2 - chr2:174072387-174136238 chr2:174080565-174136238 16.95 K cassette CUFF.165 chr10 + chr10:124186548-124189139 chr10:124186548-124187791;chr10:124187937-124189139 chr10:124187792-124187936 64.95 K intron_retention CUFF.373 chr14 - chr14:104206401-104313878 chr14:104206400-104206401;chr14:104313878-104313879 81.16 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46687880;chr17:46685458-46710875 chr17:46685458-46685590 chr17:46687881-46688379;chr17:46710876-46710960 chr17:46685591-46685695 23.55 N cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11076900;chr1:11077065-11078789 chr1:11076901-11077064 86.36 N cassette CUFF.530 chr17 + chr17:1937137-1939822 chr17:1937137-1939263;chr17:1939386-1939822 chr17:1939264-1939385 88.61 N jcn_only_AA chr12 - chr12:22610096-22612425;chr12:22611520-22612425 chr12:22611490-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 55.10 N alternative_acceptor chr16 + chr16:586143-596816 chr16:586143-587133 chr16:587134-596816 chr16:596816-596817 63.64 N jcn_only_AD chr19 + chr19:17447967-17448682 chr19:17448474-17448682 19.44 N jcn_only_AD CUFF.995 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 4.10 N jcn_only_AD CUFF.1385,CUFF.1387 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 40.91 K intron_retention chr17 - chr17:57775340-57776231 chr17:57775339-57775340;chr17:57776231-57776232 23.88 N alternative_acceptor CUFF.587 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 1.67 K cassette CUFF.1349 chr9 + chr9:105774380-105780606 chr9:105774380-105779169;chr9:105779244-105780606 chr9:105779170-105779243 45.00 N alternative_first_exon chr18 - chr18:67563282-67611719;chr18:67563282-67623990 chr18:67563282-67613969 chr18:67623991-67624434 chr18:67613970-67614305 62.38 K coord_cassette CUFF.835 chr2 - chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204341798;chr2:204341880-204354306 chr2:204334962-204335036;chr2:204341799-204341879 28.00 N jcn_only_AD CUFF.1238,CUFF.1244 chr7 - chr7:110603622-111031893;chr7:110603622-111127293 chr7:110603622-111030626 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 12.82 N jcn_only_AA CUFF.1016 chr4 - chr4:3948667-3952865;chr4:3951277-3952865 chr4:3951320-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 46.39 N jcn_only_AD CUFF.721 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 23.31 K intron_retention CUFF.478 chr16 - chr16:4405165-4405286 chr16:4405164-4405165;chr16:4405286-4405287 33.33 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6473290;chr4:6382822-6383503 chr4:6382822-6525169 chr4:6473291-6473491;chr4:6383504-6383597 chr4:6525170-6525358 36.86 N jcn_only_AD CUFF.1362 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 90.75 K cassette CUFF.164 chr10 - chr10:123673409-123683780 chr10:123673409-123681863;chr10:123681927-123683780 chr10:123681864-123681926 89.12 N jcn_only_AD chr22 - chr22:21830450-21832078 chr22:21830450-21830932 chr22:21830933-21832078 chr22:21832078-21832079 60.29 N cassette CUFF.171 chr11 - chr11:408207-414822;chr11:408894-414822 chr11:408894-409867,chr11:408207-409867;chr11:410028-414822 chr11:409868-410027 59.18 N jcn_only_AA CUFF.1237 chr7 - chr7:102228218-102232731 chr7:102230744-102232731 89.47 K cassette CUFF.229 chr11 + chr11:107917097-107923386 chr11:107917097-107920616;chr11:107920794-107923386 chr11:107920617-107920793 54.17 N cassette CUFF.902 chr22 + chr22:20748953-20754921 chr22:20748953-20749622;chr22:20749709-20754921 chr22:20749623-20749708 chr22:20748405-20748952;chr22:20754922-20755048 71.05 N cassette CUFF.1350 chr9 - chr9:107651477-107690215 chr9:107651477-107665894;chr9:107666053-107690215 chr9:107665895-107666052 90.43 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 82.74 N jcn_only_AD CUFF.758 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 40.82 K jcn_only_AD CUFF.1384 chrX + chrX:15699171-15706783 chrX:15699311-15706783 chrX:15699171-15699310 chrX:15699170-15699171 73.26 N jcn_only_AD chr17 + chr17:29657517-29661855 chr17:29661749-29661855 15.94 N jcn_only_AA CUFF.1326 chr9 - chr9:15226011-15267911;chr9:15211396-15267911 chr9:15250009-15267911 58.99 K intron_retention CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915123-139915124;chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 43.86 N jcn_only_AA CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 33.33 N coord_cassette CUFF.967 chr3 - chr3:107591874-107596748 chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596748 chr3:107594306-107594421;chr3:107594977-107595033 77.36 N jcn_only_AD CUFF.1202 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 18.75 N jcn_only_AA CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 11.96 N jcn_only_AA chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 19.05 K alternative_first_exon CUFF.646 chr18 + chr18:77440262-77455224 chr18:77441518-77455224 chr18:77439801-77440261 chr18:77441436-77441517 chr18:77455225-77455308 12.35 N intron_retention CUFF.593 chr17 + chr17:61904875-61905210 chr17:61904874-61904875;chr17:61905210-61905211 chr17:61904778-61904874 47.81 N jcn_only_AA CUFF.1016 chr4 - chr4:3954901-3957050 chr4:3956761-3957050 chr4:3954901-3956760 chr4:3954900-3954901 4.98 K jcn_only_AA CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258622-232259365 chr2:232259366-232259491 chr2:232259491-232259492 27.50 N cassette CUFF.983 chr3 - chr3:125752522-125786789 chr3:125752522-125769740;chr3:125769894-125786789 chr3:125769741-125769893 57.14 N jcn_only_AD CUFF.265 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 2.18 K cassette CUFF.449 chr15 - chr15:83710678-83725140 chr15:83710678-83718824;chr15:83718931-83725140 chr15:83718825-83718930 55.32 K alternative_donor CUFF.1222 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 39.10 N coord_cassette CUFF.1219 chr7 + chr7:65592728-65599266 chr7:65592728-65595113;chr7:65595236-65595730;chr7:65595830-65599266 chr7:65595114-65595235;chr7:65595731-65595829 5.00 N jcn_only_AD chr10 - chr10:46159291-46168126;chr10:46159291-46167719 chr10:46159291-46167697 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 61.76 K intron_retention CUFF.530 chr17 + chr17:1940251-1943048 chr17:1940250-1940251;chr17:1943048-1943049 54.49 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36415562-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 14.76 K jcn_only_AA CUFF.357 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 57.55 K intron_retention CUFF.291 chr12 - chr12:56578029-56578627 chr12:56578028-56578029;chr12:56578627-56578628 chr12:56577959-56578028;chr12:56578628-56578720 4.14 N jcn_only_AD ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 40.00 K intron_retention CUFF.538 chr17 - chr17:8648039-8648146 chr17:8648038-8648039;chr17:8648146-8648147 81.93 K cassette CUFF.1163 chr6 + chr6:90326377-90331640 chr6:90326377-90327672;chr6:90327751-90331640 chr6:90327673-90327750 94.44 K cassette CUFF.662 chr19 - chr19:8161891-8165784 chr19:8161891-8162172;chr19:8162299-8165784 chr19:8162173-8162298 10.19 K alternative_donor CUFF.1074,CUFF.1086 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 83.67 N intron_retention chr15 + chr15:64446952-64447589 chr15:64446951-64446952;chr15:64447589-64447590 79.17 N jcn_only_AD CUFF.887,CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556898 chr21:47556409-47556828 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 58.24 N jcn_only_AA CUFF.1013 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 96.48 K cassette CUFF.65 chr1 - chr1:153921121-153921590 chr1:153921121-153921309;chr1:153921377-153921590 chr1:153921310-153921376 15.66 K cassette CUFF.1235 chr7 - chr7:99032892-99057708 chr7:99032892-99039012;chr7:99039111-99057708 chr7:99039013-99039110 56.93 N jcn_only_AA CUFF.624 chr18 - chr18:44268831-44272131 chr18:44268883-44272131 chr18:44268831-44268882 chr18:44268830-44268831 95.60 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 16.39 K cassette CUFF.440 chr15 - chr15:78487069-78526712 chr15:78487069-78500343;chr15:78500445-78526712 chr15:78500344-78500444 48.48 N cassette CUFF.1100 chr5 - chr5:127412786-127418426;chr5:127396937-127418426 chr5:127412786-127417664,chr5:127396937-127417664;chr5:127417884-127418426 chr5:127417665-127417883 61.31 K alternative_first_exon CUFF.1339 chr9 - chr9:71160753-71161474 chr9:71160753-71160844 chr9:71161475-71161563 chr9:71160845-71161032 12.77 K intron_retention CUFF.908 chr22 + chr22:25855483-25856833 chr22:25855482-25855483;chr22:25856833-25856834 chr22:25855383-25855482;chr22:25856834-25857645 79.03 N alternative_donor CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754369-74758376 chr15:74754373-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 12.40 K cassette CUFF.1356 chr9 - chr9:123538505-123550046 chr9:123538505-123540628;chr9:123540824-123550046 chr9:123540629-123540823 chr9:123538371-123538504 75.22 K coord_cassette CUFF.494 chr16 + chr16:21969921-21973780 chr16:21969921-21970659;chr16:21970877-21972648;chr16:21972787-21973780 chr16:21970660-21970876;chr16:21972649-21972786 26.76 N alternative_donor CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 5.99 K alternative_acceptor CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 22.62 N jcn_only_AA CUFF.294 chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 4.49 N alternative_donor CUFF.1090,CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 0.69 N alternative_donor CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 0.47 K intron_retention CUFF.1125 chr5 - chr5:178046898-178050256 chr5:178046897-178046898;chr5:178050256-178050257 50.00 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36420378-36422546 chr11:36398255-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 8.33 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144356873;chr8:144351691-144354565 chr8:144351691-144356889 14.75 K alternative_first_exon CUFF.903 chr22 + chr22:21056595-21056873 chr22:21056749-21056873 chr22:21055184-21056594 chr22:21056610-21056748 18.52 K intron_retention CUFF.291 chr12 - chr12:56578721-56578813 chr12:56578720-56578721;chr12:56578813-56578814 chr12:56578628-56578720;chr12:56578814-56578876 4.11 N cassette CUFF.982 chr3 + chr3:125639749-125647337 chr3:125639749-125643808;chr3:125643959-125647337 chr3:125643809-125643958 98.62 K intron_retention CUFF.1310 chr8 + chr8:103572801-103572988 chr8:103572800-103572801;chr8:103572988-103572989 82.61 K intron_retention CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575353-75575354;chr16:75576499-75576500 3.34 N alternative_donor chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 14.29 N alternative_last_exon CUFF.891 chr21 - chr21:40978275-40981509;chr21:40969917-40981509 chr21:40977930-40981509 chr21:40969074-40969916 chr21:40977520-40977929 chr21:40981510-40981592 85.60 N alternative_donor CUFF.756 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 21.95 N jcn_only_AA CUFF.91 chr1 + chr1:196913069-196918746;chr1:196913069-196918565 chr1:196913069-196918584 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 10.87 N alternative_last_exon CUFF.142 chr10 - chr10:73857209-73862607 chr10:73862171-73862607 chr10:73856278-73857208 chr10:73862099-73862170 20.59 K alternative_last_exon CUFF.102 chr1 + chr1:222837491-222838650 chr1:222837491-222838224 chr1:222838651-222841354 chr1:222838225-222838566 88.33 K jcn_only_AA CUFF.917 chr22 + chr22:37697061-37697975 chr22:37697061-37697921 chr22:37697922-37697975 chr22:37697975-37697976 71.11 K jcn_only_AA CUFF.786 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 56.67 K alternative_donor CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 38.36 K alternative_last_exon CUFF.1363 chr9 + chr9:131015417-131016932 chr9:131015417-131016287 chr9:131016933-131017526 chr9:131016288-131016445 48.12 K cassette CUFF.1125 chr5 - chr5:178032384-178035376 chr5:178032384-178032825;chr5:178032867-178035376 chr5:178032826-178032866 19.44 K alternative_acceptor CUFF.140 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 16.33 N coord_cassette CUFF.127 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 67.36 N cassette CUFF.611 chr18 + chr18:163454-180235 chr18:163454-178900;chr18:179038-180235 chr18:178901-179037 63.16 N cassette CUFF.674 chr19 - chr19:14876383-14883153 chr19:14876383-14876469;chr19:14876617-14883153 chr19:14876470-14876616 75.00 K alternative_last_exon CUFF.754 chr2 + chr2:27731119-27741654 chr2:27731119-27732393 chr2:27741655-27741804 chr2:27732394-27732659 72.73 N alternative_last_exon CUFF.1326 chr9 - chr9:15214248-15249915 chr9:15249686-15249915 chr9:15214137-15214247 chr9:15249040-15249685 97.46 K mutually_exclusive CUFF.731 chr19 + chr19:55084903-55085542,chr19:55085579-55085767 chr19:55084903-55085297,chr19:55085380-55085767 chr19:55085543-55085578 chr19:55085298-55085379 11.11 K coord_cassette CUFF.579 chr17 + chr17:46986183-46993437 chr17:46986183-46988169;chr17:46988243-46990195;chr17:46990328-46993437 chr17:46988170-46988242;chr17:46990196-46990327 43.07 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 35.14 N alternative_donor CUFF.681 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 25.84 N intron_retention chr16 + chr16:14020614-14021978 chr16:14020613-14020614;chr16:14021978-14021979 63.04 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 10.34 K cassette CUFF.1238 chr7 - chr7:102473422-102517913 chr7:102473422-102495223;chr7:102495308-102517913 chr7:102495224-102495307 82.07 N alternative_donor CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515 chr11:118926880-118927711 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 2.26 N intron_retention chr19 - chr19:6191606-6191875 chr19:6191605-6191606;chr19:6191875-6191876 56.52 K intron_retention CUFF.908 chr22 + chr22:25916130-25916648 chr22:25916129-25916130;chr22:25916648-25916649 chr22:25915890-25916129;chr22:25916649-25916821 87.37 N jcn_only_AD chr8 - chr8:120807872-120809901 chr8:120807872-120809229 33.33 K intron_retention CUFF.841 chr2 + chr2:219222458-219222708 chr2:219222457-219222458;chr2:219222708-219222709 11.64 N intron_retention chr19 + chr19:1438892-1439966 chr19:1438891-1438892;chr19:1439966-1439967 64.00 K intron_retention CUFF.705 chr19 + chr19:44764156-44768466 chr19:44764155-44764156;chr19:44768466-44768467 29.69 N alternative_donor CUFF.409 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 0.00 K alternative_acceptor CUFF.1387 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 23.81 N alternative_donor CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 50.00 N coord_cassette CUFF.967 chr3 - chr3:107586273-107596159 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976;chr3:107595034-107596159 chr3:107591815-107591873;chr3:107594306-107594421;chr3:107594977-107595033 28.38 K alternative_first_exon CUFF.1241 chr7 + chr7:107221023-107221203,chr7:107221091-107221203;chr7:107220747-107221203 chr7:107220812-107221203 chr7:107220422-107220746 chr7:107220772-107220811 8.29 N alternative_acceptor chr19 + chr19:58963072-58964553;chr19:58963072-58963494 chr19:58963072-58965062 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 77.03 N jcn_only_AA CUFF.925 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 84.17 K alternative_first_exon CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924613-77925958 chr14:77924209-77924325 chr14:77924334-77924612 87.43 N coord_cassette CUFF.653 chr19 - chr19:6016283-6110403 chr19:6016283-6039990;chr19:6040253-6042054;chr19:6042135-6047417;chr19:6047516-6110403 chr19:6039991-6040252;chr19:6042055-6042134;chr19:6047418-6047515 38.03 N alternative_acceptor chr15 + chr15:25207357-25222924 chr15:25207357-25213078 chr15:25213079-25222924 chr15:25222924-25222925 0.00 K jcn_only_AD CUFF.774 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 10.07 N cassette CUFF.297 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018648 chr12:58018283-58018389 74.74 N jcn_only_AA CUFF.294 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 60.11 N intron_retention chr17 - chr17:79894738-79895137 chr17:79894737-79894738;chr17:79895137-79895138 48.31 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104245159-104263707 chr14:104251252-104263707 70.41 K intron_retention CUFF.853 chr2 + chr2:232258622-232259491 chr2:232258621-232258622;chr2:232259491-232259492 46.79 N alternative_acceptor CUFF.872 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 95.35 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 66.67 K cassette CUFF.1239 chr7 + chr7:107211712-107215632 chr7:107211712-107214148;chr7:107214267-107215632 chr7:107214149-107214266 12.09 K alternative_first_exon CUFF.1021 chr4 + chr4:6969152-6995910 chr4:6989077-6995910 chr4:6969031-6969151 chr4:6988863-6989076 55.56 K coord_cassette CUFF.1254 chr7 + chr7:136554166-136699566 chr7:136554166-136635749;chr7:136635828-136676933;chr7:136677012-136699566 chr7:136635750-136635827;chr7:136676934-136677011 14.96 N cassette CUFF.956 chr3 - chr3:57569735-57582800;chr3:57563115-57582800 chr3:57569735-57570110,chr3:57563115-57570110;chr3:57570192-57582800 chr3:57570111-57570191 30.32 K alternative_donor CUFF.1336,CUFF.1341 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 26.32 K jcn_only_AA CUFF.1363 chr9 + chr9:131008783-131009653 chr9:131008783-131009215 7.78 K intron_retention CUFF.390 chr15 + chr15:33023006-33023128 chr15:33023005-33023006;chr15:33023128-33023129 chr15:33022891-33023005;chr15:33023129-33026870 36.84 N cassette CUFF.690 chr19 - chr19:33984244-34003498 chr19:33984244-34001933;chr19:34002062-34003498 chr19:34001934-34002061 69.88 N alternative_acceptor CUFF.517 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 2.22 K jcn_only_AD CUFF.512,CUFF.517 chr16 - chr16:67221741-67222806 chr16:67221741-67222623 chr16:67222624-67222806 chr16:67222806-67222807 34.11 K alternative_last_exon CUFF.1359 chr9 - chr9:124895254-124910390 chr9:124906658-124910390 chr9:124894745-124895253 chr9:124906338-124906657 51.85 N alternative_donor CUFF.1217,CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 2.33 N jcn_only_AA CUFF.430 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 83.33 K alternative_first_exon CUFF.989 chr3 + chr3:133407209-133419725 chr3:133418468-133419725 chr3:133407027-133407208 chr3:133418289-133418467 80.18 K alternative_first_exon CUFF.984 chr3 - chr3:126071791-126076079 chr3:126071791-126072854 chr3:126076080-126076285 chr3:126072855-126073143 67.50 N jcn_only_AD CUFF.385 chr15 + chr15:29131425-29213842;chr15:29140756-29213842 chr15:29211691-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 84.46 N coord_cassette CUFF.299 chr12 + chr12:69207409-69222550 chr12:69207409-69214104;chr12:69214155-69218142;chr12:69218211-69222550 chr12:69214105-69214154;chr12:69218143-69218210 30.77 K alternative_last_exon CUFF.1356 chr9 - chr9:123515590-123533625 chr9:123527126-123533625 chr9:123514256-123515589 chr9:123526456-123527125 chr9:123533626-123533795 83.33 N alternative_donor CUFF.452 chr15 - chr15:90380955-90395592;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90391824 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 0.90 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104230199 chr14:104224089-104225527 30.77 K alternative_first_exon CUFF.1278 chr8 - chr8:29583940-29605530 chr8:29583940-29592686 chr8:29605531-29605717 chr8:29592687-29592739 13.00 K alternative_acceptor CUFF.976,CUFF.985 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 91.46 K intron_retention CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927389-231927390;chr2:231931619-231931620 42.86 K alternative_acceptor CUFF.736 chr2 - chr2:262751-263210 chr2:262787-263210 chr2:262751-262786 chr2:262750-262751 82.19 N jcn_only_AD chr10 - chr10:78734332-78771724 chr10:78734332-78737300 chr10:78737301-78771724 chr10:78771724-78771725 44.93 K intron_retention CUFF.1208 chr7 - chr7:36901342-36934613 chr7:36901341-36901342;chr7:36934613-36934614 0.99 N mutually_exclusive CUFF.518 chr16 + chr16:70389439-70395320,chr16:70395414-70398445 chr16:70389439-70390014,chr16:70390151-70398445 chr16:70395321-70395413 chr16:70390015-70390150 53.33 K alternative_first_exon CUFF.154 chr10 + chr10:94833592-94834064 chr10:94833881-94834064 chr10:94833232-94833591 chr10:94833628-94833880 59.09 N alternative_acceptor CUFF.967 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 87.80 K mutually_exclusive CUFF.611 chr18 + chr18:163454-178932,chr18:179038-180235 chr18:163454-166786,chr18:166820-180235 chr18:178933-179037 chr18:166787-166819 89.33 K alternative_donor CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 22.44 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63672516-63675731 chr11:63672516-63673559;chr11:63673587-63676348,chr11:63673587-63675731 chr11:63673560-63673586 chr11:63672258-63672515;chr11:63676349-63678492 14.03 K coord_cassette CUFF.977 chr3 - chr3:120360541-120365819 chr3:120360541-120363444;chr3:120363467-120365113;chr3:120365214-120365819 chr3:120363445-120363466;chr3:120365114-120365213 40.00 K alternative_donor CUFF.1393 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 55.21 K cassette CUFF.79 chr1 - chr1:161042676-161043509 chr1:161042676-161043014;chr1:161043090-161043509 chr1:161043015-161043089 23.38 N alternative_donor CUFF.933,CUFF.983 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 66.02 K jcn_only_AA CUFF.851 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 34.15 N intron_retention chr2 - chr2:260898-262630 chr2:260897-260898;chr2:262630-262631 5.38 N coord_cassette CUFF.1100 chr5 - chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127417664;chr5:127417884-127418426 chr5:127412639-127412785;chr5:127417665-127417883 52.38 N cassette CUFF.674 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14867049 chr19:14863141-14863338 96.96 N intron_retention chr19 + chr19:17448474-17448707 chr19:17448473-17448474;chr19:17448707-17448708 6.67 K cassette CUFF.158 chr10 + chr10:101507148-101514285 chr10:101507148-101510125;chr10:101510154-101514285 chr10:101510126-101510153 10.20 N coord_cassette CUFF.164 chr10 - chr10:123673409-123687358 chr10:123673409-123681863;chr10:123681927-123683780;chr10:123683845-123687358 chr10:123681864-123681926;chr10:123683781-123683844 94.95 K alternative_donor CUFF.500,CUFF.509 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 39.68 K intron_retention CUFF.572 chr17 - chr17:40738910-40739851 chr17:40738909-40738910;chr17:40739851-40739852 13.73 K intron_retention CUFF.232 chr11 + chr11:117073910-117074022 chr11:117073909-117073910;chr11:117074022-117074023 34.77 N jcn_only_AA chr19 - chr19:6192041-6199490;chr19:6176455-6199490 chr19:6192065-6199490 12.00 K alternative_last_exon CUFF.1292 chr8 + chr8:74888197-74890990 chr8:74888197-74888539 chr8:74890991-74891207 chr8:74888540-74888726 52.80 N intron_retention chr8 - chr8:80976829-81083659 chr8:80976828-80976829;chr8:81083659-81083660 51.85 K jcn_only_AD CUFF.424,CUFF.460 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 65.02 N jcn_only_AD CUFF.402 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742489-45752767 chr15:45742488-45742489 33.33 N mutually_exclusive CUFF.1163 chr6 + chr6:90143095-90305634,chr6:90305734-90312747 chr6:90143095-90276552,chr6:90276816-90312747 chr6:90305635-90305733 chr6:90276553-90276815 3.57 N alternative_acceptor CUFF.1013 chr4 - chr4:2934137-2934326 chr4:2934240-2934326 chr4:2934137-2934239 chr4:2934136-2934137 94.63 K alternative_first_exon CUFF.673 chr19 - chr19:14436244-14474683 chr19:14436244-14458126 chr19:14474684-14474802 chr19:14458127-14458221 65.00 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93692517 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 4.00 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73302708;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73298732 chr2:73298169-73298261;chr2:73302709-73302841;chr2:73286223-73286301 chr2:73298733-73298955 42.18 N alternative_last_exon chr12 + chr12:21242864-21279041 chr12:21242864-21245446 chr12:21279042-21279191 chr12:21245447-21245682 59.78 K intron_retention chr7 + chr7:75042211-75043917 chr7:75042210-75042211;chr7:75043917-75043918 27.08 K intron_retention CUFF.1197 chr7 + chr7:6639524-6639757 chr7:6639523-6639524;chr7:6639757-6639758 85.44 N jcn_only_AD CUFF.587 chr17 + chr17:61554705-61555291 chr17:61555152-61555291 chr17:61554705-61555151 chr17:61554704-61554705 chr17:61555292-61555459;chr17:61554422-61554704 32.41 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115642 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 14.82 N alternative_donor CUFF.1071,CUFF.1093 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 0.41 N jcn_only_AD chrX - chrX:106224708-106235517 chrX:106224708-106228325 chrX:106228326-106235517 chrX:106235517-106235518 72.22 N intron_retention CUFF.991 chr3 - chr3:141697525-141713861 chr3:141697524-141697525;chr3:141713861-141713862 79.17 N jcn_only_AA CUFF.967 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 13.64 K alternative_first_exon CUFF.1254 chr7 + chr7:136553921-136554007;chr7:136553740-136554007 chr7:136553865-136554007 chr7:136553416-136553739 chr7:136553759-136553864 61.19 K intron_retention CUFF.1331 chr9 - chr9:35079533-35079727 chr9:35079532-35079533;chr9:35079727-35079728 44.83 N jcn_only_AA CUFF.587 chr17 + chr17:61564435-61566008;chr17:61564435-61565721 chr17:61564435-61565930 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 12.92 N coord_cassette CUFF.1003 chr3 + chr3:186648624-186769036 chr3:186648624-186660135;chr3:186660216-186681572;chr3:186681715-186756529;chr3:186756662-186769036 chr3:186660136-186660215;chr3:186681573-186681714;chr3:186756530-186756661 92.86 K cassette CUFF.137 chr10 + chr10:60037083-60047320 chr10:60037083-60042658;chr10:60042843-60047320 chr10:60042659-60042842 7.78 N cassette CUFF.350 chr14 + chr14:61497242-61504342 chr14:61497242-61503776;chr14:61503860-61504342 chr14:61503777-61503859 93.22 N jcn_only_AA CUFF.269 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 8.85 N alternative_acceptor chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 0.00 N alternative_acceptor CUFF.587,CUFF.607 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 0.88 N jcn_only_AD CUFF.382 chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 25.71 N jcn_only_AA CUFF.1146,CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 22.42 N alternative_acceptor chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 21.05 K intron_retention chr2 - chr2:110920713-110922096 chr2:110920712-110920713;chr2:110922096-110922097 70.59 N alternative_acceptor CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 50.74 K intron_retention CUFF.870 chr20 + chr20:30126065-30132749 chr20:30126064-30126065;chr20:30132749-30132750 15.62 K intron_retention CUFF.587 chr17 + chr17:61574347-61574497 chr17:61574346-61574347;chr17:61574497-61574498 10.08 N intron_retention chr21 + chr21:15660868-15663890 chr21:15660867-15660868;chr21:15663890-15663891 55.56 N intron_retention chr1 - chr1:106148712-106161480 chr1:106148711-106148712;chr1:106161480-106161481 31.11 K jcn_only_AD CUFF.827 chr2 + chr2:186662254-186678271 chr2:186673861-186678271 76.19 N alternative_acceptor CUFF.462 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 89.58 K alternative_first_exon CUFF.1281 chr8 - chr8:38006273-38008272 chr8:38006273-38006593 chr8:38008273-38008783 chr8:38006594-38006663 42.86 N alternative_donor CUFF.941 chr3 - chr3:33626413-33633886 chr3:33626413-33630196 chr3:33630197-33633886 chr3:33633886-33633887 0.00 N alternative_donor CUFF.29 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 7.69 K alternative_acceptor CUFF.327 chr13 - chr13:78470694-78473993 chr13:78472470-78473993 chr13:78470694-78472469 chr13:78470693-78470694 72.09 N intron_retention chr17 - chr17:1946265-1946368 chr17:1946264-1946265;chr17:1946368-1946369 97.50 K intron_retention CUFF.315 chr13 + chr13:21237526-21237636 chr13:21237525-21237526;chr13:21237636-21237637 13.82 N jcn_only_AA chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 94.88 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546 chr11:36420378-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 10.49 N intron_retention chr14 - chr14:106208297-106208401 chr14:106208296-106208297;chr14:106208401-106208402 2.26 K cassette CUFF.1360 chr9 + chr9:125047567-125048317 chr9:125047567-125048058;chr9:125048226-125048317 chr9:125048059-125048225 50.72 N coord_cassette CUFF.541 chr17 - chr17:15546131-15584178 chr17:15546131-15562115;chr17:15562191-15580489;chr17:15580595-15584178 chr17:15562116-15562190;chr17:15580490-15580594 58.18 N jcn_only_AA CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 1.66 K alternative_first_exon CUFF.1380 chrX - chrX:10535644-10645504 chrX:10535644-10588329 chrX:10645505-10645779 chrX:10588330-10588646 52.38 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75262814-75272371;chr8:75263702-75272371 chr8:75233481-75272371 chr8:75262628-75262813;chr8:75263549-75263701 chr8:75233365-75233480 3.40 K intron_retention CUFF.846 chr2 + chr2:220094623-220094949 chr2:220094622-220094623;chr2:220094949-220094950 9.33 N jcn_only_AA CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 26.79 N intron_retention chr6 - chr6:43480837-43481096 chr6:43480836-43480837;chr6:43481096-43481097 84.87 K jcn_only_AD CUFF.1232 chr7 + chr7:91732141-91739435 chr7:91737948-91739435 92.96 N alternative_acceptor CUFF.580 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 1.47 K alternative_last_exon CUFF.1225 chr7 - chr7:74953399-74982536 chr7:74981241-74982536 chr7:74953338-74953398 chr7:74981057-74981240 16.67 N alternative_acceptor CUFF.602 chr17 - chr17:79479142-79479257 chr17:79479169-79479257 chr17:79479142-79479168 chr17:79479141-79479142 95.49 N intron_retention chr12 - chr12:7086688-7087582 chr12:7086687-7086688;chr12:7087582-7087583 84.72 K alternative_acceptor CUFF.1190 chr6 - chr6:170117997-170118883 chr6:170118003-170118883 chr6:170117997-170118002 chr6:170117996-170117997 54.84 N jcn_only_AD CUFF.399,CUFF.422 chr15 - chr15:44878049-44881449 chr15:44878049-44880764 chr15:44880765-44881449 chr15:44881449-44881450 23.60 N jcn_only_AD CUFF.736 chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 5.19 K cassette CUFF.1033 chr4 - chr4:56471517-56473603;chr4:56466743-56473603 chr4:56466743-56473464,chr4:56471517-56473464;chr4:56473516-56473603 chr4:56473465-56473515 61.61 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298732;chr2:73285726-73302708;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73298168 chr2:73298733-73298955;chr2:73302709-73302841;chr2:73286223-73286301 chr2:73298169-73298261 17.28 N jcn_only_AD CUFF.753 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 71.62 N alternative_acceptor CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 5.84 K alternative_last_exon CUFF.1060 chr4 - chr4:142241055-142244575 chr4:142242536-142244575 chr4:142240599-142241054 chr4:142242290-142242535 18.26 K intron_retention CUFF.518 chr16 + chr16:70400166-70400526 chr16:70400165-70400166;chr16:70400526-70400527 9.78 N alternative_donor CUFF.1421 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 5.43 N jcn_only_AD CUFF.243 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 9.52 K cassette CUFF.164 chr10 - chr10:123629554-123661905 chr10:123629554-123659380;chr10:123659510-123661905 chr10:123659381-123659509 76.82 N intron_retention chr10 - chr10:73973090-73975964 chr10:73973089-73973090;chr10:73975964-73975965 37.68 K alternative_first_exon CUFF.18 chr1 + chr1:22963196-22964102 chr1:22963354-22964102 chr1:22962999-22963195 chr1:22963331-22963353 39.29 N intron_retention chr3 - chr3:107560867-107560951 chr3:107560866-107560867;chr3:107560951-107560952 61.90 N intron_retention chr11 - chr11:2190926-2192926 chr11:2190925-2190926;chr11:2192926-2192927 81.58 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373029-144375141;chr8:144374455-144375141 chr8:144373938-144375141 chr8:144372915-144373028;chr8:144374374-144374454 chr8:144373214-144373937 48.75 N jcn_only_AA CUFF.796,CUFF.834 chr2 + chr2:200496619-200512396 chr2:200496619-200511776 chr2:200511777-200512396 chr2:200512396-200512397 4.35 N alternative_donor chr4 - chr4:11401738-11431048 chr4:11401738-11430086 chr4:11430087-11431048 chr4:11431048-11431049 30.77 N jcn_only_AA CUFF.279 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 2.67 N alternative_donor CUFF.198 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 0.62 N alternative_donor chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 100.00 K intron_retention CUFF.748 chr2 - chr2:11593849-11597304 chr2:11593848-11593849;chr2:11597304-11597305 95.61 N alternative_acceptor CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 60.00 K intron_retention CUFF.754 chr2 + chr2:27730179-27730547 chr2:27730178-27730179;chr2:27730547-27730548 11.86 N alternative_acceptor CUFF.872 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 2.33 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 93.75 N alternative_acceptor chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 29.67 N jcn_only_AA CUFF.148 chr10 - chr10:78709125-78713558 chr10:78711918-78713558 chr10:78709125-78711917 chr10:78709124-78709125 0.74 N alternative_donor chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 18.18 K alternative_acceptor CUFF.660,CUFF.728 chr19 + chr19:7075117-7075686 chr19:7075117-7075665 chr19:7075666-7075686 chr19:7075686-7075687 5.00 K alternative_first_exon CUFF.53 chr1 - chr1:113471975-113472502,chr1:113471975-113478445,chr1:113471975-113497897;chr1:113471975-113499460 chr1:113471975-113498656 chr1:113499461-113499469 chr1:113498657-113498975 23.91 N intron_retention chr17 - chr17:79478830-79478928 chr17:79478829-79478830;chr17:79478928-79478929 52.35 K alternative_acceptor CUFF.551 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 43.75 N jcn_only_AD CUFF.935 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 4.21 K intron_retention CUFF.1367 chr9 + chr9:133320383-133327610 chr9:133320382-133320383;chr9:133327610-133327611 65.52 N alternative_donor CUFF.575,CUFF.602 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 6.02 K alternative_first_exon CUFF.1251 chr7 + chr7:129015768-129019478,chr7:128991503-129019478;chr7:128865281-129019478 chr7:129008393-129019478 chr7:128864864-128865280 chr7:129007889-129008392 55.92 K intron_retention CUFF.193 chr11 - chr11:10828929-10830251 chr11:10828928-10828929;chr11:10830251-10830252 2.22 K intron_retention CUFF.142 chr10 - chr10:73975613-73975964 chr10:73975612-73975613;chr10:73975964-73975965 40.27 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 6.25 N alternative_donor CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 29.73 N jcn_only_AA CUFF.872 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 19.48 N coord_cassette CUFF.299 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 45.28 N jcn_only_AD CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 90.23 N jcn_only_AD CUFF.1158 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 42.86 N coord_cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196918584;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918585-196918779;chr1:196919982-196920158 51.85 K alternative_first_exon CUFF.164 chr10 - chr10:123683845-123687861 chr10:123683845-123687358 chr10:123687862-123687957 chr10:123687359-123687566 90.69 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 18.18 N alternative_acceptor CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 59.13 N jcn_only_AD chr2 - chr2:73227617-73228657 chr2:73227617-73228653 chr2:73228654-73228657 chr2:73228657-73228658 90.57 N jcn_only_AD CUFF.636 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 18.57 K intron_retention CUFF.526 chr16 + chr16:89789243-89789544 chr16:89789242-89789243;chr16:89789544-89789545 7.75 K intron_retention CUFF.193 chr11 - chr11:10820972-10821098 chr11:10820971-10820972;chr11:10821098-10821099 21.76 K intron_retention CUFF.736 chr2 - chr2:263369-264781 chr2:263368-263369;chr2:264781-264782 16.39 N alternative_donor CUFF.578 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 88.44 N cassette CUFF.382 chr15 + chr15:24820151-24832713 chr15:24820151-24825373;chr15:24825478-24832713 chr15:24825374-24825477 82.35 K alternative_last_exon CUFF.1232 chr7 + chr7:91732141-91739435 chr7:91732141-91734991 chr7:91739436-91739987 chr7:91734992-91735077 91.11 N jcn_only_AA CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 16.74 N cassette CUFF.553 chr17 + chr17:25969375-25972886;chr17:25969375-25972339 chr17:25969375-25970550;chr17:25970647-25972886,chr17:25970647-25972339 chr17:25970551-25970646 75.50 N alternative_acceptor CUFF.742 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 7.58 N jcn_only_AA CUFF.214 chr11 + chr11:67786363-67786638 chr11:67786363-67786534 chr11:67786535-67786638 chr11:67786638-67786639 5.19 N alternative_donor CUFF.1100,CUFF.1122 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 27.59 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 3.45 N cassette CUFF.99 chr1 - chr1:213173726-213178374 chr1:213173726-213174127;chr1:213174255-213178374 chr1:213174128-213174254 91.30 K cassette CUFF.954 chr3 + chr3:51747327-51749077 chr3:51747327-51747979;chr3:51748138-51749077 chr3:51747980-51748137 94.43 N jcn_only_AD CUFF.408 chr15 - chr15:55783455-55789909 chr15:55783455-55787325 chr15:55787326-55789909 chr15:55789909-55789910 2.27 N jcn_only_AA CUFF.1360 chr9 + chr9:125027218-125027740;chr9:125027218-125033142 chr9:125027218-125033231 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 3.07 K cassette CUFF.537 chr17 + chr17:6352728-6353347 chr17:6352728-6353023;chr17:6353099-6353347 chr17:6353024-6353098 26.67 N intron_retention chr14 + chr14:24563644-24563974 chr14:24563643-24563644;chr14:24563974-24563975 33.85 K intron_retention CUFF.696 chr19 + chr19:40486362-40486568 chr19:40486361-40486362;chr19:40486568-40486569 30.15 K alternative_first_exon CUFF.796 chr2 + chr2:109085541-109086106 chr2:109085789-109086106 chr2:109085436-109085540 chr2:109085683-109085788 68.12 N cassette CUFF.355 chr14 - chr14:75165560-75179635 chr14:75165560-75168371;chr14:75168478-75179635 chr14:75168372-75168477 75.00 N coord_cassette CUFF.1225 chr7 - chr7:74981241-74984789 chr7:74981241-74982536;chr7:74982650-74982811;chr7:74982903-74984789 chr7:74982537-74982649;chr7:74982812-74982902 24.39 N jcn_only_AA CUFF.1385 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 41.94 K jcn_only_AD CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 46.97 K alternative_donor CUFF.1253 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 87.27 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:472709-472793 chr5:471939-472793 chr5:466239-466641;chr5:472218-472708 chr5:471071-471938 37.04 K intron_retention CUFF.571 chr17 + chr17:37822033-37822104 chr17:37822032-37822033;chr17:37822104-37822105 70.27 N jcn_only_AD CUFF.631 chr18 + chr18:55895121-55912658;chr18:55865102-55912658 chr18:55895140-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 93.82 N jcn_only_AA chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 31.71 K cassette CUFF.365 chr14 + chr14:83117341-83153657 chr14:83117341-83151723;chr14:83151776-83153657 chr14:83151724-83151775 81.54 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79895103 chr17:79894738-79894845 10.43 K alternative_first_exon CUFF.1034 chr4 + chr4:57302095-57302427 chr4:57302142-57302427 chr4:57301907-57302094 chr4:57302106-57302141 17.24 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508690-66511127 chr17:66508284-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 10.10 N cassette CUFF.299 chr12 + chr12:69207409-69214104;chr12:69203073-69214104 chr12:69207409-69210591,chr12:69203073-69210591;chr12:69210726-69214104 chr12:69210592-69210725 38.53 N alternative_donor CUFF.780 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 2.84 N jcn_only_AA chr2 + chr2:3464108-3464417;chr2:3464108-3466628 chr2:3464108-3469367 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 90.59 K cassette CUFF.408 chr15 - chr15:55742566-55783320 chr15:55742566-55759127;chr15:55759360-55783320 chr15:55759128-55759359 73.48 N intron_retention chr1 + chr1:2100557-2100956 chr1:2100556-2100557;chr1:2100956-2100957 71.43 K cassette CUFF.752 chr2 - chr2:25180844-25186273 chr2:25180844-25181415;chr2:25181471-25186273 chr2:25181416-25181470 48.68 N intron_retention chr11 + chr11:118402587-118403631 chr11:118402586-118402587;chr11:118403631-118403632 90.65 K intron_retention CUFF.676 chr19 + chr19:16198908-16199854 chr19:16198907-16198908;chr19:16199854-16199855 3.80 N jcn_only_AD CUFF.496 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 8.66 N cassette CUFF.1238 chr7 - chr7:102462651-102495223 chr7:102462651-102473286;chr7:102473422-102495223 chr7:102473287-102473421 88.33 K jcn_only_AA CUFF.907 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 25.00 K alternative_first_exon CUFF.739,CUFF.763 chr2 - chr2:46839484-46842075 chr2:46839484-46840832 chr2:46842076-46842324 chr2:46840833-46841045 38.96 K coord_cassette CUFF.1033 chr4 - chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473464;chr4:56473516-56473603 chr4:56471442-56471516;chr4:56473465-56473515 82.11 N jcn_only_AA CUFF.642 chr18 - chr18:67614769-67623990;chr18:67563282-67623990 chr18:67614670-67623990 22.22 N jcn_only_AA CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 14.52 N alternative_acceptor CUFF.758 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 10.20 N alternative_acceptor CUFF.1013 chr4 - chr4:2934905-2935293 chr4:2934937-2935293 chr4:2934905-2934936 chr4:2934904-2934905 82.11 N cassette CUFF.1262 chr7 - chr7:156626487-156685621 chr7:156626487-156629506;chr7:156629580-156685621 chr7:156629507-156629579 82.90 N jcn_only_AA CUFF.401 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 68.65 K intron_retention CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522581-75522582;chr11:75524647-75524648 41.89 K intron_retention CUFF.213 chr11 - chr11:67758834-67764242 chr11:67758833-67758834;chr11:67764242-67764243 59.80 K intron_retention CUFF.1385 chrX - chrX:19933168-19933762 chrX:19933167-19933168;chrX:19933762-19933763 9.40 N jcn_only_AA chr1 + chr1:54360029-54370338 chr1:54360029-54360111 87.27 N jcn_only_AD CUFF.444 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 33.50 K alternative_first_exon CUFF.872 chr20 - chr20:31062546-31099149 chr20:31062546-31071164 chr20:31099150-31099259 chr20:31071165-31071411 75.00 N jcn_only_AD CUFF.277 chr12 - chr12:48393909-48398019 chr12:48393909-48394767 chr12:48394768-48398019 chr12:48398019-48398020 72.13 N intron_retention chr17 + chr17:29684109-29684286 chr17:29684108-29684109;chr17:29684286-29684287 10.19 N alternative_acceptor CUFF.1050 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 91.95 K coord_cassette CUFF.1091 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56517202;chr5:56517224-56526672 chr5:56509901-56510020;chr5:56517203-56517223 75.00 N jcn_only_AA chr4 + chr4:120434126-120449894 chr4:120434126-120440643 chr4:120440644-120449894 chr4:120449894-120449895 63.64 K cassette CUFF.987 chr3 - chr3:127299007-127313642 chr3:127299007-127310732;chr3:127310794-127313642 chr3:127310733-127310793 29.09 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54658995;chr19:54657578-54659046 chr19:54657578-54657680 chr19:54658996-54658999;chr19:54659047-54659419 chr19:54657681-54658984 23.90 K alternative_first_exon CUFF.282 chr12 + chr12:52403024-52404664 chr12:52404347-52404664 chr12:52402974-52403023 chr12:52404235-52404346 44.83 N jcn_only_AD CUFF.951,CUFF.967 chr3 - chr3:107567966-107575926;chr3:107567966-107572719 chr3:107567966-107568669 30.51 N cassette CUFF.626 chr18 - chr18:44483597-44486189 chr18:44483597-44484064;chr18:44484170-44486189 chr18:44484065-44484169 87.06 N cassette CUFF.611 chr18 + chr18:166820-180235;chr18:163454-180235 chr18:163454-178932,chr18:166820-178932;chr18:179038-180235 chr18:178933-179037 10.87 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45148508-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45131043-45182336 chr22:45148404-45148507;chr22:45161895-45162069;chr22:45122457-45122514 chr22:45130907-45131042 4.93 K cassette CUFF.743 chr2 + chr2:3447663-3461391 chr2:3447663-3460920;chr2:3461001-3461391 chr2:3460921-3461000 26.77 N alternative_first_exon CUFF.1401 chrX + chrX:78003532-78010287 chrX:78006809-78010287 chrX:78003139-78003531 chrX:78006707-78006808 80.65 N jcn_only_AA CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 59.38 N jcn_only_AD CUFF.354 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 9.68 K alternative_last_exon CUFF.826 chr2 - chr2:177497854-177502189 chr2:177498469-177502189 chr2:177497761-177497853 chr2:177498423-177498468 50.00 N alternative_acceptor CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550557-123555426 chr9:123550465-123550556 chr9:123550464-123550465 69.05 K intron_retention CUFF.297 chr12 + chr12:58015211-58015472 chr12:58015210-58015211;chr12:58015472-58015473 34.77 N jcn_only_AA CUFF.30 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 3.74 K alternative_donor CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 21.11 N jcn_only_AA chr11 + chr11:118405071-118416833;chr11:118405071-118406222 chr11:118405071-118405221 chr11:118405222-118406222;chr11:118406223-118416833 chr11:118406222-118406223;chr11:118416833-118416834 66.36 N jcn_only_AA CUFF.1391 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 24.75 N jcn_only_AA CUFF.148 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 2.58 K jcn_only_AD CUFF.1367 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 51.23 N jcn_only_AD CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137515023-137515348 chr5:137514540-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 67.21 N alternative_donor CUFF.876 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 20.05 N jcn_only_AD CUFF.5 chr1 + chr1:2075781-2077465;chr1:2076951-2077465 chr1:2076024-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 0.38 K jcn_only_AA CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 9.57 K intron_retention chr8 + chr8:144356973-144357364 chr8:144356972-144356973;chr8:144357364-144357365 35.16 N alternative_donor CUFF.1411 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 22.22 N alternative_donor CUFF.1248,CUFF.1262 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 0.00 K alternative_acceptor CUFF.1202 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 12.99 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75514771-75522468 chr11:75520420-75522468 chr11:75514472-75514562;chr11:75514580-75514770 chr11:75520322-75520419 13.11 K intron_retention CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935859-31935860;chr6:31936104-31936105 14.39 N alternative_donor CUFF.742 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 0.65 K alternative_first_exon CUFF.1387 chrX - chrX:20227523-20252875 chrX:20227523-20236917 chrX:20252876-20252932 chrX:20236918-20237069 51.41 K coord_cassette CUFF.287 chr12 + chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715;chr12:53859758-53861004 chr12:53858544-53858636;chr12:53859716-53859757 26.99 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 9.52 N alternative_acceptor chr15 + chr15:45768751-45789310;chr15:45768751-45769966 chr15:45768751-45804570 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 100.00 N alternative_acceptor chr9 + chr9:133320383-133325658;chr9:133320383-133326988 chr9:133320383-133327610 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 47.62 K jcn_only_AA CUFF.1081,CUFF.1091 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 79.31 K alternative_acceptor CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 28.20 N jcn_only_AD CUFF.980 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 59.43 K alternative_first_exon CUFF.1284 chr8 - chr8:69218834-69243541 chr8:69218834-69224378 chr8:69243542-69243726 chr8:69224379-69224526 78.00 K cassette CUFF.653 chr19 - chr19:6002882-6007022 chr19:6002882-6004211;chr19:6004310-6007022 chr19:6004212-6004309 46.30 K jcn_only_AD CUFF.873 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 45.38 K jcn_only_AA CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949256-8950923 chr11:8949230-8949255 chr11:8949229-8949230 40.22 K alternative_acceptor CUFF.796,CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222458-219222708 chr2:219222709-219222759 chr2:219222759-219222760 77.52 N jcn_only_AA CUFF.1216 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 84.85 N jcn_only_AD CUFF.1208 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 64.58 N intron_retention chr17 - chr17:79995418-79995506 chr17:79995417-79995418;chr17:79995506-79995507 67.65 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 62.30 N jcn_only_AD CUFF.204 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 69.05 K intron_retention CUFF.511 chr16 + chr16:66613602-66614041 chr16:66613601-66613602;chr16:66614041-66614042 chr16:66613351-66613601 22.30 N jcn_only_AA CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156469319-156471770 chr7:156471045-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 20.97 K intron_retention CUFF.446 chr15 - chr15:83355772-83357487 chr15:83355771-83355772;chr15:83357487-83357488 37.70 K alternative_first_exon CUFF.121,CUFF.132 chr10 - chr10:18831107-18834393 chr10:18831107-18833252 chr10:18834394-18834580 chr10:18833253-18833380 46.15 N mutually_exclusive CUFF.198 chr11 + chr11:36459027-36472758,chr11:36472886-36483891 chr11:36459027-36467849,chr11:36467991-36483891 chr11:36472759-36472885 chr11:36467850-36467990 22.58 N alternative_donor CUFF.148 chr10 - chr10:78709125-78713558 chr10:78709125-78711794 chr10:78711795-78713558 chr10:78713558-78713559 0.00 N cassette CUFF.1206 chr7 + chr7:34724297-34867012;chr7:34818178-34867012 chr7:34724297-34851381,chr7:34818178-34851381;chr7:34851476-34867012 chr7:34851382-34851475 62.67 K intron_retention CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819891-24819892;chr15:24820053-24820054 56.00 N cassette CUFF.956 chr3 - chr3:57563115-57570110;chr3:57563115-57582800 chr3:57563115-57569624;chr3:57569735-57570110,chr3:57569735-57582800 chr3:57569625-57569734 30.93 K coord_cassette CUFF.500 chr16 - chr16:30006165-30006861 chr16:30006165-30006423;chr16:30006539-30006663;chr16:30006785-30006861 chr16:30006424-30006538;chr16:30006664-30006784 24.51 N coord_cassette CUFF.830 chr2 + chr2:191273230-191300702 chr2:191273230-191280017;chr2:191280140-191298052;chr2:191298119-191300702 chr2:191280018-191280139;chr2:191298053-191298118 80.49 K intron_retention CUFF.846 chr2 + chr2:220100035-220100195 chr2:220100034-220100035;chr2:220100195-220100196 53.90 K alternative_first_exon CUFF.634,CUFF.645 chr18 - chr18:57147471-57363860 chr18:57147471-57333307 chr18:57363861-57363941 chr18:57333308-57333487 96.55 N alternative_last_exon chr17 + chr17:61907862-61908395 chr17:61907862-61908168 chr17:61908396-61908586 chr17:61908169-61908295 chr17:61907631-61907861 89.56 K coord_cassette CUFF.1125 chr5 - chr5:178032384-178039416 chr5:178032384-178032825;chr5:178032867-178035376;chr5:178035460-178039416 chr5:178032826-178032866;chr5:178035377-178035459 25.33 N jcn_only_AD CUFF.1248,CUFF.1262 chr7 - chr7:117424509-117431344;chr7:117424509-117431181 chr7:117424509-117426439 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 27.27 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 67.24 N jcn_only_AD CUFF.763 chr2 - chr2:110927576-110958997 chr2:110927576-110935999 80.95 K intron_retention CUFF.680 chr19 + chr19:17448457-17448816 chr19:17448456-17448457;chr19:17448816-17448817 26.54 K intron_retention CUFF.796 chr2 + chr2:109089356-109091990 chr2:109089355-109089356;chr2:109091990-109091991 85.71 K jcn_only_AA CUFF.251,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 36.40 N jcn_only_AA CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 7.45 K alternative_acceptor CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 26.87 N alternative_donor CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 7.31 K alternative_first_exon CUFF.1374 chr9 + chr9:139780732-139793164,chr9:139784995-139793164;chr9:139777163-139793164 chr9:139780994-139793164 chr9:139777119-139777162 chr9:139780881-139780993 89.25 N alternative_donor chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 56.52 N coord_cassette CUFF.818 chr2 + chr2:171300557-171371430 chr2:171300557-171319877;chr2:171319956-171323015;chr2:171323222-171355101;chr2:171355214-171356155;chr2:171356319-171371430 chr2:171319878-171319955;chr2:171323016-171323221;chr2:171355102-171355213;chr2:171356156-171356318 88.24 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133419725;chr3:133407209-133410566 chr3:133407209-133418748 11.80 N alternative_acceptor CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 13.04 N cassette CUFF.272 chr12 - chr12:25679890-25801427 chr12:25679890-25699307;chr12:25699489-25801427 chr12:25699308-25699488 69.92 K intron_retention CUFF.587 chr17 + chr17:61568730-61571282 chr17:61568729-61568730;chr17:61571282-61571283 56.00 N jcn_only_AA CUFF.142 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 3.94 N intron_retention chr7 + chr7:148982588-148984655 chr7:148982587-148982588;chr7:148984655-148984656 7.23 N intron_retention CUFF.921 chr22 + chr22:45204319-45204551 chr22:45204318-45204319;chr22:45204551-45204552 81.25 K alternative_first_exon CUFF.1200 chr7 + chr7:16793656-16815835 chr7:16815510-16815835 chr7:16793160-16793655 chr7:16815305-16815509 75.00 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373938-144375141;chr8:144373029-144375141 chr8:144374455-144375141 chr8:144373214-144373937;chr8:144372915-144373028 chr8:144374374-144374454 5.00 K cassette CUFF.307 chr12 - chr12:113601080-113603448 chr12:113601080-113601871;chr12:113602091-113603448 chr12:113601872-113602090 81.58 N intron_retention chr22 - chr22:21829590-21830290 chr22:21829589-21829590;chr22:21830290-21830291 23.08 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27409013;chr3:27394411-27410521 chr3:27394411-27410715 33.65 N alternative_acceptor chr16 - chr16:57513598-57513756 chr16:57513601-57513756 chr16:57513598-57513600 chr16:57513597-57513598 91.25 N jcn_only_AA chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 50.00 N jcn_only_AD CUFF.935 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 22.83 N jcn_only_AD chr15 + chr15:29131425-29140665 chr15:29139191-29140665 82.86 K alternative_donor CUFF.232 chr11 + chr11:117073889-117074022 chr11:117073910-117074022 chr11:117073889-117073909 chr11:117073888-117073889 58.47 N jcn_only_AA CUFF.277 chr12 - chr12:48393909-48398019;chr12:48394878-48398019 chr12:48396825-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 5.06 N alternative_donor chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 94.67 K coord_cassette CUFF.122 chr10 - chr10:27059275-27112066 chr10:27059275-27060003;chr10:27060019-27065993;chr10:27066171-27112066 chr10:27060004-27060018;chr10:27065994-27066170 71.20 N jcn_only_AD CUFF.1117 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 75.00 K alternative_acceptor CUFF.977 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 85.25 N intron_retention CUFF.814 chr2 + chr2:169711971-169712395 chr2:169711970-169711971;chr2:169712395-169712396 43.33 K jcn_only_AA CUFF.1188 chr6 + chr6:161413116-161491639 chr6:161413116-161455290 10.00 N jcn_only_AA CUFF.301 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 33.33 N intron_retention CUFF.1157 chr6 - chr6:43481372-43483343 chr6:43481371-43481372;chr6:43483343-43483344 66.67 K alternative_first_exon CUFF.389 chr15 + chr15:31294234-31327955 chr15:31327860-31327955 chr15:31294216-31294233 chr15:31327773-31327859 70.49 N intron_retention chr19 + chr19:50303275-50303353 chr19:50303274-50303275;chr19:50303353-50303354 71.43 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 12.50 N cassette CUFF.1255 chr7 + chr7:148984868-148989301 chr7:148984868-148987028;chr7:148987130-148989301 chr7:148987029-148987129 46.03 N coord_cassette CUFF.226 chr11 - chr11:102937297-102962515 chr11:102937297-102953476;chr11:102953569-102953984;chr11:102954056-102962515 chr11:102953477-102953568;chr11:102953985-102954055 84.93 N jcn_only_AD CUFF.270 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 33.33 N jcn_only_AD chr6 - chr6:43483929-43484464 chr6:43483929-43484233 chr6:43484234-43484464 chr6:43484464-43484465 30.77 N alternative_donor CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 2.56 K cassette CUFF.1174 chr6 + chr6:126329619-126332398 chr6:126329619-126329802;chr6:126329892-126332398 chr6:126329803-126329891 12.05 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247302060-247322307;chr1:247287174-247322307 chr1:247320520-247322307 chr1:247302021-247302059;chr1:247285277-247287173 chr1:247319720-247320519 25.00 N jcn_only_AA CUFF.796 chr2 + chr2:109102365-109102966 chr2:109102365-109102890 chr2:109102891-109102966 chr2:109102966-109102967 60.00 K cassette CUFF.1016 chr4 - chr4:3949948-3954837 chr4:3949948-3952865;chr4:3952947-3954837 chr4:3952866-3952946 64.32 N jcn_only_AD CUFF.859,CUFF.869 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 68.82 K intron_retention CUFF.788 chr2 - chr2:88874596-88874878 chr2:88874595-88874596;chr2:88874878-88874879 46.51 N alternative_donor CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 19.30 K alternative_last_exon CUFF.498 chr16 - chr16:25098045-25114671;chr16:25097094-25114671 chr16:25112007-25114671 chr16:25097668-25098044;chr16:25096913-25097093 chr16:25111886-25112006 60.18 N jcn_only_AD CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 7.89 N jcn_only_AD CUFF.1174 chr6 + chr6:126342412-126359850 chr6:126342427-126359850 chr6:126342412-126342426 chr6:126342411-126342412 83.58 N alternative_donor CUFF.976 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 7.07 N jcn_only_AD CUFF.133,CUFF.148 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 54.67 N jcn_only_AD CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 chr7:86539128-86539317;chr7:86541388-86541561 31.61 N jcn_only_AA chr2 - chr2:242439697-242448637 chr2:242441124-242448637 79.52 K alternative_first_exon CUFF.825 chr2 - chr2:177043827-177053146 chr2:177043827-177052792 chr2:177053147-177053344 chr2:177052793-177053066 66.95 K alternative_first_exon CUFF.527,CUFF.541 chr17 - chr17:653150-655857;chr17:653150-655372 chr17:653150-654890 chr17:655373-655517 chr17:654891-655301 64.60 N jcn_only_AD CUFF.980 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 16.04 K alternative_acceptor CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 84.56 N jcn_only_AD CUFF.941 chr3 - chr3:33614847-33617660;chr3:33614847-33614931 chr3:33614847-33615964 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 17.65 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69616147;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69619481 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 3.24 N alternative_donor CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 11.76 K intron_retention CUFF.1149 chr6 + chr6:32823983-32825039 chr6:32823982-32823983;chr6:32825039-32825040 6.82 N coord_cassette CUFF.537 chr17 + chr17:6352728-6353681 chr17:6352728-6353023;chr17:6353099-6353347;chr17:6353393-6353681 chr17:6353024-6353098;chr17:6353348-6353392 50.00 N jcn_only_AD CUFF.1110 chr5 + chr5:137514892-137515348;chr5:137514540-137515348 chr5:137515023-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 18.55 N intron_retention chr17 + chr17:66508637-66511534 chr17:66508636-66508637;chr17:66511534-66511535 chr17:66511535-66511717 83.33 K cassette CUFF.140 chr10 + chr10:70661228-70666466 chr10:70661228-70666039;chr10:70666094-70666466 chr10:70666040-70666093 21.21 N alternative_donor CUFF.509 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 2.16 K alternative_first_exon CUFF.37 chr1 + chr1:54356968-54359986 chr1:54357950-54359986 chr1:54356912-54356967 chr1:54357826-54357949 32.79 K intron_retention CUFF.480 chr16 + chr16:4559540-4559629 chr16:4559539-4559540;chr16:4559629-4559630 3.45 N mutually_exclusive CUFF.780 chr2 - chr2:73172229-73195576,chr2:73195663-73215386 chr2:73172229-73188259,chr2:73188378-73215386 chr2:73195577-73195662 chr2:73188260-73188377 21.62 N cassette CUFF.189 chr11 - chr11:6639008-6640426 chr11:6639008-6640006;chr11:6640147-6640426 chr11:6640007-6640146 59.08 N jcn_only_AD CUFF.367 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 55.56 N cassette CUFF.1222 chr7 + chr7:73101231-73105245;chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245,chr7:73101426-73106925 chr7:73101329-73101425 80.85 K intron_retention CUFF.707 chr19 + chr19:45261731-45261980 chr19:45261730-45261731;chr19:45261980-45261981 62.07 N jcn_only_AD CUFF.1174 chr6 + chr6:126307769-126314902;chr6:126307837-126314902 chr6:126307920-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 45.51 K intron_retention CUFF.789 chr2 + chr2:96195104-96195818 chr2:96195103-96195104;chr2:96195818-96195819 25.00 N jcn_only_AD CUFF.1163 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 83.96 K intron_retention CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578876-56578877;chr12:56579938-56579939 chr12:56578814-56578876;chr12:56579939-56580024 19.75 N cassette CUFF.107 chr1 + chr1:230385018-230390963 chr1:230385018-230386202;chr1:230386307-230390963 chr1:230386203-230386306 24.62 N alternative_donor CUFF.30 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 0.77 K alternative_donor CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019536-58019780 chr12:58019471-58019535 chr12:58019470-58019471 78.39 N jcn_only_AD CUFF.315 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 7.32 K alternative_last_exon CUFF.1010,CUFF.1067 chr4 + chr4:186283866-186290903 chr4:186283866-186284538 chr4:186290904-186290982 chr4:186284539-186285125 81.01 N jcn_only_AD chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 32.76 N jcn_only_AA CUFF.1326 chr9 - chr9:15185405-15186941 chr9:15185527-15186941 chr9:15185405-15185526 chr9:15185404-15185405 11.76 N intron_retention chr6 + chr6:2988944-2989761 chr6:2988943-2988944;chr6:2989761-2989762 47.54 N alternative_acceptor CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 84.00 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45148508-45182336;chr22:45162070-45182336 chr22:45122515-45182336 chr22:45130907-45131042;chr22:45148404-45148507;chr22:45161895-45162069 chr22:45122457-45122514 15.65 K alternative_donor CUFF.307 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 45.71 N alternative_acceptor CUFF.942 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 5.95 K cassette CUFF.19 chr1 - chr1:25554727-25558594 chr1:25554727-25555488;chr1:25555615-25558594 chr1:25555489-25555614 74.47 N alternative_first_exon CUFF.424 chr15 - chr15:66787758-66789979 chr15:66787758-66789827 chr15:66789980-66790224 chr15:66789828-66789950 6.51 N jcn_only_AD CUFF.971 chr3 + chr3:112021562-112045368 chr3:112026046-112045368 chr3:112021562-112026045 chr3:112021561-112021562 8.63 K intron_retention CUFF.72 chr1 - chr1:156909703-156909998 chr1:156909702-156909703;chr1:156909998-156909999 11.76 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552 chr6:90193278-90276552 4.65 N alternative_donor CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348663-6350782 chr17:6348725-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 67.55 N intron_retention chr11 + chr11:63670605-63671569 chr11:63670604-63670605;chr11:63671569-63671570 chr11:63670533-63670604;chr11:63671570-63671619 47.27 K intron_retention CUFF.1171 chr6 - chr6:114277858-114279812 chr6:114277857-114277858;chr6:114279812-114279813 14.52 K intron_retention CUFF.58 chr1 + chr1:145578480-145578636 chr1:145578479-145578480;chr1:145578636-145578637 62.77 N coord_cassette CUFF.991 chr3 - chr3:141697525-141724282 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141724282 chr3:141712380-141712427;chr3:141713862-141713983 92.48 N alternative_acceptor chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 55.56 N alternative_first_exon CUFF.1266 chr7 + chr7:157647568-157655236 chr7:157650241-157655236 chr7:157647221-157647567 chr7:157649982-157650240 66.26 N cassette CUFF.1313 chr8 + chr8:107726214-107752570 chr8:107726214-107751685;chr8:107751812-107752570 chr8:107751686-107751811 91.80 K cassette CUFF.95 chr1 + chr1:207287631-207288760 chr1:207287631-207288020;chr1:207288117-207288760 chr1:207288021-207288116 31.52 K alternative_first_exon CUFF.940 chr3 - chr3:33437773-33438536 chr3:33437773-33438236 chr3:33438537-33438627 chr3:33438237-33438510 75.34 N alternative_acceptor CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120449945-120464907 chr4:120464908-120471533 chr4:120471533-120471534 44.93 K alternative_first_exon CUFF.30 chr1 + chr1:32539474-32540551;chr1:32538054-32540551 chr1:32538653-32540551,chr1:32538700-32540551 chr1:32537632-32538053 chr1:32538446-32538652 96.80 N jcn_only_AA CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 66.07 N intron_retention chr17 + chr17:6352728-6353681 chr17:6352727-6352728;chr17:6353681-6353682 25.58 N alternative_donor CUFF.409 chr15 + chr15:57211105-57212089 chr15:57211427-57212089 chr15:57211105-57211426 chr15:57211104-57211105 8.76 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 0.00 N intron_retention chr22 - chr22:51018232-51018485 chr22:51018231-51018232;chr22:51018485-51018486 61.54 N cassette CUFF.1362 chr9 - chr9:130950214-130952966;chr9:130948056-130952966 chr9:130948056-130952607,chr9:130950214-130952607;chr9:130952724-130952966 chr9:130952608-130952723 92.16 K alternative_first_exon CUFF.818 chr2 + chr2:171034800-171055717 chr2:171036692-171055717 chr2:171034595-171034799 chr2:171036659-171036691 45.45 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194424;chr2:25190163-25194284 chr2:25190163-25194686 chr2:25194425-25194486;chr2:25194285-25194376 chr2:25194687-25194963 11.83 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67623849;chr18:67614769-67628827 chr18:67614769-67623990 chr18:67623850-67623940;chr18:67628828-67629074 chr18:67623991-67624434 28.57 N jcn_only_AD CUFF.1071,CUFF.1093 chr5 - chr5:60200701-60214091 chr5:60200701-60203106 chr5:60203107-60214091 chr5:60214091-60214092 0.83 K alternative_acceptor CUFF.116,CUFF.157 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 88.76 N jcn_only_AA CUFF.580 chr17 - chr17:47302494-47304008;chr17:47302367-47304008 chr17:47303140-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 4.79 N cassette CUFF.355 chr14 - chr14:75152364-75179635 chr14:75152364-75158743;chr14:75159032-75179635 chr14:75158744-75159031 80.65 K alternative_first_exon CUFF.1136 chr6 + chr6:28109808-28112108 chr6:28110042-28112108 chr6:28109666-28109807 chr6:28109907-28110041 87.50 N alternative_donor CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212857-110213908 chr1:110212194-110212856 chr1:110212193-110212194 45.62 K intron_retention CUFF.857 chr2 + chr2:242610841-242611605 chr2:242610840-242610841;chr2:242611605-242611606 82.98 K alternative_donor CUFF.180 chr11 - chr11:2905365-2906431 chr11:2905365-2905899 chr11:2905900-2906431 chr11:2906431-2906432 95.72 K mutually_exclusive CUFF.743 chr2 + chr2:3469467-3481465,chr2:3481567-3482616 chr2:3469467-3470024,chr2:3470165-3482616 chr2:3481466-3481566 chr2:3470025-3470164 19.83 N jcn_only_AD CUFF.1163 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 21.12 N alternative_donor CUFF.596 chr17 + chr17:66509120-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 68.12 N jcn_only_AD CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 55.81 N alternative_acceptor CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 49.53 K alternative_acceptor CUFF.1081,CUFF.1091 chr5 + chr5:50685767-50687176 chr5:50685767-50687107 chr5:50687108-50687176 chr5:50687176-50687177 chr5:50685480-50685766;chr5:50687177-50687275 73.91 N alternative_donor CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 11.97 K intron_retention CUFF.715 chr19 + chr19:50309199-50309375 chr19:50309198-50309199;chr19:50309375-50309376 45.31 N alternative_acceptor chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 87.80 N cassette CUFF.504 chr16 + chr16:31383992-31388119 chr16:31383992-31384569;chr16:31384712-31388119 chr16:31384570-31384711 66.67 N alternative_acceptor chr19 + chr19:17448474-17448816;chr19:17448474-17448707 chr19:17448474-17448682 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 3.66 N cassette CUFF.1219 chr7 + chr7:65592728-65595730 chr7:65592728-65595113;chr7:65595236-65595730 chr7:65595114-65595235 15.38 K cassette CUFF.37 chr1 + chr1:54360221-54370338 chr1:54360221-54368729;chr1:54368940-54370338 chr1:54368730-54368939 24.03 N alternative_donor CUFF.270 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 11.97 K jcn_only_AA CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 71.13 N jcn_only_AA CUFF.1367 chr9 + chr9:133320383-133326988;chr9:133320383-133327610 chr9:133320383-133325658 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 16.67 K alternative_last_exon CUFF.647 chr18 + chr18:77875534-77905317 chr18:77875534-77890985 chr18:77905318-77905406 chr18:77890986-77891075 78.22 N alternative_acceptor CUFF.798 chr2 - chr2:110936125-110937200 chr2:110936513-110937200 chr2:110936125-110936512 chr2:110936124-110936125 3.49 N cassette CUFF.1237 chr7 - chr7:102249902-102257071 chr7:102249902-102251532;chr7:102251590-102257071 chr7:102251533-102251589 84.00 N alternative_acceptor CUFF.399 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 2.86 K cassette CUFF.941 chr3 - chr3:33592888-33600798 chr3:33592888-33600616;chr3:33600668-33600798 chr3:33600617-33600667 50.00 K alternative_first_exon CUFF.635 chr18 - chr18:61071060-61077522;chr18:61071060-61071741 chr18:61071060-61074664 chr18:61077523-61077679;chr18:61071742-61072022 chr18:61074665-61074732 17.35 N alternative_donor CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 2.48 K alternative_last_exon CUFF.521 chr16 - chr16:76170264-76181457 chr16:76174302-76181457 chr16:76170014-76170263 chr16:76174260-76174301 24.59 N jcn_only_AA chr22 + chr22:45173110-45182336 chr22:45173110-45181921 chr22:45181922-45182336 chr22:45182336-45182337 33.33 N jcn_only_AD CUFF.1213 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 30.51 K intron_retention chr3 + chr3:28283304-28304781 chr3:28283303-28283304;chr3:28304781-28304782 87.50 K jcn_only_AD CUFF.303 chr12 - chr12:77260042-77272742 chr12:77260042-77272717 chr12:77272718-77272742 chr12:77272742-77272743 89.05 N intron_retention chr17 + chr17:25969375-25972886 chr17:25969374-25969375;chr17:25972886-25972887 15.15 N jcn_only_AD CUFF.876 chr20 + chr20:33589330-33589750 chr20:33589396-33589750 chr20:33589330-33589395 chr20:33589329-33589330 28.87 N jcn_only_AA CUFF.642 chr18 - chr18:67563282-67623990;chr18:67614670-67623990 chr18:67614769-67623990 24.44 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115621 chr16:3115496-3115781 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 45.99 K intron_retention CUFF.846 chr2 + chr2:220094623-220096649 chr2:220094622-220094623;chr2:220096649-220096650 48.92 K alternative_first_exon CUFF.399,CUFF.404 chr15 - chr15:47672793-47687757 chr15:47672793-47685518 chr15:47687758-47687885 chr15:47685519-47685596 35.71 N cassette CUFF.336 chr14 + chr14:24470727-24475094 chr14:24470727-24473545;chr14:24473602-24475094 chr14:24473546-24473601 88.54 N jcn_only_AD CUFF.758 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 42.86 K jcn_only_AD CUFF.710 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 4.04 N alternative_donor CUFF.619 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 0.00 N cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586273-107591814 chr3:107586158-107586272 63.91 K intron_retention CUFF.419 chr15 + chr15:64447103-64447305 chr15:64447102-64447103;chr15:64447305-64447306 55.56 K intron_retention CUFF.282 chr12 + chr12:52407565-52407660 chr12:52407564-52407565;chr12:52407660-52407661 29.86 K intron_retention CUFF.1144 chr6 - chr6:31938925-31939096 chr6:31938924-31938925;chr6:31939096-31939097 8.10 K cassette CUFF.120 chr10 + chr10:18240955-18250509 chr10:18240955-18242119;chr10:18242467-18250509 chr10:18242120-18242466 85.94 N jcn_only_AA CUFF.870 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 chr20:16729908-16730119 97.47 N cassette CUFF.1152 chr6 - chr6:35478788-35479956 chr6:35478788-35479424;chr6:35479584-35479956 chr6:35479425-35479583 80.28 N coord_cassette CUFF.399 chr15 - chr15:44855500-44859621 chr15:44855500-44856744;chr15:44856897-44858051;chr15:44858208-44858414;chr15:44858504-44859621 chr15:44856745-44856896;chr15:44858052-44858207;chr15:44858415-44858503 94.55 N alternative_donor CUFF.174 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 38.89 K alternative_first_exon CUFF.160 chr10 + chr10:106976881-106982873 chr10:106977724-106982873 chr10:106976694-106976880 chr10:106977611-106977723 80.00 N jcn_only_AD CUFF.530 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 4.00 K cassette CUFF.85 chr1 - chr1:169439425-169454800 chr1:169439425-169446392;chr1:169446996-169454800 chr1:169446393-169446995 31.37 N intron_retention chrX + chrX:107381115-107393381 chrX:107381114-107381115;chrX:107393381-107393382 79.17 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149785235-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 6.53 N alternative_donor CUFF.870 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 6.59 N cassette CUFF.275 chr12 + chr12:27627847-27641392 chr12:27627847-27628514;chr12:27628665-27641392 chr12:27628515-27628664 96.96 N jcn_only_AD CUFF.824 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 3.86 K alternative_first_exon CUFF.375 chr14 + chr14:105046341-105052751 chr14:105047963-105052751 chr14:105046021-105046340 chr14:105047959-105047962 25.00 K jcn_only_AA CUFF.409 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 88.65 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49349981-49351092 chr12:49346896-49347057;chr12:49349881-49349980 85.86 K jcn_only_AA CUFF.914 chr22 - chr22:30735169-30752718 chr22:30749062-30752718 80.33 K alternative_last_exon CUFF.21 chr1 - chr1:26212361-26227981 chr1:26227579-26227981 chr1:26210672-26212360 chr1:26226596-26227578 95.60 N alternative_acceptor CUFF.910 chr22 + chr22:29538089-29563031 chr22:29538089-29550325 chr22:29550326-29563031 chr22:29563031-29563032 0.00 N alternative_acceptor CUFF.907 chr22 - chr22:25158489-25170288 chr22:25165757-25170288 chr22:25158489-25165756 chr22:25158488-25158489 0.00 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 23.64 N alternative_acceptor CUFF.769 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 60.00 K jcn_only_AA CUFF.1146 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 93.68 N cassette CUFF.408 chr15 - chr15:55722978-55727102 chr15:55722978-55724694;chr15:55724801-55727102 chr15:55724695-55724800 67.21 K cassette CUFF.903 chr22 + chr22:21057411-21057920 chr22:21057411-21057755;chr22:21057813-21057920 chr22:21057756-21057812 90.58 N alternative_acceptor chr10 + chr10:5120170-5138601 chr10:5120170-5122937 chr10:5122938-5138601 chr10:5138601-5138602 7.35 K intron_retention chr12 + chr12:58017882-58018282 chr12:58017881-58017882;chr12:58018282-58018283 72.58 K intron_retention CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43481371-43481372;chr6:43483332-43483333 7.43 N jcn_only_AD CUFF.988 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 62.00 N intron_retention chr12 + chr12:69210619-69233541 chr12:69210618-69210619;chr12:69233541-69233542 97.87 N jcn_only_AA CUFF.509 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 1.84 K jcn_only_AD CUFF.906 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 82.64 N alternative_donor CUFF.969 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 2.94 K alternative_donor CUFF.691 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 85.87 K intron_retention CUFF.201 chr11 + chr11:59856135-59856222 chr11:59856134-59856135;chr11:59856222-59856223 29.35 N cassette CUFF.116 chr10 + chr10:6266177-6274857 chr10:6266177-6268154;chr10:6268329-6274857 chr10:6268155-6268328 91.41 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693092-15706783 chrX:15693902-15706783 chrX:15699124-15699170;chrX:15692965-15693091 chrX:15693813-15693901 17.75 K cassette CUFF.1017 chr4 - chr4:6066736-6081898 chr4:6066736-6080665;chr4:6080726-6081898 chr4:6080666-6080725 79.59 N jcn_only_AA CUFF.315 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 11.63 N jcn_only_AA CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 7.64 N intron_retention chr11 + chr11:118915457-118916096 chr11:118915456-118915457;chr11:118916096-118916097 95.83 K jcn_only_AD CUFF.869 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 51.61 N jcn_only_AD CUFF.509 chr16 - chr16:57513598-57513772;chr16:57513598-57517869 chr16:57513598-57513756 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 2.95 N jcn_only_AD chr11 - chr11:6633050-6633604 chr11:6633050-6633188 84.91 K alternative_first_exon CUFF.794 chr2 + chr2:101436877-101521194 chr2:101437662-101521194 chr2:101436577-101436876 chr2:101437400-101437661 91.09 N cassette CUFF.506 chr16 + chr16:56370773-56388777 chr16:56370773-56385295;chr16:56385450-56388777 chr16:56385296-56385449 37.36 N jcn_only_AD CUFF.743 chr2 + chr2:3461465-3464033 chr2:3462233-3464033 chr2:3461465-3462232 chr2:3461464-3461465 4.49 K alternative_first_exon CUFF.210 chr11 + chr11:65479917-65480236 chr11:65480069-65480236 chr11:65479751-65479916 chr11:65479924-65480068 58.82 N alternative_acceptor CUFF.341 chr14 + chr14:50074840-50080973 chr14:50074840-50079189 chr14:50079190-50080973 chr14:50080973-50080974 0.24 K intron_retention CUFF.649 chr19 + chr19:1438580-1438805 chr19:1438579-1438580;chr19:1438805-1438806 19.69 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 95.56 K cassette CUFF.1169 chr6 + chr6:112386201-112389407 chr6:112386201-112388171;chr6:112388236-112389407 chr6:112388172-112388235 48.95 K jcn_only_AD CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 39.39 N alternative_donor CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 85.36 K cassette CUFF.792 chr2 + chr2:99232810-99234630 chr2:99232810-99232894;chr2:99232997-99234630 chr2:99232895-99232996 92.04 K intron_retention chr16 + chr16:3118012-3118180 chr16:3118011-3118012;chr16:3118180-3118181 4.87 K cassette CUFF.728 chr19 + chr19:52905282-52909159 chr19:52905282-52905681;chr19:52905799-52909159 chr19:52905682-52905798 20.61 N intron_retention CUFF.543 chr17 + chr17:15603483-15603586 chr17:15603482-15603483;chr17:15603586-15603587 28.57 N alternative_acceptor chr16 + chr16:105550-105793 chr16:105550-105776 chr16:105777-105793 chr16:105793-105794 chr16:105794-105882 67.11 N intron_retention chr17 - chr17:79894738-79894845 chr17:79894737-79894738;chr17:79894845-79894846 78.95 K alternative_last_exon CUFF.988,CUFF.989 chr3 + chr3:133419898-133472438 chr3:133419898-133426336 chr3:133472439-133472547 chr3:133426337-133426516 42.86 N intron_retention chr16 + chr16:3196087-3197258 chr16:3196086-3196087;chr16:3197258-3197259 56.25 K intron_retention CUFF.1249 chr7 - chr7:127251731-127251998 chr7:127251730-127251731;chr7:127251998-127251999 2.24 N alternative_acceptor CUFF.681 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 73.61 N intron_retention chr17 - chr17:79220859-79225292 chr17:79220858-79220859;chr17:79225292-79225293 51.06 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 5.00 N jcn_only_AA CUFF.981 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 11.71 N alternative_donor CUFF.591,CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 2.38 N intron_retention chr19 - chr19:41938968-41939441 chr19:41938967-41938968;chr19:41939441-41939442 65.00 N jcn_only_AA CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 0.98 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 33.06 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 7.41 N jcn_only_AD CUFF.4 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 42.62 N alternative_donor CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094623-220094949 chr2:220094703-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 5.77 K cassette CUFF.73 chr1 - chr1:158444458-158464191 chr1:158444458-158449694;chr1:158451593-158464191 chr1:158449695-158451592 32.10 N jcn_only_AA CUFF.148 chr10 - chr10:79396328-79397022;chr10:79396274-79397022 chr10:79163782-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 49.72 K jcn_only_AD CUFF.1208 chr7 - chr7:36901342-36934613 chr7:36901342-36909997 13.07 N alternative_donor CUFF.945 chr3 - chr3:38058211-38061678 chr3:38058211-38060460 chr3:38060461-38061678 chr3:38061678-38061679 2.99 K intron_retention CUFF.229 chr11 + chr11:107975630-107976933 chr11:107975629-107975630;chr11:107976933-107976934 34.48 K intron_retention CUFF.715 chr19 + chr19:50309511-50309937 chr19:50309510-50309511;chr19:50309937-50309938 40.91 K alternative_last_exon CUFF.872 chr20 - chr20:31052938-31062403;chr20:31044199-31062403 chr20:31052921-31062403 chr20:31043921-31044198 chr20:31052579-31052920 52.02 K cassette CUFF.255 chr12 + chr12:4662314-4668022 chr12:4662314-4665596;chr12:4665669-4668022 chr12:4665597-4665668 29.27 N jcn_only_AD CUFF.1230,CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 8.14 K intron_retention CUFF.1034 chr4 + chr4:57302095-57302427 chr4:57302094-57302095;chr4:57302427-57302428 83.33 N jcn_only_AA CUFF.925 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 81.30 N coord_cassette CUFF.127 chr10 + chr10:35464634-35477127 chr10:35464634-35467816;chr10:35467915-35468061;chr10:35468205-35477127 chr10:35467817-35467914;chr10:35468062-35468204 97.10 N jcn_only_AA CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 21.62 N alternative_first_exon CUFF.1362 chr9 - chr9:123550557-123555426 chr9:123550557-123555164 chr9:123555427-123555535 chr9:123555165-123555415 25.45 N intron_retention chr17 + chr17:61555152-61555291 chr17:61555151-61555152;chr17:61555291-61555292 chr17:61555292-61555459 60.50 N jcn_only_AD CUFF.407 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 66.10 K intron_retention CUFF.500 chr16 - chr16:30006165-30006861 chr16:30006164-30006165;chr16:30006861-30006862 9.36 N intron_retention CUFF.930 chr3 + chr3:19992554-20017078 chr3:19992553-19992554;chr3:20017078-20017079 51.02 N cassette ENSG00000228146.2 chr16 + chr16:3194326-3194743 chr16:3194326-3194453;chr16:3194649-3194743 chr16:3194454-3194648 87.18 N alternative_acceptor CUFF.42 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 57.35 K jcn_only_AA CUFF.976,CUFF.985 chr3 + chr3:119530574-119531643 chr3:119530574-119531532 chr3:119531533-119531643 chr3:119531643-119531644 92.63 N alternative_acceptor CUFF.450 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 77.78 N jcn_only_AD CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79358745 chr17:79354385-79355676 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 18.84 N jcn_only_AD chr17 + chr17:29592358-29652837;chr17:29645583-29652837 chr17:29626625-29652837 16.67 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371 chr8:106331210-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 5.56 N jcn_only_AD CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610821-242611605 chr2:242610841-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 9.30 K intron_retention CUFF.940 chr3 - chr3:33437773-33438536 chr3:33437772-33437773;chr3:33438536-33438537 48.00 N alternative_acceptor CUFF.941 chr3 - chr3:33626413-33633886 chr3:33633732-33633886 chr3:33626413-33633731 chr3:33626412-33626413 0.00 N jcn_only_AD CUFF.631 chr18 + chr18:55895140-55912658;chr18:55865102-55912658 chr18:55895121-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 5.70 N alternative_acceptor chr4 + chr4:647109-647640 chr4:647109-647225 chr4:647226-647640 chr4:647640-647641 21.43 K intron_retention CUFF.985 chr3 + chr3:126133023-126135158 chr3:126133022-126133023;chr3:126135158-126135159 31.39 K jcn_only_AA CUFF.787 chr2 - chr2:86831602-86839281 chr2:86832542-86839281 chr2:86831602-86832541 chr2:86831601-86831602 36.05 N intron_retention chr12 + chr12:26205536-26208211 chr12:26205535-26205536;chr12:26208211-26208212 73.88 N alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208168,chr12:26164755-26208168;chr12:26148064-26208168;chr12:26174452-26208168 chr12:26205930-26208168 chr12:26147970-26148063;chr12:26174301-26174451 chr12:26205724-26205929 8.60 N alternative_first_exon CUFF.270,CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48298737;chr12:48276558-48293619 chr12:48276558-48336645 chr12:48298738-48298880;chr12:48293620-48293692 chr12:48336646-48336831 13.64 K intron_retention CUFF.709 chr19 - chr19:49117594-49117696 chr19:49117593-49117594;chr19:49117696-49117697 32.50 N jcn_only_AD chr17 - chr17:56082403-56083870;chr17:56082403-56082758 chr17:56082403-56082774 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 78.76 K alternative_donor CUFF.1423 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 13.04 N jcn_only_AA CUFF.917 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 4.47 N jcn_only_AD CUFF.935 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 44.21 N alternative_acceptor CUFF.287 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 0.17 N jcn_only_AA CUFF.513,CUFF.518 chr16 + chr16:70399035-70399987 chr16:70399035-70399835 chr16:70399836-70399987 chr16:70399987-70399988 5.33 K cassette CUFF.1094 chr5 - chr5:64907709-64909924 chr5:64907709-64909553;chr5:64909683-64909924 chr5:64909554-64909682 7.09 K intron_retention CUFF.37 chr1 + chr1:54359960-54360083 chr1:54359959-54359960;chr1:54360083-54360084 92.80 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 40.20 N jcn_only_AA CUFF.1175 chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 55.43 K jcn_only_AD CUFF.1075,CUFF.1094 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 60.00 N alternative_last_exon CUFF.1175 chr6 - chr6:128563748-128718710 chr6:128643456-128718710 chr6:128563666-128563747 chr6:128642947-128643455 96.67 N alternative_acceptor CUFF.774 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 43.08 K cassette CUFF.941 chr3 - chr3:33543261-33557514 chr3:33543261-33552049;chr3:33552257-33557514 chr3:33552050-33552256 56.19 K cassette CUFF.371 chr14 + chr14:103187422-103188523 chr14:103187422-103187656;chr14:103187715-103188523 chr14:103187657-103187714 6.25 K intron_retention CUFF.903 chr22 + chr22:21058345-21058475 chr22:21058344-21058345;chr22:21058475-21058476 86.14 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33977808;chr19:33968997-33980901 chr19:33968997-33978155 chr19:33977809-33977904;chr19:33980902-33980963 chr19:33978156-33978244 2.06 K intron_retention CUFF.1364 chr9 - chr9:131484854-131486230 chr9:131484853-131484854;chr9:131486230-131486231 84.56 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3481462;chr2:3481567-3482616 chr2:3481463-3481566 80.68 N jcn_only_AD CUFF.587 chr17 + chr17:61571021-61571282;chr17:61567390-61571282 chr17:61568730-61571282 16.42 K intron_retention CUFF.680 chr19 + chr19:17448386-17448816 chr19:17448385-17448386;chr19:17448816-17448817 69.49 K intron_retention CUFF.446 chr15 - chr15:83331005-83331445 chr15:83331004-83331005;chr15:83331445-83331446 39.51 K cassette CUFF.844 chr2 + chr2:219445464-219447693 chr2:219445464-219445717;chr2:219445838-219447693 chr2:219445718-219445837 48.05 K coord_cassette CUFF.994 chr3 - chr3:155520381-155523927 chr3:155520381-155521839;chr3:155521963-155523385;chr3:155523513-155523927 chr3:155521840-155521962;chr3:155523386-155523512 52.38 K alternative_acceptor CUFF.1353 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 6.79 K cassette CUFF.669 chr19 - chr19:11537861-11541718 chr19:11537861-11541518;chr19:11541597-11541718 chr19:11541519-11541596 90.00 N jcn_only_AA CUFF.346 chr14 + chr14:55494190-55498606 chr14:55494190-55498580 17.65 K coord_cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106143891;chr1:106144008-106145898;chr1:106146181-106146784 chr1:106143892-106144007;chr1:106145899-106146180 41.67 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 7.69 K intron_retention CUFF.1051 chr4 - chr4:107845362-107845701 chr4:107845361-107845362;chr4:107845701-107845702 33.33 K intron_retention CUFF.287 chr12 + chr12:53861628-53862560 chr12:53861627-53861628;chr12:53862560-53862561 5.46 K intron_retention CUFF.237 chr11 - chr11:118919083-118919187 chr11:118919082-118919083;chr11:118919187-118919188 43.90 N alternative_acceptor CUFF.1146,CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 12.67 N jcn_only_AD chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 93.25 N alternative_donor CUFF.4 chr1 + chr1:1656203-1667255 chr1:1664284-1667255 chr1:1656203-1664283 chr1:1656202-1656203 32.69 N jcn_only_AD CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134191018-134193046 chr5:134190853-134191017 chr5:134190852-134190853 30.00 K intron_retention CUFF.1094 chr5 - chr5:64886130-64887274 chr5:64886129-64886130;chr5:64887274-64887275 52.46 N intron_retention CUFF.193 chr11 - chr11:10828929-10829291 chr11:10828928-10828929;chr11:10829291-10829292 80.95 K cassette CUFF.409 chr15 + chr15:57213297-57355947 chr15:57213297-57293546;chr15:57293583-57355947 chr15:57293547-57293582 32.39 N jcn_only_AD CUFF.460 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 58.06 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67628827;chr18:67614769-67623990 chr18:67614769-67623849 chr18:67628828-67629074;chr18:67623991-67624434 chr18:67623850-67623940 21.43 N alternative_donor CUFF.383 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 chr15:25223466-25224789 chr15:25223465-25223466 1.72 K intron_retention CUFF.478 chr16 - chr16:4414415-4414597 chr16:4414414-4414415;chr16:4414597-4414598 5.26 N alternative_acceptor CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411805-4411985 chr16:4411471-4411804 chr16:4411470-4411471 36.96 N alternative_acceptor CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 32.17 N alternative_acceptor CUFF.294 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705238-56708634 chr12:56705199-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 47.79 N jcn_only_AA chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 94.67 K alternative_last_exon CUFF.742,CUFF.756 chr2 + chr2:1251216-1263141 chr2:1251216-1260176 chr2:1263142-1263213 chr2:1260177-1260378 79.03 K alternative_first_exon CUFF.345 chr14 + chr14:58894576-58896080;chr14:58894532-58896080 chr14:58895182-58896080 chr14:58894408-58894531 chr14:58894956-58895181 11.11 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130953558 chr9:130953142-130954133 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 11.76 K cassette CUFF.1175 chr6 - chr6:128313855-128316606 chr6:128313855-128316393;chr6:128316412-128316606 chr6:128316394-128316411 27.66 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58963072-58965062;chr19:58964150-58965062 chr19:58963111-58965062 chr19:58962971-58963071;chr19:58964020-58964149 chr19:58963101-58963110 9.52 N coord_cassette CUFF.674 chr19 - chr19:14862484-14867049 chr19:14862484-14863140;chr19:14863339-14865765;chr19:14865940-14867049 chr19:14863141-14863338;chr19:14865766-14865939 90.14 K alternative_first_exon CUFF.409 chr15 + chr15:57506595-57523349;chr15:57490024-57523349 chr15:57511789-57523349 chr15:57489971-57490023 chr15:57511210-57511788 80.15 N intron_retention chr1 + chr1:222802037-222838940 chr1:222802036-222802037;chr1:222838940-222838941 68.42 K cassette CUFF.906 chr22 + chr22:24765289-24808615 chr22:24765289-24807555;chr22:24807673-24808615 chr22:24807556-24807672 29.63 N alternative_donor CUFF.5 chr1 + chr1:1987002-1987922 chr1:1987316-1987922 chr1:1987002-1987315 chr1:1987001-1987002 50.46 K intron_retention CUFF.1115 chr5 + chr5:140039781-140040342 chr5:140039780-140039781;chr5:140040342-140040343 6.86 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 52.86 N jcn_only_AD CUFF.681 chr19 + chr19:17581517-17598268 chr19:17598145-17598268 93.57 N jcn_only_AA CUFF.914 chr22 - chr22:30738869-30748939 chr22:30742509-30748939 73.17 N jcn_only_AA CUFF.649 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 7.58 K jcn_only_AA CUFF.127 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 59.90 K intron_retention CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764091-44764092;chr19:44768480-44768481 53.66 N alternative_acceptor CUFF.857 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 0.00 K intron_retention CUFF.947 chr3 + chr3:38519784-38519865 chr3:38519783-38519784;chr3:38519865-38519866 54.55 K alternative_first_exon CUFF.1322 chr8 + chr8:144373781-144375141;chr8:144373938-144375141;chr8:144374455-144375141 chr8:144373029-144375141 chr8:144373214-144373937;chr8:144374374-144374454 chr8:144372915-144373028 17.50 N jcn_only_AA CUFF.607 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 72.10 N jcn_only_AD CUFF.171 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 8.54 N jcn_only_AA CUFF.736 chr2 - chr2:263369-264781;chr2:263763-264781 chr2:263373-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 63.12 N intron_retention chr11 + chr11:119056338-119056630 chr11:119056337-119056338;chr11:119056630-119056631 25.00 K alternative_first_exon CUFF.557 chr17 + chr17:29422388-29483000 chr17:29455526-29483000 chr17:29421945-29422387 chr17:29455479-29455525 28.57 N alternative_donor CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 1.37 N jcn_only_AD CUFF.596 chr17 + chr17:66509112-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 11.00 K intron_retention CUFF.92 chr1 + chr1:200882752-200882988 chr1:200882751-200882752;chr1:200882988-200882989 28.57 N alternative_donor chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61904778-61904874 58.16 K cassette CUFF.743 chr2 + chr2:3405665-3425651 chr2:3405665-3425470;chr2:3425558-3425651 chr2:3425471-3425557 60.33 N alternative_donor CUFF.174,CUFF.193 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 4.17 K jcn_only_AA CUFF.325 chr13 + chr13:51796706-51805483 chr13:51796706-51799256 79.46 N jcn_only_AD CUFF.649 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 14.04 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36415562-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 0.37 N jcn_only_AD CUFF.409 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 52.12 N jcn_only_AD chr17 + chr17:29576138-29585361 chr17:29584745-29585361 79.17 K alternative_acceptor CUFF.911 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 91.36 N alternative_acceptor chr12 - chr12:22611520-22612425;chr12:22611490-22612425 chr12:22610096-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 48.28 N intron_retention chr8 + chr8:75262708-75263532 chr8:75262707-75262708;chr8:75263532-75263533 76.00 N cassette CUFF.1177 chr6 - chr6:133047978-133055391;chr6:133046119-133055391;chr6:133048152-133055391 chr6:133047978-133049879,chr6:133048152-133049879,chr6:133046119-133049879;chr6:133050073-133055391 chr6:133049880-133050072 68.07 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692406 chr3:93646252-93692517 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 1.27 K alternative_first_exon CUFF.702,ENSG00000099800.3 chr19 - chr19:42744295-42759129 chr19:42744295-42746334 chr19:42759130-42759131 chr19:42746335-42746745 81.94 K intron_retention CUFF.437 chr15 + chr15:77771664-77775311 chr15:77771663-77771664;chr15:77775311-77775312 0.78 N alternative_donor CUFF.980 chr3 + chr3:122849464-122864368;chr3:122863677-122864368 chr3:122843191-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 85.00 N alternative_donor CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 73.47 K intron_retention CUFF.152 chr10 - chr10:80721165-80721655 chr10:80721164-80721165;chr10:80721655-80721656 44.30 N jcn_only_AD CUFF.916 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 50.85 K intron_retention CUFF.102 chr1 + chr1:222835675-222837339 chr1:222835674-222835675;chr1:222837339-222837340 11.43 N jcn_only_AA CUFF.824 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 3.95 N jcn_only_AD CUFF.981,CUFF.987 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 25.00 N jcn_only_AA CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 42.11 K jcn_only_AA CUFF.642 chr18 - chr18:67509632-67562936 chr18:67540483-67562936 89.68 N cassette CUFF.108 chr1 + chr1:245133746-245222687;chr1:245165535-245222687 chr1:245133746-245180543,chr1:245165535-245180543;chr1:245180629-245222687 chr1:245180544-245180628 65.67 N jcn_only_AA CUFF.1030 chr4 - chr4:36195270-36212011 chr4:36211037-36212011 chr4:36195270-36211036 chr4:36195269-36195270 90.24 N coord_cassette CUFF.299 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69229608 chr12:69218143-69218210;chr12:69218335-69218431 6.79 K intron_retention CUFF.1272 chr8 - chr8:22011727-22012072 chr8:22011726-22011727;chr8:22012072-22012073 1.53 N jcn_only_AD CUFF.369 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 6.74 K alternative_first_exon CUFF.29 chr1 + chr1:31769923-31782890,chr1:31769944-31782890 chr1:31770061-31782890 chr1:31769842-31769922 chr1:31769994-31770060 8.45 N intron_retention chr11 + chr11:119056875-119057187 chr11:119056874-119056875;chr11:119057187-119057188 chr11:119056634-119056874;chr11:119057188-119057399 81.43 N alternative_donor CUFF.1213 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 0.00 K intron_retention CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861627-53861628;chr12:53862563-53862564 3.10 N jcn_only_AD chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 98.73 N jcn_only_AA chr17 + chr17:29576138-29585361;chr17:29576138-29579955 chr17:29576138-29584704 62.22 K intron_retention chr11 + chr11:119056662-119056800 chr11:119056661-119056662;chr11:119056800-119056801 chr11:119056634-119056661;chr11:119056801-119056950 34.96 N jcn_only_AD chr14 - chr14:59946070-59950526;chr14:59946070-59950207 chr14:59946070-59950397 64.00 N jcn_only_AD CUFF.1402 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 80.15 K jcn_only_AA CUFF.902,CUFF.921 chr22 + chr22:45122515-45182336 chr22:45122515-45127609 22.83 N alternative_acceptor CUFF.355 chr14 - chr14:75152364-75158743 chr14:75157854-75158743 chr14:75152364-75157853 chr14:75152363-75152364 0.00 N jcn_only_AD CUFF.473 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 5.38 N alternative_donor CUFF.303 chr12 - chr12:77254194-77256955 chr12:77254194-77256589 chr12:77256590-77256955 chr12:77256955-77256956 10.39 N intron_retention chr4 - chr4:2934418-2934832 chr4:2934417-2934418;chr4:2934832-2934833 82.14 K jcn_only_AD CUFF.786 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 45.66 K intron_retention CUFF.857 chr2 + chr2:242610821-242611605 chr2:242610820-242610821;chr2:242611605-242611606 48.39 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4465715;chr16:4463406-4466459 chr16:4463406-4464307 chr16:4465716-4465751;chr16:4466460-4466962 chr16:4464308-4464367 9.00 N jcn_only_AA chr16 + chr16:3115712-3115784 chr16:3115712-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 20.69 K intron_retention CUFF.1125 chr5 - chr5:178043950-178044344 chr5:178043949-178043950;chr5:178044344-178044345 80.68 N jcn_only_AA CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37839236-37841138 chr4:37841139-37841469 chr4:37841469-37841470 92.16 K coord_cassette CUFF.346 chr14 + chr14:59295274-59360860 chr14:59295274-59355515;chr14:59355641-59357041;chr14:59357239-59360860 chr14:59355516-59355640;chr14:59357042-59357238 37.42 N alternative_donor CUFF.204 chr11 + chr11:61588941-61593754 chr11:61593610-61593754 chr11:61588941-61593609 chr11:61588940-61588941 7.14 N cassette CUFF.1171 chr6 - chr6:114281183-114292020;chr6:114281183-114291643;chr6:114283559-114292020 chr6:114281183-114289797,chr6:114283559-114289797;chr6:114289861-114291643,chr6:114289861-114292020 chr6:114289798-114289860 58.64 N alternative_acceptor CUFF.462 chr16 + chr16:105883-106538 chr16:105883-106320 chr16:106321-106538 chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 5.03 N alternative_donor CUFF.1199,CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 0.00 N intron_retention chr22 + chr22:20748625-20749622 chr22:20748624-20748625;chr22:20749622-20749623 chr22:20748405-20748624;chr22:20749623-20749708 64.71 N cassette CUFF.127 chr10 + chr10:35416122-35437295;chr10:35416496-35437295;chr10:35416122-35467816 chr10:35416122-35426709,chr10:35416496-35426709;chr10:35426808-35437295,chr10:35426808-35467816 chr10:35426710-35426807 32.23 N alternative_donor CUFF.1385,CUFF.1387 chrX - chrX:19948059-19953926 chrX:19948059-19953475 chrX:19953476-19953926 chrX:19953926-19953927 31.58 N jcn_only_AD CUFF.1142 chr6 + chr6:31927178-31928817 chr6:31928518-31928817 97.12 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21868422 chr22:21846384-21871613 66.23 N jcn_only_AD CUFF.861,CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 22.22 N jcn_only_AA CUFF.543 chr17 + chr17:15603483-15604465 chr17:15603483-15603586 chr17:15603587-15604465 chr17:15604465-15604466 22.39 K alternative_donor CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 49.47 K cassette CUFF.1041 chr4 + chr4:77192922-77230296 chr4:77192922-77199221;chr4:77199378-77230296 chr4:77199222-77199377 41.67 K jcn_only_AA CUFF.188 chr11 - chr11:6623446-6624633 chr11:6623495-6624633 chr11:6623446-6623494 chr11:6623445-6623446 82.61 N jcn_only_AD CUFF.1167 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 11.71 K intron_retention CUFF.391 chr15 + chr15:40531337-40545378 chr15:40531336-40531337;chr15:40545378-40545379 42.86 K jcn_only_AA CUFF.1073,CUFF.1078 chr5 + chr5:36163859-36177066 chr5:36163859-36166620 73.79 K intron_retention CUFF.860 chr20 + chr20:2843357-2843452 chr20:2843356-2843357;chr20:2843452-2843453 20.00 K alternative_last_exon CUFF.983 chr3 - chr3:125741776-125745177 chr3:125743749-125745177 chr3:125741629-125741775 chr3:125743650-125743748 11.56 K alternative_last_exon CUFF.933 chr3 - chr3:27183074-27204191 chr3:27204093-27204191 chr3:27182973-27183073 chr3:27203790-27204092 47.91 N alternative_donor CUFF.437 chr15 + chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 24.44 N coord_cassette CUFF.748 chr2 - chr2:11587901-11593707 chr2:11587901-11590137;chr2:11590253-11591776;chr2:11591933-11593707 chr2:11590138-11590252;chr2:11591777-11591932 81.74 K alternative_first_exon CUFF.1067 chr4 + chr4:186125622-186168447 chr4:186131410-186168447 chr4:186125391-186125621 chr4:186131305-186131409 51.85 N intron_retention chr15 + chr15:64446202-64446585 chr15:64446201-64446202;chr15:64446585-64446586 64.22 N cassette CUFF.299 chr12 + chr12:69207409-69222550;chr12:69207409-69233053;chr12:69207409-69218142;chr12:69203073-69218142;chr12:69203073-69233053 chr12:69207409-69214104,chr12:69203073-69214104;chr12:69214155-69233053,chr12:69214155-69222550,chr12:69214155-69218142 chr12:69214105-69214154 57.52 N alternative_donor CUFF.583 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 23.42 N jcn_only_AA chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 60.51 N intron_retention chr22 + chr22:29695271-29695588 chr22:29695270-29695271;chr22:29695588-29695589 16.77 K alternative_first_exon CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135496-30136479 chr20:30135407-30135409 chr20:30135461-30135495 47.37 N jcn_only_AD CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 30.53 N alternative_donor CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86549023 chr7:86548627-86550078 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 1.16 K coord_cassette CUFF.256 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7108732;chr12:7108792-7125577 chr12:7091837-7091943;chr12:7092593-7092700;chr12:7108733-7108791 70.71 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115781 chr16:3115496-3115621 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 6.93 K cassette CUFF.824 chr2 - chr2:175809672-175816891 chr2:175809672-175809897;chr2:175809990-175816891 chr2:175809898-175809989 1.17 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687553 chr9:46686829-46686830;chr9:46687553-46687554 9.68 N jcn_only_AA CUFF.462 chr16 + chr16:89789592-89789686 chr16:89789592-89789667 chr16:89789668-89789686 chr16:89789686-89789687 90.29 N alternative_donor CUFF.1117 chr5 - chr5:149782876-149785821 chr5:149782876-149784242 chr5:149784243-149785821 chr5:149785821-149785822 83.87 N jcn_only_AD CUFF.204 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 17.39 N jcn_only_AD chr11 - chr11:6637735-6638589 chr11:6637735-6637891 chr11:6637892-6638589 chr11:6638589-6638590 64.71 N mutually_exclusive CUFF.54 chr1 - chr1:114423763-114429158,chr1:114429281-114429870 chr1:114423763-114424394,chr1:114424620-114429870 chr1:114429159-114429280 chr1:114424395-114424619 92.65 N cassette CUFF.299 chr12 + chr12:69207409-69233053;chr12:69222712-69233053;chr12:69203073-69233053;chr12:69218432-69233053 chr12:69203073-69229608,chr12:69222712-69229608,chr12:69207409-69229608,chr12:69218432-69229608;chr12:69229765-69233053 chr12:69229609-69229764 77.01 K mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042585-177043756 chr2:177041421-177042059,chr2:177042223-177043756 chr2:177042439-177042584 chr2:177042060-177042222 81.12 N jcn_only_AA chr19 - chr19:6192065-6199490;chr19:6176455-6199490 chr19:6192041-6199490 5.88 N intron_retention chr17 + chr17:66511294-66511534 chr17:66511293-66511294;chr17:66511534-66511535 chr17:66511535-66511717 14.49 N alternative_acceptor chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 72.00 K alternative_first_exon CUFF.72 chr1 - chr1:156939836-156946774 chr1:156939836-156941488 chr1:156946775-156946846 chr1:156941489-156941644 98.14 K intron_retention CUFF.208 chr11 + chr11:64001453-64001544 chr11:64001452-64001453;chr11:64001544-64001545 chr11:64001366-64001452;chr11:64001545-64001758 57.39 K intron_retention CUFF.172 chr11 - chr11:555504-555733 chr11:555503-555504;chr11:555733-555734 10.87 N jcn_only_AD CUFF.664 chr19 - chr19:10204296-10204488 chr19:10204296-10204368 chr19:10204369-10204488 chr19:10204488-10204489 35.56 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055003-99055004;chr8:99057574-99057575 3.81 N intron_retention CUFF.193 chr11 - chr11:10828929-10829080 chr11:10828928-10828929;chr11:10829080-10829081 33.85 N alternative_donor CUFF.995 chr3 - chr3:156261059-156262096 chr3:156261059-156262082 chr3:156262083-156262096 chr3:156262096-156262097 12.04 N alternative_donor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8457687-8462224 chr11:8462225-8474368 chr11:8474368-8474369 13.33 N jcn_only_AD CUFF.243 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 7.66 N alternative_first_exon CUFF.1321 chr8 + chr8:144349655-144356873 chr8:144351691-144356873 chr8:144349603-144349654 chr8:144351497-144351690 80.36 N alternative_donor CUFF.1378 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 62.12 N jcn_only_AD CUFF.276,CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 1.82 N jcn_only_AA CUFF.735 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 14.74 N intron_retention chr8 + chr8:144356973-144357147 chr8:144356972-144356973;chr8:144357147-144357148 22.03 K jcn_only_AA CUFF.210 chr11 + chr11:65481320-65482130 chr11:65481320-65481965 chr11:65481966-65482130 chr11:65482130-65482131 77.41 K jcn_only_AD CUFF.1074,CUFF.1086 chr5 - chr5:54410147-54415640 chr5:54410147-54415628 chr5:54415629-54415640 chr5:54415640-54415641 90.64 N jcn_only_AA CUFF.113 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 chr10:412215-412351;chr10:410314-410522 85.29 K intron_retention CUFF.1330 chr9 + chr9:34990609-34993196 chr9:34990608-34990609;chr9:34993196-34993197 2.04 K cassette CUFF.256 chr12 - chr12:7092701-7125577 chr12:7092701-7108732;chr12:7108792-7125577 chr12:7108733-7108791 40.51 K cassette CUFF.122 chr10 - chr10:27059275-27065993 chr10:27059275-27060003;chr10:27060019-27065993 chr10:27060004-27060018 65.87 N jcn_only_AD CUFF.509 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 4.20 N alternative_donor CUFF.607 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 0.76 N jcn_only_AD CUFF.409 chr15 + chr15:57384090-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57426699-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 21.21 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404134 chr11:118401950-118402492,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402493-118403176 71.43 K intron_retention CUFF.297 chr12 + chr12:58019471-58019780 chr12:58019470-58019471;chr12:58019780-58019781 70.52 N jcn_only_AA CUFF.735 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 24.21 K cassette CUFF.572 chr17 - chr17:40744181-40762554 chr17:40744181-40748550;chr17:40748646-40762554 chr17:40748551-40748645 49.06 N jcn_only_AD chr17 - chr17:79994890-79995506;chr17:79994890-79995325 chr17:79994890-79995489 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 12.84 N jcn_only_AD chr15 - chr15:45460332-45467416 chr15:45460332-45464080 92.35 N cassette CUFF.276 chr12 - chr12:48272899-48293619;chr12:48272899-48298737 chr12:48272899-48276476;chr12:48276558-48293619,chr12:48276558-48298737 chr12:48276477-48276557 7.69 N alternative_acceptor chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 40.00 N alternative_acceptor CUFF.369 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 0.88 N intron_retention CUFF.497 chr16 - chr16:23504780-23505619 chr16:23504779-23504780;chr16:23505619-23505620 75.23 N jcn_only_AA CUFF.883 chr21 + chr21:15680941-15685264 chr21:15680941-15681292 chr21:15681293-15685264 chr21:15685264-15685265 11.76 N alternative_acceptor chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 88.84 N jcn_only_AA CUFF.273 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 83.08 N intron_retention chr17 - chr17:76993412-76993572 chr17:76993411-76993412;chr17:76993572-76993573 56.12 N jcn_only_AD chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 45.00 K alternative_acceptor CUFF.513 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 86.36 N intron_retention chr17 + chr17:35307565-35311097 chr17:35307564-35307565;chr17:35311097-35311098 4.12 N intron_retention chr12 + chr12:52404992-52407470 chr12:52404991-52404992;chr12:52407470-52407471 54.17 N jcn_only_AA chr13 + chr13:21141396-21148518 chr13:21141396-21141808 70.69 N alternative_donor CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22206767-22231146 chr7:22231147-22232984 chr7:22232984-22232985 14.61 K intron_retention CUFF.243 chr11 - chr11:119291159-119291578 chr11:119291158-119291159;chr11:119291578-119291579 32.73 K alternative_acceptor CUFF.251,CUFF.287 chr12 + chr12:53861628-53862563 chr12:53861628-53862560 chr12:53862561-53862563 chr12:53862563-53862564 23.05 N alternative_donor CUFF.287 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 0.51 N alternative_acceptor CUFF.309 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 89.39 N alternative_donor CUFF.597 chr17 + chr17:75543175-75557026 chr17:75556926-75557026 chr17:75543175-75556925 chr17:75543174-75543175 16.67 N jcn_only_AD CUFF.930 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 31.76 N cassette CUFF.127 chr10 + chr10:35468205-35490378;chr10:35468205-35495822 chr10:35468205-35477127;chr10:35477317-35495822,chr10:35477317-35490378 chr10:35477128-35477316 58.37 K alternative_donor CUFF.277 chr12 - chr12:48375613-48375889 chr12:48375613-48375727 chr12:48375728-48375889 chr12:48375889-48375890 88.03 N cassette CUFF.541 chr17 - chr17:15546131-15584178;chr17:15562191-15584178 chr17:15562191-15580489,chr17:15546131-15580489;chr17:15580595-15584178 chr17:15580490-15580594 43.94 N alternative_acceptor CUFF.357 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 0.00 N jcn_only_AA chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 79.31 N alternative_acceptor chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 0.00 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782189-149785821 chr5:149782876-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 1.17 K intron_retention CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043949-178043950;chr5:178045556-178045557 64.37 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 79.55 K intron_retention CUFF.683 chr19 + chr19:18120504-18120591 chr19:18120503-18120504;chr19:18120591-18120592 2.07 K alternative_first_exon CUFF.580 chr17 - chr17:47302494-47304008 chr17:47302494-47303017 chr17:47304009-47304120 chr17:47303018-47303110 8.62 K alternative_acceptor CUFF.870,CUFF.879 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 21.66 K intron_retention CUFF.360 chr14 - chr14:77270256-77270717 chr14:77270255-77270256;chr14:77270717-77270718 73.47 K cassette CUFF.818 chr2 + chr2:171376051-171399415 chr2:171376051-171381014;chr2:171381137-171399415 chr2:171381015-171381136 40.00 N jcn_only_AD CUFF.1271 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 93.06 N alternative_acceptor chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 74.26 N alternative_acceptor CUFF.357 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 2.00 K alternative_last_exon CUFF.350 chr14 + chr14:61518854-61545547;chr14:61518854-61545527 chr14:61518854-61519066 chr14:61545528-61545645 chr14:61519067-61519390 45.04 N alternative_donor CUFF.585 chr17 + chr17:60784969-60813446;chr17:60783831-60813446 chr17:60777141-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 65.22 N jcn_only_AD CUFF.676 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 6.67 N jcn_only_AA chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 90.74 N cassette CUFF.297 chr12 + chr12:58018940-58019192 chr12:58018940-58019018;chr12:58019102-58019192 chr12:58019019-58019101 84.93 N alternative_last_exon CUFF.408 chr15 - chr15:55703354-55724694 chr15:55722978-55724694 chr15:55703307-55703353 chr15:55722517-55722977 39.19 N jcn_only_AA chr3 - chr3:73453547-73651504 chr3:73457412-73651504 chr3:73453547-73457411 chr3:73453546-73453547 51.61 N jcn_only_AA chr19 + chr19:58963072-58964553;chr19:58963072-58963494 chr19:58963072-58965062 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 60.00 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895068 14.04 N jcn_only_AA chr11 + chr11:118402587-118402811;chr11:118402587-118403004 chr11:118402587-118403124 15.59 N alternative_acceptor chr11 - chr11:558980-560682 chr11:559499-560682 chr11:558980-559498 chr11:558979-558980 15.15 K alternative_last_exon CUFF.1065 chr4 - chr4:162402322-162421167 chr4:162416633-162421167 chr4:162402172-162402321 chr4:162416338-162416632 23.53 N alternative_donor CUFF.409 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 0.35 N jcn_only_AD CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 28.71 N alternative_donor CUFF.1238 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 0.00 K cassette CUFF.867 chr20 + chr20:21284112-21307127 chr20:21284112-21306916;chr20:21307045-21307127 chr20:21306917-21307044 52.63 N jcn_only_AA chr6 - chr6:128320050-128322340 chr6:128321476-128322340 chr6:128320050-128321475 chr6:128320049-128320050 46.15 N alternative_donor chr1 - chr1:207990760-207995548 chr1:207990760-207992306 chr1:207992307-207995548 chr1:207995548-207995549 62.50 K intron_retention CUFF.1013 chr4 - chr4:2933193-2933281 chr4:2933192-2933193;chr4:2933281-2933282 4.35 K alternative_first_exon CUFF.1367 chr9 + chr9:133346903-133352257 chr9:133351777-133352257 chr9:133346872-133346902 chr9:133351706-133351776 22.73 N cassette CUFF.509 chr16 - chr16:57509132-57509761 chr16:57509132-57509417;chr16:57509533-57509761 chr16:57509418-57509532 96.84 N alternative_donor CUFF.1237 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 19.05 N cassette CUFF.653 chr19 - chr19:6044294-6110403 chr19:6044294-6047417;chr19:6047516-6110403 chr19:6047418-6047515 93.13 N jcn_only_AD chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 55.80 N intron_retention CUFF.1088 chr5 + chr5:54456225-54456879 chr5:54456224-54456225;chr5:54456879-54456880 69.23 K intron_retention CUFF.917 chr22 + chr22:37707569-37708060 chr22:37707568-37707569;chr22:37708060-37708061 1.58 K intron_retention CUFF.189 chr11 - chr11:6640147-6640426 chr11:6640146-6640147;chr11:6640426-6640427 34.92 N cassette CUFF.504 chr16 + chr16:31383106-31383917 chr16:31383106-31383698;chr16:31383831-31383917 chr16:31383699-31383830 96.00 N mutually_exclusive CUFF.991 chr3 - chr3:141697525-141724282,chr3:141724387-141811902 chr3:141697525-141713861,chr3:141713984-141811902 chr3:141724283-141724386 chr3:141713862-141713983 7.64 N cassette CUFF.1296 chr8 - chr8:80956444-80963761;chr8:80954904-80963761;chr8:80954904-80963486 chr8:80954904-80962679,chr8:80956444-80962679;chr8:80962707-80963486,chr8:80962707-80963761 chr8:80962680-80962706 77.96 N alternative_acceptor chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74624740-74630577 chr11:74630577-74630578 9.52 N jcn_only_AD CUFF.1121,CUFF.1125 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 11.34 N jcn_only_AD CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 92.86 K alternative_first_exon CUFF.1208,CUFF.1248 chr7 - chr7:117432836-117450818 chr7:117432836-117433466 chr7:117450819-117451043 chr7:117433467-117433563 15.09 N alternative_donor CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 6.12 K intron_retention CUFF.294 chr12 - chr12:56709027-56709690 chr12:56709026-56709027;chr12:56709690-56709691 41.71 K coord_cassette CUFF.249 chr12 - chr12:347177-369016 chr12:347177-347336;chr12:347510-351779;chr12:351921-352844;chr12:352980-369016 chr12:347337-347509;chr12:351780-351920;chr12:352845-352979 82.56 K intron_retention CUFF.680 chr19 + chr19:17449065-17449173 chr19:17449064-17449065;chr19:17449173-17449174 15.29 N jcn_only_AA CUFF.1341 chr9 - chr9:86506417-86514575 chr9:86513864-86514575 chr9:86506417-86513863 chr9:86506416-86506417 20.45 N jcn_only_AA CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 1.04 K jcn_only_AA CUFF.171 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 71.43 K intron_retention CUFF.1222 chr7 + chr7:73106977-73111934 chr7:73106976-73106977;chr7:73111934-73111935 63.37 K intron_retention CUFF.175 chr11 + chr11:830133-830249 chr11:830132-830133;chr11:830249-830250 5.43 N alternative_acceptor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813677 chr15:24811948-24813038 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 23.08 K coord_cassette CUFF.1075 chr5 - chr5:37309370-37314299 chr5:37309370-37309505;chr5:37309675-37310653;chr5:37310846-37314299 chr5:37309506-37309674;chr5:37310654-37310845 29.27 N alternative_donor CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 11.50 N jcn_only_AA CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 33.62 N jcn_only_AD CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 16.88 N alternative_donor CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 3.70 N alternative_acceptor CUFF.279 chr12 - chr12:49350319-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49335361-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 5.26 K jcn_only_AA CUFF.987 chr3 - chr3:127299007-127309725 chr3:127309436-127309725 8.33 K intron_retention CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939947-1939948;chr17:1940128-1940129 68.09 K coord_cassette CUFF.8 chr1 + chr1:10491459-10500403 chr1:10491459-10493898;chr1:10494023-10494713;chr1:10494748-10500403 chr1:10493899-10494022;chr1:10494714-10494747 54.41 K intron_retention CUFF.1362 chr9 - chr9:130941184-130941522 chr9:130941183-130941184;chr9:130941522-130941523 91.88 N intron_retention chr7 + chr7:75042211-75044162 chr7:75042210-75042211;chr7:75044162-75044163 55.36 K intron_retention CUFF.1226 chr7 + chr7:75045057-75045258 chr7:75045056-75045057;chr7:75045258-75045259 41.05 N cassette CUFF.1054 chr4 + chr4:120376289-120381337 chr4:120376289-120379125;chr4:120379326-120381337 chr4:120379126-120379325 53.68 N alternative_donor CUFF.547 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380580-17388747 chr17:17380579-17380580 37.50 N alternative_donor CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 53.35 K intron_retention CUFF.1262 chr7 - chr7:156472001-156473136 chr7:156472000-156472001;chr7:156473136-156473137 69.70 K intron_retention CUFF.1123 chr5 + chr5:177631742-177631815 chr5:177631741-177631742;chr5:177631815-177631816 21.33 K alternative_acceptor CUFF.1362 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 54.12 N jcn_only_AA CUFF.642 chr18 - chr18:67614769-67623990;chr18:67614670-67623990 chr18:67563282-67623990 52.27 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61764153 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 4.81 K alternative_first_exon CUFF.116 chr10 + chr10:6186977-6255585;chr10:6245300-6255585 chr10:6188460-6255585 chr10:6186814-6186976;chr10:6244810-6245299 chr10:6188258-6188459 6.33 N alternative_acceptor chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 0.00 N alternative_donor chr12 - chr12:133181171-133181291 chr12:133181171-133181286 chr12:133181287-133181291 chr12:133181291-133181292 97.47 K alternative_first_exon CUFF.193,CUFF.226 chr11 - chr11:10828929-10829080,chr11:10828929-10829291;chr11:10828929-10829720 chr11:10828929-10829095 chr11:10829721-10829789 chr11:10829096-10829520 43.61 N jcn_only_AD CUFF.1378 chrX - chrX:46382561-46387784 chrX:46382561-46387769 chrX:46387770-46387784 chrX:46387784-46387785 68.75 N cassette CUFF.553 chr17 + chr17:25969375-25972886;chr17:25970647-25972886 chr17:25969375-25972339,chr17:25970647-25972339;chr17:25972376-25972886 chr17:25972340-25972375 79.79 K cassette CUFF.722 chr19 - chr19:51483744-51485582 chr19:51483744-51485022;chr19:51485171-51485582 chr19:51485023-51485170 49.61 K alternative_acceptor CUFF.1006 chr3 - chr3:194063432-194071970 chr3:194063435-194071970 chr3:194063432-194063434 chr3:194063431-194063432 7.69 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93677354 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 16.56 N cassette CUFF.967 chr3 - chr3:107586273-107596159;chr3:107591874-107596748 chr3:107586273-107594976,chr3:107591874-107594976;chr3:107595034-107596159,chr3:107595034-107596748 chr3:107594977-107595033 65.29 N alternative_donor CUFF.407 chr15 + chr15:55700985-55710420 chr15:55709958-55710420 chr15:55700985-55709957 chr15:55700984-55700985 16.67 N alternative_first_exon CUFF.295 chr12 + chr12:57853985-57857447 chr12:57854339-57857447 chr12:57853918-57853984 chr12:57854182-57854338 83.67 N alternative_donor CUFF.1032 chr4 + chr4:37839236-37841469 chr4:37841306-37841469 chr4:37839236-37841305 chr4:37839235-37839236 63.64 K alternative_last_exon CUFF.405 chr15 - chr15:50793249-50821993;chr15:50793035-50821993 chr15:50805710-50821993 chr15:50793102-50793248;chr15:50792759-50793034 chr15:50805621-50805709 19.05 K cassette CUFF.678 chr19 - chr19:16596069-16606561 chr19:16596069-16601177;chr19:16601382-16606561 chr19:16601178-16601381 chr19:16595974-16596068;chr19:16606562-16606562 53.49 N jcn_only_AA CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616190-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 28.51 K jcn_only_AA CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938603-31938688 chr6:31938530-31938602 chr6:31938529-31938530 26.87 N jcn_only_AA CUFF.851 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 51.59 K intron_retention CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305398-50305399;chr19:50306205-50306206 25.00 K cassette CUFF.824 chr2 - chr2:175689247-175742567 chr2:175689247-175711607;chr2:175711686-175742567 chr2:175711608-175711685 51.60 N intron_retention chr14 + chr14:61518854-61545547 chr14:61518853-61518854;chr14:61545547-61545548 72.73 K alternative_first_exon CUFF.223 chr11 - chr11:94705358-94706661,chr11:94705358-94706452 chr11:94705358-94706436 chr11:94706662-94706776 chr11:94706437-94706441 26.27 K intron_retention CUFF.1241 chr7 + chr7:107220747-107221203 chr7:107220746-107220747;chr7:107221203-107221204 7.28 K alternative_first_exon CUFF.1384 chrX + chrX:15693696-15706783;chrX:15699171-15706783,chrX:15699311-15706783;chrX:15693902-15706783 chrX:15693092-15706783 chrX:15699124-15699170;chrX:15693813-15693901 chrX:15692965-15693091 32.54 N alternative_acceptor CUFF.1142 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 11.04 N jcn_only_AD CUFF.339 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 47.22 K intron_retention chr17 - chr17:1616350-1616996 chr17:1616349-1616350;chr17:1616996-1616997 32.29 K intron_retention CUFF.439 chr15 + chr15:78080488-78080722 chr15:78080487-78080488;chr15:78080722-78080723 72.88 N intron_retention chr2 - chr2:263763-264781 chr2:263762-263763;chr2:264781-264782 56.76 K jcn_only_AD CUFF.493 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 8.13 K jcn_only_AA CUFF.1380 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 69.23 K cassette CUFF.1248 chr7 - chr7:117385985-117396608 chr7:117385985-117386066;chr7:117386154-117396608 chr7:117386067-117386153 12.80 N cassette CUFF.480 chr16 + chr16:4526489-4556895 chr16:4526489-4555484;chr16:4555612-4556895 chr16:4555485-4555611 91.76 N jcn_only_AA CUFF.162 chr10 - chr10:119774622-119798482 chr10:119793553-119798482 chr10:119774622-119793552 chr10:119774621-119774622 61.90 K cassette CUFF.599 chr17 - chr17:76994046-76996181;chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181,chr17:76994369-77005745 chr17:76994230-76994368 21.90 N alternative_first_exon CUFF.631 chr18 + chr18:55711941-56057877 chr18:56056425-56057877 chr18:55711599-55711940 chr18:56056317-56056424 81.59 K alternative_acceptor CUFF.907 chr22 - chr22:25124342-25130050 chr22:25124369-25130050 chr22:25124342-25124368 chr22:25124341-25124342 14.29 K alternative_first_exon CUFF.114 chr10 + chr10:5120170-5138601,chr10:5123094-5138601,chr10:5124078-5138601;chr10:5077809-5138601 chr10:5136721-5138601 chr10:5077546-5077808 chr10:5136549-5136720 27.44 N alternative_donor CUFF.736 chr2 - chr2:263373-263563;chr2:263373-264781 chr2:263373-264083 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 2.95 N alternative_acceptor chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 92.71 K intron_retention CUFF.239 chr11 + chr11:119058410-119058648 chr11:119058409-119058410;chr11:119058648-119058649 chr11:119058273-119058409;chr11:119058649-119058853 4.05 N jcn_only_AD CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111161506-111172573 chr7:111172574-111201906 chr7:111201906-111201907 14.16 K jcn_only_AD CUFF.1111 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 83.01 K jcn_only_AD CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915386-104915917 chr11:104915918-104916017 chr11:104916017-104916018 67.86 K alternative_acceptor CUFF.1131 chr6 - chr6:3155158-3155858 chr6:3155290-3155858 chr6:3155158-3155289 chr6:3155157-3155158 92.04 N jcn_only_AD CUFF.251 chr12 + chr12:1742072-1754959;chr12:1754228-1754959 chr12:1749143-1754959 61.54 N alternative_donor CUFF.1146 chr6 + chr6:32122172-32122363;chr6:32122182-32122363 chr6:32122024-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 8.09 K jcn_only_AA CUFF.116 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 0.59 N alternative_acceptor chr8 + chr8:17491723-17501079 chr8:17491723-17500121 chr8:17500122-17501079 chr8:17501079-17501080 96.42 K intron_retention CUFF.361 chr14 + chr14:77935329-77935419 chr14:77935328-77935329;chr14:77935419-77935420 61.90 N jcn_only_AD CUFF.308,CUFF.309 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 8.11 K intron_retention CUFF.1127 chr6 + chr6:348275-348768 chr6:348274-348275;chr6:348768-348769 67.88 N alternative_donor CUFF.462 chr16 + chr16:105883-106538 chr16:106421-106538 chr16:105883-106420 chr16:105882-105883 chr16:106539-106613;chr16:105794-105882 6.90 K cassette CUFF.350 chr14 + chr14:61497242-61503776 chr14:61497242-61500736;chr14:61500832-61503776 chr14:61500737-61500831 22.19 N jcn_only_AA chr15 - chr15:84871760-84873177 chr15:84871773-84873177 chr15:84871760-84871772 chr15:84871759-84871760 58.62 K intron_retention CUFF.605 chr17 - chr17:79916872-79917346 chr17:79916871-79916872;chr17:79917346-79917347 38.10 N jcn_only_AD CUFF.951,CUFF.995 chr3 - chr3:156262229-156266693;chr3:156262229-156266654 chr3:156262229-156266593 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 2.87 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895133 9.57 N cassette CUFF.42 chr1 + chr1:70820791-70832126;chr1:70820892-70832126 chr1:70820791-70831828,chr1:70820892-70831828;chr1:70832012-70832126 chr1:70831829-70832011 33.43 N mutually_exclusive CUFF.1237 chr7 - chr7:102240836-102246304,chr7:102246435-102249207 chr7:102240836-102242770,chr7:102242853-102249207 chr7:102246305-102246434 chr7:102242771-102242852 71.43 K cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007365-4007505 chr2:4007154-4007364 91.57 N intron_retention chr2 - chr2:242441124-242447919 chr2:242441123-242441124;chr2:242447919-242447920 47.16 N alternative_acceptor CUFF.48 chr1 - chr1:103975719-104068017 chr1:104012013-104068017 chr1:103975719-104012012 chr1:103975718-103975719 0.00 K intron_retention CUFF.1060 chr4 - chr4:142244773-142245955 chr4:142244772-142244773;chr4:142245955-142245956 55.56 K intron_retention CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438427-1438428;chr19:1438805-1438806 40.27 N intron_retention chr4 - chr4:152065203-152065371 chr4:152065202-152065203;chr4:152065371-152065372 57.14 K intron_retention CUFF.512 chr16 - chr16:67218714-67218804 chr16:67218713-67218714;chr16:67218804-67218805 68.23 K alternative_donor CUFF.724 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 71.12 N cassette CUFF.541 chr17 - chr17:15584268-15586349;chr17:15584537-15586349 chr17:15584537-15586167,chr17:15584268-15586167;chr17:15586266-15586349 chr17:15586168-15586265 44.93 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 10.23 N alternative_donor CUFF.1121 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 14.38 K cassette CUFF.1045 chr4 + chr4:81115394-81117505 chr4:81115394-81117166;chr4:81117279-81117505 chr4:81117167-81117278 41.96 N jcn_only_AD chr14 - chr14:81893557-81902664 chr14:81893557-81902431 chr14:81893446-81893556 50.00 N cassette CUFF.37 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370338;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370339-54370482 46.20 K jcn_only_AD CUFF.208 chr11 + chr11:63999437-64001365 chr11:64000338-64001365 chr11:64001366-64001758 79.92 N jcn_only_AD CUFF.269 chr12 + chr12:21229504-21279041;chr12:21272562-21279041 chr12:21242864-21279041 38.95 K jcn_only_AD CUFF.630 chr18 - chr18:47329224-47340051 chr18:47329224-47339838 chr18:47339839-47340051 chr18:47340051-47340052 11.39 K alternative_acceptor CUFF.177 chr11 - chr11:2188716-2189095 chr11:2188747-2189095 chr11:2188716-2188746 chr11:2188715-2188716 7.21 N jcn_only_AD CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 61.34 K alternative_first_exon CUFF.328,CUFF.329 chr13 - chr13:101132618-101133373 chr13:101132618-101133233 chr13:101133374-101133452 chr13:101133234-101133277 50.00 N alternative_donor CUFF.354 chr14 - chr14:71205116-71206758 chr14:71205116-71206614 chr14:71206615-71206758 chr14:71206758-71206759 9.68 N jcn_only_AD CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 74.32 N alternative_acceptor chr17 + chr17:61905284-61905497 chr17:61905284-61905478 chr17:61905479-61905497 chr17:61905497-61905498 chr17:61905498-61905569 12.82 N jcn_only_AA CUFF.930 chr3 + chr3:19992554-20017134;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017092 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 56.11 N cassette CUFF.24 chr1 - chr1:28555535-28559431 chr1:28555535-28556641;chr1:28556764-28559431 chr1:28556642-28556763 49.15 N cassette CUFF.177 chr11 - chr11:2191102-2192914;chr11:2191102-2192926 chr11:2191102-2191919;chr11:2192001-2192914,chr11:2192001-2192926 chr11:2191920-2192000 22.73 N alternative_acceptor CUFF.512 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 2.29 K alternative_acceptor CUFF.357 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 32.26 N jcn_only_AA CUFF.580 chr17 - chr17:47303140-47304008;chr17:47302494-47304008 chr17:47302367-47304008 chr17:47302367-47302493;chr17:47302494-47303139 chr17:47302366-47302367;chr17:47302493-47302494 47.26 K alternative_acceptor CUFF.1174 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 60.38 K intron_retention CUFF.210 chr11 + chr11:65480069-65480236 chr11:65480068-65480069;chr11:65480236-65480237 14.04 K alternative_acceptor CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 92.89 K alternative_donor CUFF.803 chr2 + chr2:133070569-133074681 chr2:133070573-133074681 chr2:133070569-133070572 chr2:133070568-133070569 40.00 N alternative_donor CUFF.788 chr2 - chr2:110920713-110922264 chr2:110920713-110922096 chr2:110922097-110922264 chr2:110922264-110922265 82.76 K jcn_only_AD CUFF.647 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 45.53 N cassette CUFF.473 chr16 + chr16:3115496-3117377 chr16:3115496-3115781;chr16:3115828-3117377 chr16:3115782-3115827 chr16:3115230-3115495;chr16:3117378-3117886 92.38 K intron_retention CUFF.1013 chr4 - chr4:2933391-2933551 chr4:2933390-2933391;chr4:2933551-2933552 9.92 N jcn_only_AD CUFF.269 chr12 + chr12:21242864-21279041;chr12:21272562-21279041 chr12:21229504-21279041 28.42 N intron_retention chr19 + chr19:17449381-17449989 chr19:17449380-17449381;chr19:17449989-17449990 83.19 N cassette CUFF.182 chr11 + chr11:3423960-3424822 chr11:3423960-3424144;chr11:3424187-3424822 chr11:3424145-3424186 45.83 K cassette CUFF.911 chr22 + chr22:29674206-29682911 chr22:29674206-29678378;chr22:29678547-29682911 chr22:29678379-29678546 78.05 N intron_retention chr19 + chr19:1438892-1439959 chr19:1438891-1438892;chr19:1439959-1439960 77.50 N alternative_donor CUFF.382 chr15 + chr15:24811948-24814929;chr15:24813711-24814929 chr15:24813330-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 5.26 K jcn_only_AD CUFF.777 chr2 - chr2:69870407-69870923 chr2:69870407-69870706 chr2:69870707-69870923 chr2:69870923-69870924 78.38 N alternative_donor CUFF.294,CUFF.307 chr12 - chr12:113618864-113623082 chr12:113618864-113621527 chr12:113621528-113623082 chr12:113623082-113623083 7.32 N alternative_donor chr16 - chr16:57513598-57513772;chr16:57513598-57513756 chr16:57513598-57517869 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 95.67 N coord_cassette CUFF.114 chr10 + chr10:5138770-5141518 chr10:5138770-5139625;chr10:5139743-5140993;chr10:5141072-5141518 chr10:5139626-5139742;chr10:5140994-5141071 90.43 K jcn_only_AA CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305399-50305790 65.71 N alternative_acceptor CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 15.23 N jcn_only_AA CUFF.769 chr2 - chr2:61761039-61764696 chr2:61761814-61764696 chr2:61761039-61761813 chr2:61761038-61761039 46.15 N coord_cassette CUFF.299 chr12 + chr12:69207409-69222550 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218143-69218210;chr12:69218335-69218431 43.04 K intron_retention CUFF.75 chr1 - chr1:158584097-158585005 chr1:158584096-158584097;chr1:158585005-158585006 16.00 K cassette CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150831656-150837065;chr7:150837204-150838984 chr7:150837066-150837203 20.00 K jcn_only_AD CUFF.458 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 50.98 N intron_retention chr7 - chr7:107572939-107575859 chr7:107572938-107572939;chr7:107575859-107575860 19.57 N intron_retention chr14 - chr14:75152364-75179635 chr14:75152363-75152364;chr14:75179635-75179636 35.71 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 25.00 N alternative_donor CUFF.1421 chrX + chrX:148863659-148867663;chrX:148863691-148867663 chrX:148867506-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 1.09 N jcn_only_AA CUFF.967 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 31.82 N jcn_only_AA CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37283997-37298785 chr7:37272800-37283996 chr7:37272799-37272800 39.02 K jcn_only_AD CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420383-19420787 chr22:19420131-19420382 chr22:19420130-19420131 26.80 N alternative_donor CUFF.631 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 75.00 N intron_retention chr2 - chr2:177042550-177042742 chr2:177042549-177042550;chr2:177042742-177042743 83.54 K cassette CUFF.1175 chr6 - chr6:128718834-128841403 chr6:128718834-128730438;chr6:128730478-128841403 chr6:128730439-128730477 57.31 N jcn_only_AD CUFF.777,CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881641-110882795 chr2:110882796-110883213 chr2:110883213-110883214 6.21 N alternative_acceptor CUFF.991 chr3 - chr3:141693034-141697361 chr3:141693037-141697361 chr3:141693034-141693036 chr3:141693033-141693034 5.48 K alternative_first_exon CUFF.951,CUFF.995 chr3 - chr3:49373030-49377916 chr3:49373030-49377356 chr3:49377917-49378190 chr3:49377357-49377561 66.67 N alternative_donor chr8 - chr8:22012977-22014508 chr8:22012977-22013849 chr8:22013850-22014508 chr8:22014508-22014509 52.73 N cassette CUFF.235 chr11 + chr11:118403177-118404571;chr11:118403177-118404134 chr11:118403177-118403631;chr11:118403923-118404571,chr11:118403923-118404134 chr11:118403632-118403922 46.82 K jcn_only_AD CUFF.1093,CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 52.31 K intron_retention CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020291-51020292;chr22:51020677-51020678 16.09 N jcn_only_AD CUFF.911 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 51.32 K cassette CUFF.635 chr18 - chr18:61064487-61067280 chr18:61064487-61066474;chr18:61066557-61067280 chr18:61066475-61066556 49.32 K jcn_only_AD CUFF.678 chr19 - chr19:16593597-16594740 chr19:16593597-16594572 chr19:16594573-16594740 chr19:16594740-16594741 chr19:16593489-16593596;chr19:16594741-16594926 53.73 N jcn_only_AA CUFF.428 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 96.56 N jcn_only_AD chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 42.86 N intron_retention chr17 + chr17:35378314-35413900 chr17:35378313-35378314;chr17:35413900-35413901 91.04 N alternative_donor CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569501-53570801 chrX:53570802-53570846 chrX:53570846-53570847 9.97 K alternative_last_exon CUFF.8 chr1 + chr1:10500471-10511433 chr1:10500471-10502321 chr1:10511434-10512212 chr1:10502322-10502864 56.76 N alternative_acceptor CUFF.971 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 0.80 N jcn_only_AA CUFF.406 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 25.42 K alternative_donor CUFF.513 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 85.51 K intron_retention CUFF.846 chr2 + chr2:220099011-220099547 chr2:220099010-220099011;chr2:220099547-220099548 75.98 N jcn_only_AA CUFF.796 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 25.58 N jcn_only_AD chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 24.78 K intron_retention CUFF.183 chr11 - chr11:5687312-5699433 chr11:5687311-5687312;chr11:5699433-5699434 3.97 N jcn_only_AD chr14 - chr14:104263856-104313344;chr14:104263856-104313635;chr14:104263856-104306415 chr14:104263856-104313111 3.57 N alternative_acceptor CUFF.148 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 8.70 N mutually_exclusive CUFF.967 chr3 - chr3:107576050-107591814,chr3:107591874-107594976 chr3:107576050-107586157,chr3:107586273-107594976 chr3:107591815-107591873 chr3:107586158-107586272 25.81 K alternative_acceptor CUFF.1146 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 96.35 N alternative_donor CUFF.1054 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 83.33 K cassette CUFF.472 chr16 + chr16:2653729-2663960 chr16:2653729-2660462;chr16:2661054-2663960 chr16:2660463-2661053 8.56 N alternative_acceptor CUFF.406 chr15 - chr15:55485032-55486493 chr15:55486382-55486493 chr15:55485032-55486381 chr15:55485031-55485032 3.30 N intron_retention chr22 + chr22:50920193-50920265 chr22:50920192-50920193;chr22:50920265-50920266 9.70 K cassette CUFF.1353 chr9 + chr9:116770835-116778974 chr9:116770835-116778392;chr9:116778453-116778974 chr9:116778393-116778452 94.84 K coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483599-44497284 chr18:44473394-44473494;chr18:44483490-44483598 52.36 K cassette CUFF.974 chr3 - chr3:119246689-119263396 chr3:119246689-119255983;chr3:119256266-119263396 chr3:119255984-119256265 74.55 N alternative_acceptor chr11 + chr11:36398255-36400930;chr11:36398255-36415395 chr11:36398255-36422546 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 81.13 N intron_retention chr6 + chr6:348842-350821 chr6:348841-348842;chr6:350821-350822 72.34 K intron_retention CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555535-123555536;chr9:123555637-123555638 69.77 K intron_retention CUFF.214 chr11 + chr11:67788996-67795518 chr11:67788995-67788996;chr11:67795518-67795519 45.16 N mutually_exclusive CUFF.983 chr3 - chr3:125745323-125769740,chr3:125769894-125786789 chr3:125745323-125752449,chr3:125752522-125786789 chr3:125769741-125769893 chr3:125752450-125752521 36.73 N alternative_donor CUFF.896 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 2.19 K intron_retention CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744589-139744590;chr9:139744957-139744958 10.64 N alternative_first_exon chr1 - chr1:153927643-153930536;chr1:153927643-153930820 chr1:153927643-153930621 chr1:153930821-153931091 chr1:153930622-153930724 28.93 N alternative_donor CUFF.1088 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 23.46 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125797816;chr3:125787090-125802935;chr3:125787090-125820271 chr3:125787090-125802896 chr3:125797817-125797906;chr3:125802936-125803107;chr3:125820272-125820503 chr3:125802897-125802924 4.68 N jcn_only_AD CUFF.460 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 22.00 K jcn_only_AA CUFF.990 chr3 - chr3:133794058-133894452 chr3:133878218-133894452 75.31 N alternative_donor CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 60.00 K jcn_only_AD CUFF.236 chr11 - chr11:118532439-118533496 chr11:118532439-118532598 66.41 N alternative_donor CUFF.1333 chr9 + chr9:43915898-43920248 chr9:43915980-43920248 chr9:43915898-43915979 chr9:43915897-43915898 55.17 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813043;chr15:24811948-24813038 chr15:24811948-24813677 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 12.86 K cassette CUFF.1383 chrX - chrX:15343275-15349711 chrX:15343275-15344035;chrX:15344169-15349711 chrX:15344036-15344168 54.73 N alternative_donor CUFF.681 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 0.00 N jcn_only_AD CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 24.85 K intron_retention CUFF.1331 chr9 - chr9:35079239-35079437 chr9:35079238-35079239;chr9:35079437-35079438 12.00 N alternative_donor CUFF.270 chr12 - chr12:22610096-22611417;chr12:22610096-22622642 chr12:22610096-22612425 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 0.00 N coord_cassette CUFF.295 chr12 + chr12:57853985-57858455 chr12:57853985-57857447;chr12:57857575-57857781;chr12:57857875-57858455 chr12:57857448-57857574;chr12:57857782-57857874 54.29 N cassette CUFF.473 chr16 + chr16:3115496-3117377 chr16:3115496-3115784;chr16:3115828-3117377 chr16:3115785-3115827 chr16:3115230-3115495;chr16:3117378-3117886 92.22 N alternative_acceptor CUFF.148 chr10 - chr10:78778858-78787580 chr10:78782695-78787580 chr10:78778858-78782694 chr10:78778857-78778858 0.00 N alternative_donor CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 37.50 N alternative_acceptor CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891076-77891574 chr18:77891575-77893494 chr18:77893494-77893495 1.65 N alternative_donor chr18 + chr18:61377596-61390228 chr18:61388221-61390228 chr18:61377596-61388220 chr18:61377595-61377596 15.38 N jcn_only_AA CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 22.22 N alternative_acceptor CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107207632-107208199 chr7:107208200-107211589 chr7:107211589-107211590 4.00 N jcn_only_AD CUFF.174,CUFF.193 chr11 - chr11:558980-559968;chr11:558980-560682 chr11:558980-559346 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 5.60 N cassette CUFF.496 chr16 + chr16:22448814-22466022 chr16:22448814-22462940;chr16:22462980-22466022 chr16:22462941-22462979 98.47 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36398255-36415395 chr11:36322621-36415395 13.57 K jcn_only_AD CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764362-44768466 chr19:44764092-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 16.50 N alternative_acceptor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 6.49 N alternative_acceptor CUFF.600 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 77.25 N jcn_only_AD chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 39.66 N jcn_only_AD chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 chr6:112557980-112558117 41.94 N alternative_acceptor CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 6.54 N jcn_only_AA CUFF.65 chr1 - chr1:153925846-153930820 chr1:153927643-153930820 65.00 K intron_retention CUFF.1090 chr5 - chr5:54566316-54566405 chr5:54566315-54566316;chr5:54566405-54566406 36.67 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 46.30 K jcn_only_AD CUFF.860 chr20 + chr20:2842351-2843710 chr20:2843581-2843710 68.29 N alternative_acceptor CUFF.684 chr19 - chr19:20236319-20243269 chr19:20236593-20243269 chr19:20236319-20236592 chr19:20236318-20236319 70.00 K cassette CUFF.1162 chr6 + chr6:88058625-88066018 chr6:88058625-88060111;chr6:88060220-88066018 chr6:88060112-88060219 5.40 N intron_retention CUFF.235 chr11 + chr11:118403177-118404134 chr11:118403176-118403177;chr11:118404134-118404135 28.57 K intron_retention CUFF.1241 chr7 + chr7:107220812-107221203 chr7:107220811-107220812;chr7:107221203-107221204 62.07 N jcn_only_AA CUFF.676 chr19 + chr19:16186983-16197232 chr19:16186983-16192722 57.97 N cassette CUFF.736 chr2 - chr2:242872-247537;chr2:234273-247537 chr2:242872-243502,chr2:234273-243502;chr2:243563-247537 chr2:243503-243562 37.67 N jcn_only_AD CUFF.198 chr11 + chr11:36371616-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36317989-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 51.46 K intron_retention CUFF.33 chr1 - chr1:41486451-41486535 chr1:41486450-41486451;chr1:41486535-41486536 33.73 K alternative_last_exon CUFF.1082,CUFF.1083 chr5 + chr5:52177854-52183646 chr5:52177854-52178711 chr5:52183647-52183797 chr5:52178712-52178757 66.67 N cassette CUFF.988 chr3 + chr3:132764865-132948109 chr3:132764865-132793158;chr3:132793203-132948109 chr3:132793159-132793202 20.00 N alternative_donor CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 88.24 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 9.63 N jcn_only_AD CUFF.798 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 5.24 N cassette CUFF.680 chr19 + chr19:17445932-17448816 chr19:17445932-17447628;chr19:17447844-17448816 chr19:17447629-17447843 72.06 N cassette CUFF.1282 chr8 - chr8:56668971-56685827 chr8:56668971-56676494;chr8:56676540-56685827 chr8:56676495-56676539 84.88 N jcn_only_AD CUFF.585 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 29.70 N cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-311879;chr6:311915-345853 chr6:311880-311914 38.12 K cassette CUFF.42 chr1 + chr1:70832221-70833299 chr1:70832221-70832615;chr1:70832668-70833299 chr1:70832616-70832667 42.02 N intron_retention chr1 + chr1:155181338-155181917 chr1:155181337-155181338;chr1:155181917-155181918 17.24 N jcn_only_AD CUFF.437 chr15 + chr15:77713347-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713080-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 10.19 K intron_retention CUFF.925 chr22 - chr22:51020787-51020986 chr22:51020786-51020787;chr22:51020986-51020987 75.68 N alternative_donor CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 34.62 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 39.93 N jcn_only_AD CUFF.406 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 18.57 N alternative_donor CUFF.766 chr2 + chr2:48757128-48807725 chr2:48796226-48807725 chr2:48757128-48796225 chr2:48757127-48757128 0.00 N alternative_donor CUFF.796 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 0.00 K alternative_donor CUFF.171 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 13.46 N jcn_only_AD chr22 - chr22:30738869-30748939 chr22:30738869-30740921 67.65 N jcn_only_AD chr4 - chr4:152080505-152095821 chr4:152080505-152086740 62.50 K intron_retention CUFF.695 chr19 - chr19:39924059-39924157 chr19:39924058-39924059;chr19:39924157-39924158 55.10 N alternative_acceptor CUFF.1097 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 65.54 N jcn_only_AD CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 26.36 N alternative_acceptor CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 34.62 N jcn_only_AD CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901158-52901619 chr19:52901154-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 37.08 N alternative_acceptor chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 31.03 N alternative_acceptor CUFF.31 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 6.90 K intron_retention CUFF.856 chr2 - chr2:242440263-242440892 chr2:242440262-242440263;chr2:242440892-242440893 56.67 N jcn_only_AA chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 90.72 K intron_retention CUFF.1117 chr5 - chr5:141052701-141052967 chr5:141052700-141052701;chr5:141052967-141052968 22.41 N jcn_only_AD CUFF.165 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 17.54 N jcn_only_AD chr11 - chr11:558980-559346;chr11:558980-560682 chr11:558980-559968 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 72.00 K cassette CUFF.967 chr3 - chr3:107576050-107586157 chr3:107576050-107585498;chr3:107585601-107586157 chr3:107585499-107585600 9.27 K alternative_donor CUFF.649 chr19 + chr19:1438428-1438805 chr19:1438580-1438805 chr19:1438428-1438579 chr19:1438427-1438428 49.71 N jcn_only_AD chr11 - chr11:67771269-67772276 chr11:67771269-67771417 chr11:67771418-67772276 chr11:67772276-67772277 94.72 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782189-149785821 chr5:149782876-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 0.54 N alternative_acceptor CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 46.46 N jcn_only_AA CUFF.1146,CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90337416-90337965 chr6:90337966-90338830 chr6:90338830-90338831 5.07 K intron_retention CUFF.736 chr2 - chr2:231192-233100 chr2:231191-231192;chr2:233100-233101 9.66 N coord_cassette CUFF.299 chr12 + chr12:69207409-69229608 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69229608 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 8.73 K alternative_first_exon CUFF.630 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47337765 chr18:47329224-47339094 chr18:47340052-47340330;chr18:47337766-47337801 chr18:47339095-47339377 20.38 K intron_retention CUFF.769 chr2 - chr2:61725928-61725999 chr2:61725927-61725928;chr2:61725999-61726000 85.90 N alternative_donor CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125076579 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 0.00 N jcn_only_AD CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 18.52 K alternative_acceptor CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 40.88 K cassette CUFF.78 chr1 - chr1:160991278-161008669 chr1:160991278-160992539;chr1:160992618-161008669 chr1:160992540-160992617 10.53 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619205 chr14:69589078-69619660 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 1.44 N cassette CUFF.1012 chr4 - chr4:1705428-1713856 chr4:1705428-1713600;chr4:1713718-1713856 chr4:1713601-1713717 62.64 K intron_retention CUFF.104 chr1 + chr1:224380221-224380597 chr1:224380220-224380221;chr1:224380597-224380598 69.57 N jcn_only_AA CUFF.607 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 2.65 N cassette CUFF.478 chr16 - chr16:4462432-4466459 chr16:4462432-4463308;chr16:4463406-4466459 chr16:4463309-4463405 72.22 K alternative_last_exon CUFF.862 chr20 - chr20:14308205-14318049 chr20:14309974-14318049 chr20:14303634-14308204 chr20:14309547-14309973 39.52 N jcn_only_AD CUFF.742 chr2 + chr2:1263214-1271136 chr2:1266722-1271136 chr2:1263214-1266721 chr2:1263213-1263214 7.83 N intron_retention chr10 + chr10:35437420-35464780 chr10:35437419-35437420;chr10:35464780-35464781 9.88 N jcn_only_AD chr11 + chr11:36397709-36440804 chr11:36424929-36440804 chr11:36397709-36424928 chr11:36397708-36397709 81.82 N jcn_only_AA CUFF.600 chr17 - chr17:79220859-79225292;chr17:79223894-79225292 chr17:79220862-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 94.62 K intron_retention CUFF.343 chr14 - chr14:52472568-52473254 chr14:52472567-52472568;chr14:52473254-52473255 4.00 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241397535-241398446 chr2:241394438-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241375088-241375501;chr2:241397375-241397534 chr2:241394416-241394437 10.34 N alternative_acceptor CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464 chr6:43483785-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 7.69 N alternative_acceptor CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 26.64 N alternative_acceptor CUFF.466,CUFF.473 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 29.05 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905497 chr17:61904875-61905478 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 11.72 N alternative_acceptor CUFF.851 chr2 + chr2:231951896-232003449 chr2:231951896-231973277 chr2:231973278-232003449 chr2:232003449-232003450 3.17 K intron_retention CUFF.1142 chr6 + chr6:31936867-31937056 chr6:31936866-31936867;chr6:31937056-31937057 13.92 K mutually_exclusive CUFF.37 chr1 + chr1:54360221-54371767,chr1:54371968-54375603 chr1:54360221-54370406,chr1:54370483-54375603 chr1:54371768-54371967 chr1:54370407-54370482 26.17 K alternative_first_exon CUFF.917 chr22 + chr22:37705365-37707028 chr22:37706074-37707028 chr22:37705253-37705364 chr22:37706057-37706073 11.03 N intron_retention chr11 - chr11:119291089-119291578 chr11:119291088-119291089;chr11:119291578-119291579 69.57 N cassette CUFF.1294 chr8 + chr8:75263702-75274118 chr8:75263702-75272371;chr8:75272546-75274118 chr8:75272372-75272545 64.80 K intron_retention CUFF.838 chr2 + chr2:207655411-207656406 chr2:207655410-207655411;chr2:207656406-207656407 48.39 N intron_retention chr2 + chr2:99225475-99226105 chr2:99225474-99225475;chr2:99226105-99226106 58.99 N intron_retention chr7 + chr7:75045049-75045258 chr7:75045048-75045049;chr7:75045258-75045259 36.79 K alternative_donor CUFF.1057 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 77.50 N alternative_acceptor CUFF.1402 chrX - chrX:85219058-85233770 chrX:85226591-85233770 chrX:85219058-85226590 chrX:85219057-85219058 83.33 N alternative_acceptor CUFF.294 chr12 - chr12:56705180-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56706670-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 8.82 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 18.92 K alternative_first_exon CUFF.1389 chrX + chrX:45042590-45184352 chrX:45182893-45184352 chrX:45042496-45042589 chrX:45182792-45182892 63.49 N jcn_only_AA CUFF.1333,CUFF.1363 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 76.47 N intron_retention chr14 + chr14:77934528-77935419 chr14:77934527-77934528;chr14:77935419-77935420 79.42 N cassette CUFF.315 chr13 + chr13:21230570-21237636 chr13:21230570-21237401;chr13:21237526-21237636 chr13:21237402-21237525 69.75 K intron_retention CUFF.361 chr14 + chr14:77924326-77925958 chr14:77924325-77924326;chr14:77925958-77925959 27.40 N alternative_acceptor CUFF.1171 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 1.84 K alternative_first_exon CUFF.951 chr3 - chr3:49349088-49351303;chr3:49349088-49362134 chr3:49349088-49355741 chr3:49362135-49362196 chr3:49355742-49356217 56.41 N alternative_acceptor CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483785-43484464 chr6:43483926-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 39.01 N alternative_acceptor CUFF.1073,CUFF.1118 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 chr5:145664185-145694458 chr5:145694458-145694459 0.83 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939459-31939705 14.07 K jcn_only_AA CUFF.1268 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 68.33 N intron_retention CUFF.1171 chr6 - chr6:114281183-114291643 chr6:114281182-114281183;chr6:114291643-114291644 47.62 N jcn_only_AD CUFF.1238 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 4.74 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208031480;chr2:208030431-208030636 chr2:208030431-208031717 chr2:208031481-208031566;chr2:208030637-208030715 chr2:208031718-208032063 72.73 K jcn_only_AA CUFF.357 chr14 + chr14:76241974-76243089 chr14:76241974-76243047 chr14:76243048-76243089 chr14:76243089-76243090 50.00 N jcn_only_AD CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 19.70 K alternative_first_exon CUFF.1106 chr5 + chr5:131630703-131647853 chr5:131631315-131647853 chr5:131630136-131630702 chr5:131631098-131631314 42.86 N alternative_acceptor chr15 - chr15:66645294-66678987 chr15:66672279-66678987 chr15:66645294-66672278 chr15:66645293-66645294 0.89 N cassette CUFF.30 chr1 + chr1:32542448-32557275;chr1:32541424-32557275 chr1:32542448-32542764,chr1:32541424-32542764;chr1:32542920-32557275 chr1:32542765-32542919 46.87 N alternative_donor CUFF.1244 chr7 - chr7:110603622-111030626;chr7:110603622-111127293 chr7:110603622-111031893 chr7:111030627-111031893;chr7:111031894-111127293 chr7:111031893-111031894;chr7:111127293-111127294 0.00 N alternative_acceptor CUFF.168 chr10 - chr10:127541212-127548171 chr10:127542773-127548171 chr10:127541212-127542772 chr10:127541211-127541212 25.00 N alternative_acceptor CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106456610-106463785 chr8:106463786-106573590 chr8:106573590-106573591 0.00 K alternative_last_exon CUFF.273 chr12 + chr12:26148064-26208211,chr12:26148064-26208168 chr12:26148064-26173077 chr12:26208212-26208379 chr12:26173078-26173434 32.69 N jcn_only_AD CUFF.902 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 82.86 K intron_retention CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007226-4007227;chr2:4007505-4007506 69.00 K intron_retention chr1 + chr1:155180419-155181917 chr1:155180418-155180419;chr1:155181917-155181918 6.25 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93677354;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 13.38 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54621559;chr7:54617864-54636823,chr7:54617864-54636701 chr7:54617864-54618445 chr7:54621560-54621619;chr7:54636824-54638776 chr7:54618446-54620224 28.64 K intron_retention chr11 + chr11:118402587-118402864 chr11:118402586-118402587;chr11:118402864-118402865 27.89 N alternative_acceptor chr10 + chr10:35484143-35495822 chr10:35484143-35490378 chr10:35490379-35495822 chr10:35495822-35495823 2.78 N cassette CUFF.1208 chr7 - chr7:36917723-36934458 chr7:36917723-36927164;chr7:36927278-36934458 chr7:36927165-36927277 56.12 N alternative_donor CUFF.823 chr2 - chr2:175216454-175243650 chr2:175216454-175234714 chr2:175234715-175243650 chr2:175243650-175243651 5.56 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73975613-73975964 chr10:73973110-73975964 15.74 K cassette CUFF.1238 chr7 - chr7:102669866-102696090 chr7:102669866-102695534;chr7:102695626-102696090 chr7:102695535-102695625 78.00 K cassette CUFF.1091 chr5 + chr5:56472228-56526672 chr5:56472228-56509900;chr5:56510021-56526672 chr5:56509901-56510020 72.73 N intron_retention CUFF.902 chr22 + chr22:20748953-20754921 chr22:20748952-20748953;chr22:20754921-20754922 chr22:20748405-20748952;chr22:20754922-20755048 26.67 K intron_retention CUFF.76 chr1 + chr1:160146353-160147308 chr1:160146352-160146353;chr1:160147308-160147309 79.13 K cassette CUFF.987 chr3 - chr3:127299007-127309252 chr3:127299007-127306912;chr3:127307004-127309252 chr3:127306913-127307003 8.93 N alternative_donor CUFF.896 chr21 - chr21:47556409-47556892;chr21:47556409-47556828 chr21:47556409-47556898 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 48.91 N alternative_acceptor CUFF.601 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 1.13 N coord_cassette CUFF.710 chr19 - chr19:49303555-49314240 chr19:49303555-49309773;chr19:49309975-49310256;chr19:49310332-49314240 chr19:49309774-49309974;chr19:49310257-49310331 89.47 K intron_retention CUFF.908 chr22 + chr22:25855483-25915889 chr22:25855482-25855483;chr22:25915889-25915890 chr22:25855383-25855482;chr22:25915890-25916129 85.06 N alternative_acceptor chr22 + chr22:37695348-37696193;chr22:37695348-37696110 chr22:37695348-37696947 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 96.26 K alternative_first_exon CUFF.1138 chr6 + chr6:29943295-29945430 chr6:29945281-29945430 chr6:29942889-29943294 chr6:29945182-29945280 17.82 K alternative_first_exon CUFF.214 chr11 + chr11:67782546-67782766;chr11:67776163-67782766 chr11:67777863-67782766 chr11:67776042-67776162 chr11:67777703-67777862 73.85 N jcn_only_AD CUFF.409 chr15 + chr15:57565461-57574642 chr15:57573991-57574642 chr15:57565461-57573990 chr15:57565460-57565461 7.54 K alternative_first_exon CUFF.471 chr16 + chr16:2190951-2199941 chr16:2198980-2199941 chr16:2190804-2190950 chr16:2198541-2198979 94.14 N intron_retention chr19 + chr19:17597767-17597982 chr19:17597766-17597767;chr19:17597982-17597983 24.26 N cassette CUFF.91 chr1 + chr1:196913069-196919981 chr1:196913069-196918584;chr1:196918780-196919981 chr1:196918585-196918779 46.25 N alternative_donor CUFF.440 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 2.33 N alternative_acceptor CUFF.1391 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 10.00 N alternative_donor CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 66.25 K cassette CUFF.557 chr17 + chr17:29490395-29508439 chr17:29490395-29496908;chr17:29497016-29508439 chr17:29496909-29497015 72.34 K intron_retention chr17 + chr17:61905570-61906853 chr17:61905569-61905570;chr17:61906853-61906854 chr17:61905498-61905569;chr17:61906854-61906923 8.08 N jcn_only_AA chr11 + chr11:36415562-36415945;chr11:36415562-36422546 chr11:36415562-36417663 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 10.66 N alternative_donor CUFF.705 chr19 + chr19:44771115-44777051 chr19:44771298-44777051 chr19:44771115-44771297 chr19:44771114-44771115 26.83 N jcn_only_AD CUFF.933,CUFF.996 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 15.67 N cassette CUFF.373 chr14 - chr14:104208629-104212709 chr14:104208629-104208990;chr14:104209161-104212709 chr14:104208991-104209160 91.18 N coord_cassette CUFF.345 chr14 + chr14:58899176-58909423 chr14:58899176-58899829;chr14:58900063-58907938;chr14:58908062-58909423 chr14:58899830-58900062;chr14:58907939-58908061 21.43 N cassette CUFF.626 chr18 - chr18:44444212-44497284 chr18:44444212-44470542;chr18:44471018-44497284 chr18:44470543-44471017 81.42 K jcn_only_AA CUFF.1387 chrX - chrX:20190987-20193281 chrX:20190990-20193281 chrX:20190987-20190989 chrX:20190986-20190987 7.25 N jcn_only_AD chr17 + chr17:61904875-61905478 chr17:61905284-61905478 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61904778-61904874 39.80 N cassette CUFF.1033 chr4 - chr4:56471517-56475286 chr4:56471517-56473603;chr4:56473634-56475286 chr4:56473604-56473633 76.63 K cassette CUFF.1175 chr6 - chr6:128320050-128326228 chr6:128320050-128324341;chr6:128324378-128326228 chr6:128324342-128324377 72.84 N jcn_only_AD CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 41.92 K intron_retention CUFF.945 chr3 - chr3:38050128-38050532 chr3:38050127-38050128;chr3:38050532-38050533 15.31 N jcn_only_AD CUFF.198 chr11 + chr11:36424929-36453402 chr11:36440854-36453402 chr11:36424929-36440853 chr11:36424928-36424929 25.12 N alternative_acceptor CUFF.260 chr12 + chr12:9723489-9725598 chr12:9723489-9724056 chr12:9724057-9725598 chr12:9725598-9725599 0.00 N alternative_donor CUFF.409 chr15 + chr15:57426699-57458599;chr15:57401516-57458599;chr15:57422171-57458599 chr15:57384090-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 100.00 K alternative_first_exon CUFF.982 chr3 + chr3:125635563-125637706 chr3:125635661-125637706 chr3:125635463-125635562 chr3:125635632-125635660 1.38 K jcn_only_AA CUFF.1158,CUFF.1169 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 32.10 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402960,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402961-118403176 87.93 N jcn_only_AD CUFF.911 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 1.45 N alternative_acceptor CUFF.1081,CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 45.30 N jcn_only_AD CUFF.512 chr16 - chr16:75589872-75636982 chr16:75589872-75589968 chr16:75589969-75636982 chr16:75636982-75636983 84.67 K intron_retention CUFF.631 chr18 + chr18:56056425-56057877 chr18:56056424-56056425;chr18:56057877-56057878 3.15 N intron_retention chr3 + chr3:122863677-122864368 chr3:122863676-122863677;chr3:122864368-122864369 31.58 K cassette CUFF.225 chr11 + chr11:101852696-101863508 chr11:101852696-101857562;chr11:101857773-101863508 chr11:101857563-101857772 36.00 K intron_retention CUFF.494 chr16 + chr16:21987565-21991867 chr16:21987564-21987565;chr16:21991867-21991868 90.48 K intron_retention CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397964-86397965;chr2:86400772-86400773 40.70 N jcn_only_AD CUFF.933,CUFF.983 chr3 - chr3:27329235-27332752 chr3:27329235-27332107 chr3:27332108-27332752 chr3:27332752-27332753 85.89 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 100.00 K coord_cassette CUFF.868 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29976125;chr20:29976163-29978225 chr20:29966155-29966194;chr20:29976126-29976162 29.41 K alternative_donor CUFF.710 chr19 - chr19:49298722-49299684 chr19:49298722-49299403 chr19:49299404-49299684 chr19:49299684-49299685 18.94 K alternative_acceptor CUFF.1091,CUFF.1098 chr5 + chr5:56543043-56545280 chr5:56543043-56545235 chr5:56545236-56545280 chr5:56545280-56545281 84.21 N cassette CUFF.236 chr11 - chr11:118533906-118550247 chr11:118533906-118534047;chr11:118534149-118550247 chr11:118534048-118534148 56.05 K cassette CUFF.171 chr11 - chr11:407958-408694 chr11:407958-408072;chr11:408207-408694 chr11:408073-408206 90.66 N jcn_only_AA CUFF.1174 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 86.67 N cassette CUFF.856 chr2 - chr2:242440212-242447420 chr2:242440212-242440892;chr2:242441124-242447420 chr2:242440893-242441123 96.13 K intron_retention CUFF.1364 chr9 - chr9:131483548-131483703 chr9:131483547-131483548;chr9:131483703-131483704 65.89 K intron_retention CUFF.940 chr3 - chr3:33431861-33434054 chr3:33431860-33431861;chr3:33434054-33434055 14.86 K intron_retention CUFF.206 chr11 - chr11:62365863-62365993 chr11:62365862-62365863;chr11:62365993-62365994 7.46 K intron_retention CUFF.1142 chr6 + chr6:31936574-31936647 chr6:31936573-31936574;chr6:31936647-31936648 20.00 N intron_retention chr3 - chr3:125725472-125725559 chr3:125725471-125725472;chr3:125725559-125725560 85.53 K jcn_only_AA CUFF.204 chr11 + chr11:61615757-61624482 chr11:61615757-61616152 95.68 N alternative_acceptor CUFF.183 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 59.35 K intron_retention CUFF.1425 chrX + chrX:153608728-153609112 chrX:153608727-153608728;chrX:153609112-153609113 4.06 K cassette CUFF.1173 chr6 - chr6:116973356-116979965 chr6:116973356-116977846;chr6:116978016-116979965 chr6:116977847-116978015 47.83 K jcn_only_AA CUFF.219,CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 93.17 N mutually_exclusive CUFF.342 chr14 + chr14:50247041-50249087,chr14:50249176-50249259 chr14:50247041-50247420,chr14:50247494-50249259 chr14:50249088-50249175 chr14:50247421-50247493 31.82 K alternative_acceptor CUFF.1142 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 26.53 N alternative_donor CUFF.951,CUFF.983 chr3 - chr3:125752522-125769785 chr3:125752522-125769740 chr3:125769741-125769785 chr3:125769785-125769786 4.71 N alternative_donor chr15 - chr15:61931912-62007313 chr15:61931912-61945387 chr15:61945388-62007313 chr15:62007313-62007314 0.00 N alternative_acceptor CUFF.798 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 1.09 N alternative_donor CUFF.631 chr18 + chr18:56033461-56034977 chr18:56034459-56034977 chr18:56033461-56034458 chr18:56033460-56033461 9.68 N alternative_acceptor CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 3.97 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247302060-247322307 chr1:247287174-247322307 chr1:247319720-247320519;chr1:247302021-247302059 chr1:247285277-247287173 60.78 K alternative_first_exon CUFF.1320 chr8 + chr8:143915706-143921831 chr8:143916285-143921831 chr8:143915663-143915705 chr8:143916152-143916284 83.33 N intron_retention chr2 + chr2:220095128-220096981 chr2:220095127-220095128;chr2:220096981-220096982 64.52 K intron_retention CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990327-46990328;chr17:46993437-46993438 17.14 N coord_cassette CUFF.991 chr3 - chr3:141772992-141868024 chr3:141772992-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 89.68 N coord_cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586273-107591814 chr3:107585499-107585600;chr3:107586158-107586272 19.18 N intron_retention chr22 - chr22:21829590-21830280 chr22:21829589-21829590;chr22:21830280-21830281 17.28 K cassette CUFF.513 chr16 + chr16:67233905-67234353 chr16:67233905-67234094;chr16:67234265-67234353 chr16:67234095-67234264 85.00 K intron_retention CUFF.695 chr19 - chr19:39924059-39924133 chr19:39924058-39924059;chr19:39924133-39924134 75.90 K intron_retention CUFF.539 chr17 - chr17:15517057-15517146 chr17:15517056-15517057;chr17:15517146-15517147 37.84 N alternative_acceptor CUFF.273 chr12 + chr12:13366510-13369377 chr12:13366510-13366614 chr12:13366615-13369377 chr12:13369377-13369378 65.99 K alternative_acceptor CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949256-8950923 chr11:8949230-8949255 chr11:8949229-8949230 26.67 N alternative_acceptor chr5 - chr5:149782189-149784242 chr5:149782876-149784242 chr5:149782189-149782875 chr5:149782188-149782189 13.11 K intron_retention CUFF.897 chr22 - chr22:18077383-18080959 chr22:18077382-18077383;chr22:18080959-18080960 14.72 N alternative_donor CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445586-64445850 chr15:64445539-64445585 chr15:64445538-64445539 17.86 K cassette CUFF.996 chr3 - chr3:165504100-165555101 chr3:165504100-165547304;chr3:165548830-165555101 chr3:165547305-165548829 42.25 N cassette CUFF.122 chr10 - chr10:27040713-27047990;chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990,chr10:27044671-27054146 chr10:27044584-27044670 32.83 K intron_retention chr17 + chr17:66526143-66526417 chr17:66526142-66526143;chr17:66526417-66526418 3.17 N alternative_acceptor chr19 + chr19:52901158-52901706 chr19:52901158-52901619 chr19:52901620-52901706 chr19:52901706-52901707 80.36 K alternative_first_exon CUFF.1127 chr6 + chr6:291701-304627 chr6:292561-304627 chr6:291556-291700 chr6:292306-292560 92.32 K cassette CUFF.538 chr17 - chr17:8638573-8644791 chr17:8638573-8638707;chr17:8638930-8644791 chr17:8638708-8638929 71.11 K alternative_first_exon CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20526796-20530571 chr4:20525637-20525800 chr4:20526782-20526795 14.29 N alternative_first_exon CUFF.1294 chr8 + chr8:75263557-75272371,chr8:75233824-75272371;chr8:75233481-75272371;chr8:75263702-75272371 chr8:75262814-75272371 chr8:75233365-75233480;chr8:75263549-75263701 chr8:75262628-75262813 16.02 K alternative_last_exon CUFF.1025 chr4 - chr4:36014454-36047600 chr4:36020909-36047600 chr4:36014185-36014453 chr4:36020766-36020908 58.82 N cassette CUFF.340 chr14 + chr14:39944160-39961458 chr14:39944160-39954220;chr14:39954462-39961458 chr14:39954221-39954461 59.44 N coord_cassette CUFF.355 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75168371;chr14:75168478-75179635 chr14:75165467-75165559;chr14:75168372-75168477 55.81 N alternative_acceptor CUFF.650 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 25.00 K alternative_first_exon CUFF.1024 chr4 + chr4:20255618-20258294 chr4:20256699-20258294 chr4:20254883-20255617 chr4:20256459-20256698 88.64 K jcn_only_AD CUFF.1222 chr7 + chr7:73098135-73100965 chr7:73098331-73100965 chr7:73098135-73098330 chr7:73098134-73098135 50.56 K alternative_donor CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 22.07 N jcn_only_AD CUFF.170 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 67.86 K alternative_acceptor CUFF.116 chr10 + chr10:6259155-6261531 chr10:6259155-6261481 chr10:6261482-6261531 chr10:6261531-6261532 0.59 K jcn_only_AD CUFF.1136 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 88.24 N jcn_only_AA CUFF.1255 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 65.12 N jcn_only_AD chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 30.00 N jcn_only_AA CUFF.1039 chr4 - chr4:74477547-74486155 chr4:74481654-74486155 96.34 K alternative_first_exon CUFF.1402 chrX - chrX:85282562-85302487 chrX:85282562-85302250 chrX:85302488-85302625 chrX:85302251-85302365 12.33 K alternative_last_exon CUFF.1244 chr7 - chr7:110603622-111127293 chr7:111123785-111127293 chr7:110603556-110603621 chr7:111123481-111123784 89.69 N intron_retention chr1 + chr1:245246991-245250061 chr1:245246990-245246991;chr1:245250061-245250062 79.59 N intron_retention chr7 + chr7:107204655-107205032 chr7:107204654-107204655;chr7:107205032-107205033 62.22 N jcn_only_AA CUFF.350,CUFF.357 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 3.11 K cassette CUFF.152 chr10 - chr10:80825577-80827144 chr10:80825577-80826204;chr10:80826344-80827144 chr10:80826205-80826343 84.62 K alternative_first_exon CUFF.681 chr19 + chr19:17598339-17599816 chr19:17599749-17599816 chr19:17598269-17598338 chr19:17599534-17599748 93.24 K mutually_exclusive CUFF.743 chr2 + chr2:3469467-3481462,chr2:3481567-3482616 chr2:3469467-3470024,chr2:3470165-3482616 chr2:3481463-3481566 chr2:3470025-3470164 22.22 N jcn_only_AD chr14 - chr14:104251252-104263707 chr14:104251252-104260913 21.59 K alternative_last_exon CUFF.457 chr15 + chr15:94449519-94527014 chr15:94449519-94512822 chr15:94527015-94527110 chr15:94512823-94512924 33.33 K coord_cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251152;chr7:44251204-44251845 chr7:44250622-44250723;chr7:44251153-44251203 32.50 N alternative_donor CUFF.856 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42180867-42181155 chr2:42181155-42181156 1.15 N mutually_exclusive CUFF.857 chr2 + chr2:242594063-242598522,chr2:242598603-242606059 chr2:242594063-242594685,chr2:242594759-242606059 chr2:242598523-242598602 chr2:242594686-242594758 40.62 N alternative_donor CUFF.352 chr14 - chr14:69589078-69616147;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69619481 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 15.79 N jcn_only_AD CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 8.56 N jcn_only_AD CUFF.980 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 14.00 K cassette CUFF.967 chr3 - chr3:107572902-107573976 chr3:107572902-107573500;chr3:107573542-107573976 chr3:107573501-107573541 16.18 K jcn_only_AA CUFF.1241 chr7 + chr7:107253878-107262074 chr7:107253878-107258772 chr7:107258773-107262074 chr7:107262074-107262075 80.22 N coord_cassette CUFF.91 chr1 + chr1:196913069-196927020 chr1:196913069-196918746;chr1:196918780-196919981;chr1:196920159-196927020 chr1:196918747-196918779;chr1:196919982-196920158 54.12 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 20.28 K mutually_exclusive CUFF.1349 chr9 + chr9:105768661-105774263,chr9:105774380-105780606 chr9:105768661-105772982,chr9:105773088-105780606 chr9:105774264-105774379 chr9:105772983-105773087 70.83 N intron_retention chr16 - chr16:4463406-4466785 chr16:4463405-4463406;chr16:4466785-4466786 87.76 N jcn_only_AD CUFF.5 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 33.58 K intron_retention CUFF.1296 chr8 - chr8:80954904-80963761 chr8:80954903-80954904;chr8:80963761-80963762 8.48 K intron_retention CUFF.1157 chr6 - chr6:43481190-43481325 chr6:43481189-43481190;chr6:43481325-43481326 12.96 K alternative_acceptor CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 46.41 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 40.00 N jcn_only_AD CUFF.603 chr17 - chr17:79894070-79898625;chr17:79894070-79894623 chr17:79894070-79900171 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 4.88 N cassette CUFF.653 chr19 - chr19:6042135-6047417 chr19:6042135-6044203;chr19:6044294-6047417 chr19:6044204-6044293 85.64 N alternative_donor CUFF.21,CUFF.72 chr1 - chr1:156918291-156921364 chr1:156918291-156918364 chr1:156918365-156921364 chr1:156921364-156921365 37.50 K alternative_last_exon CUFF.485 chr16 - chr16:5651666-5661235 chr16:5660676-5661235 chr16:5651170-5651665 chr16:5660297-5660675 70.37 K alternative_last_exon CUFF.38 chr1 - chr1:54382790-54389576 chr1:54387441-54389576 chr1:54382247-54382789 chr1:54387237-54387440 16.80 K intron_retention CUFF.1381 chrX - chrX:13791150-13794356 chrX:13791149-13791150;chrX:13794356-13794357 3.59 N jcn_only_AA CUFF.1038 chr4 - chr4:70513414-70518905 chr4:70513417-70518905 chr4:70513414-70513416 chr4:70513413-70513414 45.45 K jcn_only_AD CUFF.925 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 61.27 K intron_retention CUFF.494 chr16 + chr16:21973838-21974081 chr16:21973837-21973838;chr16:21974081-21974082 21.71 N jcn_only_AD CUFF.780 chr2 - chr2:73215478-73226077 chr2:73215478-73221974 chr2:73221975-73226077 chr2:73226077-73226078 18.65 K alternative_donor CUFF.630 chr18 - chr18:47329224-47340051 chr18:47329224-47339838 chr18:47339839-47340051 chr18:47340051-47340052 10.26 N alternative_acceptor CUFF.174 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 59.20 N jcn_only_AA chr1 + chr1:196913069-196918584;chr1:196913069-196918565 chr1:196913069-196918746 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 56.52 K cassette CUFF.951 chr3 - chr3:49336069-49339816 chr3:49336069-49337899;chr3:49338125-49339816 chr3:49337900-49338124 59.09 K mutually_exclusive CUFF.731 chr19 + chr19:55087577-55098476,chr19:55098528-55098667 chr19:55087577-55088931,chr19:55089191-55098667 chr19:55098477-55098527 chr19:55088932-55089190 23.81 N alternative_donor CUFF.956 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 74.00 N alternative_first_exon CUFF.642 chr18 - chr18:67614769-67623849;chr18:67614769-67623990 chr18:67614769-67628827 chr18:67623850-67623940;chr18:67623991-67624434 chr18:67628828-67629074 50.00 K intron_retention CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938916-31938917;chr6:31939096-31939097 44.78 K intron_retention CUFF.886 chr21 - chr21:15984967-15985196 chr21:15984966-15984967;chr21:15985196-15985197 9.68 N cassette CUFF.567 chr17 + chr17:35378314-35413900 chr17:35378314-35388910;chr17:35388983-35413900 chr17:35388911-35388982 47.06 K alternative_last_exon CUFF.942 chr3 - chr3:33638227-33644443 chr3:33644082-33644443 chr3:33638203-33638226 chr3:33643903-33644081 62.50 N jcn_only_AA CUFF.84,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 2.74 N alternative_donor CUFF.1169 chr6 + chr6:112382492-112385957 chr6:112382599-112385957 chr6:112382492-112382598 chr6:112382491-112382492 33.33 K intron_retention CUFF.587 chr17 + chr17:61562331-61562596 chr17:61562330-61562331;chr17:61562596-61562597 44.55 K alternative_acceptor CUFF.409 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 83.58 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 10.98 N jcn_only_AD CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 35.71 N jcn_only_AD chr18 + chr18:56001125-56008269 chr18:56002770-56008269 chr18:56001125-56002769 chr18:56001124-56001125 40.32 K intron_retention CUFF.286 chr12 - chr12:53459059-53459485 chr12:53459058-53459059;chr12:53459485-53459486 54.35 K intron_retention CUFF.769 chr2 - chr2:61720189-61721028 chr2:61720188-61720189;chr2:61721028-61721029 53.75 K alternative_donor CUFF.458 chr15 + chr15:97326820-97327382;chr15:97327061-97327382 chr15:97326975-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 48.51 K cassette CUFF.1315 chr8 + chr8:118541049-118552121 chr8:118541049-118542961;chr8:118543067-118552121 chr8:118542962-118543066 5.62 N alternative_acceptor CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 76.30 N jcn_only_AA CUFF.1175 chr6 - chr6:128540242-128643183 chr6:128563748-128643183 81.94 K cassette CUFF.751 chr2 - chr2:23599798-23604091 chr2:23599798-23602994;chr2:23603113-23604091 chr2:23602995-23603112 81.54 K cassette CUFF.1065 chr4 - chr4:162463846-162508606 chr4:162463846-162473639;chr4:162473730-162508606 chr4:162473640-162473729 45.38 N jcn_only_AD CUFF.165 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 16.07 K intron_retention CUFF.1361 chr9 - chr9:125613716-125616230 chr9:125613715-125613716;chr9:125616230-125616231 45.54 K alternative_acceptor CUFF.219,CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267610-115267983 chr11:115267984-115267986 chr11:115267986-115267987 90.00 K coord_cassette CUFF.987 chr3 - chr3:127294109-127294782 chr3:127294109-127294245;chr3:127294349-127294591;chr3:127294653-127294782 chr3:127294246-127294348;chr3:127294592-127294652 35.29 K alternative_acceptor CUFF.1177 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 69.23 K intron_retention CUFF.914 chr22 - chr22:30736371-30736683 chr22:30736370-30736371;chr22:30736683-30736684 23.40 N alternative_donor CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 39.39 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10829823 chr11:10827595-10828366,chr11:10828433-10829823 chr11:10828802-10828928 chr11:10828367-10828432 8.84 N cassette CUFF.352 chr14 - chr14:69522329-69542061 chr14:69522329-69529100;chr14:69529229-69542061 chr14:69529101-69529228 58.27 N jcn_only_AD chr3 - chr3:141724387-141809633;chr3:141724387-141772956 chr3:141724387-141747883 64.00 N jcn_only_AD CUFF.857 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 34.88 N coord_cassette CUFF.299 chr12 + chr12:69207409-69233053 chr12:69207409-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 42.00 N alternative_donor CUFF.385 chr15 + chr15:29211691-29213842;chr15:29140756-29213842 chr15:29131425-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 75.00 K cassette CUFF.923 chr22 + chr22:47188474-47189397 chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188565-47188701 38.30 N alternative_donor CUFF.959 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 1.45 N jcn_only_AD chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 95.70 N intron_retention CUFF.1394 chrX - chrX:53569501-53570801 chrX:53569500-53569501;chrX:53570801-53570802 17.24 K intron_retention CUFF.574 chr17 - chr17:41738762-41739238 chr17:41738761-41738762;chr17:41739238-41739239 76.92 K coord_cassette CUFF.599 chr17 - chr17:76994369-77005745 chr17:76994369-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 88.68 K alternative_acceptor CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 43.75 N jcn_only_AD CUFF.967 chr3 - chr3:107567966-107568669;chr3:107567966-107572719 chr3:107567966-107575926 8.47 K cassette CUFF.1360 chr9 + chr9:125047567-125054027 chr9:125047567-125048317;chr9:125048446-125054027 chr9:125048318-125048445 10.73 N alternative_donor CUFF.769,CUFF.786 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 11.11 N alternative_donor CUFF.681 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 10.93 N jcn_only_AD CUFF.681 chr19 + chr19:17611442-17615263;chr19:17612229-17615263 chr19:17611686-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 28.51 N jcn_only_AA CUFF.319 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 55.00 N jcn_only_AA CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 31.58 K intron_retention chr2 + chr2:242590527-242590678 chr2:242590526-242590527;chr2:242590678-242590679 1.45 K alternative_first_exon CUFF.1424 chrX + chrX:153238312-153247300,chrX:153238338-153247300 chrX:153246075-153247300 chrX:153237778-153238311 chrX:153245998-153246074 chrX:153247301-153248646 30.77 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188702-47189397 chr22:47188417-47188473;chr22:47188565-47188701 88.52 N cassette CUFF.489 chr16 - chr16:15180116-15185171 chr16:15180116-15180221;chr16:15180312-15185171 chr16:15180222-15180311 81.36 K intron_retention CUFF.518 chr16 + chr16:70404289-70405274 chr16:70404288-70404289;chr16:70405274-70405275 7.32 K alternative_last_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877016-200877243 chr1:200877858-200878068 chr1:200877244-200877292 36.73 N coord_cassette CUFF.690 chr19 - chr19:33984244-34003498 chr19:33984244-33991843;chr19:33991908-34001933;chr19:34002062-34003498 chr19:33991844-33991907;chr19:34001934-34002061 55.36 N alternative_donor chr17 - chr17:1616350-1617149 chr17:1616350-1616996 chr17:1616997-1617149 chr17:1617149-1617150 83.04 K intron_retention chr11 + chr11:118401950-118402489 chr11:118401949-118401950;chr11:118402489-118402490 2.68 N intron_retention chr15 + chr15:77713177-77750795 chr15:77713176-77713177;chr15:77750795-77750796 31.25 N alternative_acceptor CUFF.967 chr3 - chr3:107567966-107572719;chr3:107569199-107572719 chr3:107568819-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 9.76 K intron_retention CUFF.249 chr12 - chr12:347177-347336 chr12:347176-347177;chr12:347336-347337 16.46 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125797816;chr3:125787090-125820271 chr3:125787090-125802935 chr3:125802897-125802924;chr3:125797817-125797906;chr3:125820272-125820503 chr3:125802936-125803107 50.69 N alternative_acceptor CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 chr7:86571334-86571420;chr7:86569326-86569431 2.50 N intron_retention chr21 + chr21:15688690-15689793 chr21:15688689-15688690;chr21:15689793-15689794 75.00 K alternative_first_exon CUFF.64 chr1 + chr1:153389040-153390541 chr1:153389755-153390541 chr1:153389000-153389039 chr1:153389655-153389754 97.56 N cassette CUFF.355 chr14 - chr14:75136830-75138110 chr14:75136830-75137464;chr14:75137575-75138110 chr14:75137465-75137574 96.88 K jcn_only_AA CUFF.409 chr15 + chr15:57555473-57565230 chr15:57555473-57565227 chr15:57565228-57565230 chr15:57565230-57565231 91.09 K cassette CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398436-86400772 chr2:86398331-86398435 42.70 N jcn_only_AA CUFF.1175 chr6 - chr6:128326390-128330274;chr6:128329233-128330274 chr6:128327201-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 35.05 N jcn_only_AD CUFF.1391 chrX - chrX:46360771-46387769 chrX:46360771-46382371 chrX:46382372-46387769 chrX:46387769-46387770 59.09 N jcn_only_AA CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115621;chr16:3115496-3115781 chr16:3115496-3115642 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 15.02 N jcn_only_AA chr11 + chr11:74622471-74630577 chr11:74622471-74624739 chr11:74624740-74630577 chr11:74630577-74630578 64.81 N jcn_only_AA CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996 chr17:1616199-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 14.74 K intron_retention CUFF.1146 chr6 + chr6:32122024-32122363 chr6:32122023-32122024;chr6:32122363-32122364 90.76 N jcn_only_AA CUFF.596 chr17 + chr17:29576138-29584704;chr17:29576138-29585361 chr17:29576138-29579955 15.56 N alternative_donor CUFF.180 chr11 - chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797 chr11:8588797-8588798 0.00 K jcn_only_AD CUFF.1361 chr9 - chr9:125612102-125613378 chr9:125612102-125613359 chr9:125613360-125613378 chr9:125613378-125613379 55.00 K intron_retention CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223586-67223587;chr16:67223873-67223874 2.76 K intron_retention CUFF.530 chr17 + chr17:1943900-1944396 chr17:1943899-1943900;chr17:1944396-1944397 18.75 N jcn_only_AA CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 34.00 K cassette CUFF.409 chr15 + chr15:57523456-57524909 chr15:57523456-57524488;chr15:57524629-57524909 chr15:57524489-57524628 21.09 K alternative_first_exon CUFF.369 chr14 + chr14:92792323-92900255 chr14:92874779-92900255 chr14:92792212-92792322 chr14:92874693-92874778 42.55 K alternative_first_exon CUFF.684,CUFF.733 chr19 - chr19:56321705-56343328 chr19:56321705-56329269 chr19:56343329-56343460 chr19:56329270-56329603 46.67 K intron_retention CUFF.175 chr11 + chr11:830714-830865 chr11:830713-830714;chr11:830865-830866 9.72 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15249915 chr9:15214248-15224357 57.53 N jcn_only_AA CUFF.990 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 12.03 N intron_retention chr15 + chr15:77756730-77759524 chr15:77756729-77756730;chr15:77759524-77759525 52.11 N jcn_only_AA CUFF.148 chr10 - chr10:79396274-79397022;chr10:79163782-79397022 chr10:79396328-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 15.17 N jcn_only_AA chr16 - chr16:57513598-57513772 chr16:57513601-57513772 chr16:57513598-57513600 chr16:57513597-57513598 60.00 K jcn_only_AA CUFF.269 chr12 + chr12:21200152-21207512 chr12:21200152-21201645 86.27 N jcn_only_AD CUFF.971 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 14.05 N alternative_donor CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65579958-65592690 chr7:65591631-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 0.00 N jcn_only_AD CUFF.753 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 41.86 K jcn_only_AA CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558967-47565330 chr21:47558838-47558966 chr21:47558837-47558838 13.79 N cassette CUFF.824 chr2 - chr2:175711686-175779785 chr2:175711686-175742567;chr2:175742857-175779785 chr2:175742568-175742856 88.67 N intron_retention chr2 + chr2:3469467-3482616 chr2:3469466-3469467;chr2:3482616-3482617 57.45 N alternative_donor CUFF.825,CUFF.835 chr2 - chr2:204360077-204399833 chr2:204360077-204398087 chr2:204398088-204399833 chr2:204399833-204399834 4.72 N intron_retention chr17 - chr17:79358833-79358928 chr17:79358832-79358833;chr17:79358928-79358929 60.71 N intron_retention CUFF.593 chr17 + chr17:61904884-61904979 chr17:61904883-61904884;chr17:61904979-61904980 chr17:61904778-61904883 61.54 N alternative_acceptor CUFF.824 chr2 - chr2:175677211-175689161 chr2:175686508-175689161 chr2:175677211-175686507 chr2:175677210-175677211 0.09 N jcn_only_AD CUFF.736 chr2 - chr2:219002-229965 chr2:219002-224863 chr2:224864-229965 chr2:229965-229966 15.31 N alternative_acceptor CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 33.03 K intron_retention CUFF.691 chr19 + chr19:35642232-35642342 chr19:35642231-35642232;chr19:35642342-35642343 23.44 N alternative_donor chr17 - chr17:79894070-79898625;chr17:79894070-79900171 chr17:79894070-79894623 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 56.00 K mutually_exclusive CUFF.806 chr2 + chr2:160599765-160604315,chr2:160605415-160608912 chr2:160599765-160602280,chr2:160602449-160608912 chr2:160604316-160605414 chr2:160602281-160602448 36.72 N cassette CUFF.520 chr16 - chr16:75576582-75589701 chr16:75576582-75579723;chr16:75579853-75589701 chr16:75579724-75579852 51.52 N alternative_donor CUFF.941,CUFF.995 chr3 - chr3:33614847-33617660;chr3:33614847-33615964 chr3:33614847-33614931 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 0.00 K intron_retention CUFF.1394 chrX - chrX:53569501-53570846 chrX:53569500-53569501;chrX:53570846-53570847 5.07 K jcn_only_AA CUFF.1032 chr4 + chr4:37831754-37841479 chr4:37831754-37836239 48.99 N alternative_acceptor CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576819-107577537 chr7:107576102-107576818 chr7:107576101-107576102 1.25 N jcn_only_AA chr7 - chr7:107572823-107575859 chr7:107572939-107575859 46.25 N cassette CUFF.991 chr3 - chr3:141724387-141868024 chr3:141724387-141820576;chr3:141820684-141868024 chr3:141820577-141820683 82.14 N alternative_acceptor CUFF.1195 chr7 - chr7:1778839-1781844 chr7:1779172-1781844 chr7:1778839-1779171 chr7:1778838-1778839 8.96 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66678944;chr15:66645294-66648976 chr15:66645294-66678757 chr15:66678945-66679143;chr15:66648977-66649054 chr15:66678758-66678943 29.79 K jcn_only_AD CUFF.1071 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 87.50 N alternative_donor CUFF.740,CUFF.752 chr2 - chr2:25174424-25179911 chr2:25174424-25176418 chr2:25176419-25179911 chr2:25179911-25179912 0.00 K jcn_only_AA CUFF.732 chr19 + chr19:55255537-55275342 chr19:55255537-55258786 18.18 N alternative_donor CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 13.14 K intron_retention CUFF.69 chr1 + chr1:155182359-155182484 chr1:155182358-155182359;chr1:155182484-155182485 17.74 K alternative_first_exon CUFF.27 chr1 + chr1:28655636-28657107,chr1:28655692-28657107 chr1:28656887-28657107 chr1:28655513-28655635 chr1:28656792-28656886 21.59 N jcn_only_AA CUFF.450 chr15 - chr15:84869629-84871621 chr15:84869961-84871621 chr15:84869629-84869960 chr15:84869628-84869629 92.31 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15720904;chrX:15711182-15715362 chrX:15711182-15713793 chrX:15720905-15721844;chrX:15715363-15715874 chrX:15713794-15713856 21.96 K alternative_last_exon CUFF.1296 chr8 - chr8:80915416-80954854 chr8:80950471-80954854 chr8:80915234-80915415 chr8:80948780-80950470 97.87 K intron_retention CUFF.853 chr2 + chr2:232258622-232259365 chr2:232258621-232258622;chr2:232259365-232259366 56.86 N alternative_donor CUFF.146 chr10 - chr10:74094376-74095591 chr10:74094376-74095537 chr10:74095538-74095591 chr10:74095591-74095592 70.49 N jcn_only_AD CUFF.1239 chr7 + chr7:107207632-107211589 chr7:107208311-107211589 chr7:107207632-107208310 chr7:107207631-107207632 7.10 N intron_retention chr22 - chr22:21831031-21832078 chr22:21831030-21831031;chr22:21832078-21832079 77.78 N intron_retention chr17 + chr17:61904973-61906217 chr17:61904972-61904973;chr17:61906217-61906218 36.96 N alternative_first_exon CUFF.1107 chr5 + chr5:134181903-134190587 chr5:134182554-134190587 chr5:134181778-134181902 chr5:134181916-134182553 95.24 K intron_retention CUFF.583 chr17 - chr17:56082962-56083161 chr17:56082961-56082962;chr17:56083161-56083162 11.56 K jcn_only_AA CUFF.940 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 59.62 N jcn_only_AD chr19 - chr19:6192041-6199490 chr19:6192041-6199486 72.73 N jcn_only_AA CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80964911-80965516 chr8:80963864-80964910 chr8:80963863-80963864 15.66 N jcn_only_AD CUFF.580,CUFF.595 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 11.36 N alternative_donor CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 1.20 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 33.23 K intron_retention CUFF.466 chr16 + chr16:602531-602604 chr16:602530-602531;chr16:602604-602605 40.62 N alternative_acceptor CUFF.309 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 37.14 K cassette CUFF.1090 chr5 - chr5:54593227-54603214 chr5:54593227-54594418;chr5:54594493-54603214 chr5:54594419-54594492 58.82 N jcn_only_AD CUFF.758 chr2 + chr2:38156080-38156404;chr2:38152569-38156404 chr2:38150511-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 42.86 K cassette CUFF.291 chr12 - chr12:56575864-56577958 chr12:56575864-56577644;chr12:56577715-56577958 chr12:56577645-56577714 chr12:56575788-56575863;chr12:56577959-56578028 18.16 N jcn_only_AD CUFF.462 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 14.45 K alternative_donor CUFF.1136 chr6 + chr6:28116603-28117260 chr6:28116617-28117260 chr6:28116603-28116616 chr6:28116602-28116603 80.00 K alternative_first_exon CUFF.707 chr19 + chr19:45254638-45259488 chr19:45258732-45259488 chr19:45254484-45254637 chr19:45258505-45258731 38.60 N jcn_only_AA CUFF.710 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 3.60 N alternative_acceptor CUFF.120,CUFF.127 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 0.80 N jcn_only_AA CUFF.600 chr17 - chr17:79258696-79263490 chr17:79262746-79263490 chr17:79258696-79262745 chr17:79258695-79258696 30.91 K jcn_only_AD CUFF.887,CUFF.891 chr21 - chr21:30971258-31015145 chr21:30971258-30973547 chr21:30971150-30971257 21.14 N intron_retention chr19 + chr19:17449551-17449931 chr19:17449550-17449551;chr19:17449931-17449932 80.36 N jcn_only_AD chr5 - chr5:178050418-178057554 chr5:178050418-178053946 chr5:178053947-178057554 chr5:178057554-178057555 93.57 N alternative_acceptor CUFF.110 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 19.48 K jcn_only_AA CUFF.1047 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 82.35 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 44.12 K alternative_acceptor CUFF.668 chr19 + chr19:11467653-11468335 chr19:11467653-11468294 chr19:11468295-11468335 chr19:11468335-11468336 56.46 N jcn_only_AA CUFF.1408 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 48.15 N cassette CUFF.122 chr10 - chr10:27044671-27054146;chr10:27040713-27054146 chr10:27044671-27047990,chr10:27040713-27047990;chr10:27048165-27054146 chr10:27047991-27048164 73.33 K jcn_only_AD CUFF.324 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 90.41 N alternative_donor CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 6.90 N alternative_acceptor CUFF.591 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 0.00 N jcn_only_AA chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 66.09 N cassette CUFF.857 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242592926 chr2:242590679-242590750 97.01 N jcn_only_AD chr17 + chr17:29626625-29652837;chr17:29592358-29652837 chr17:29645583-29652837 55.56 N jcn_only_AA chr11 + chr11:118402587-118403124;chr11:118402587-118402811 chr11:118402587-118403004 13.43 N jcn_only_AD CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709500 chr12:56709027-56709690 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 37.23 N jcn_only_AA CUFF.1202 chr7 - chr7:22206767-22232984 chr7:22231261-22232984 chr7:22206767-22231260 chr7:22206766-22206767 18.28 N alternative_acceptor CUFF.1013 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 88.89 N intron_retention chr15 - chr15:83350333-83357909 chr15:83350332-83350333;chr15:83357909-83357910 87.27 K cassette CUFF.441 chr15 + chr15:78807450-78819721 chr15:78807450-78810929;chr15:78811116-78819721 chr15:78810930-78811115 17.65 K alternative_donor CUFF.297 chr12 + chr12:58014837-58015045 chr12:58014876-58015045 chr12:58014837-58014875 chr12:58014836-58014837 47.83 N jcn_only_AA CUFF.1367 chr9 + chr9:133320383-133325658;chr9:133320383-133327610 chr9:133320383-133326988 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 41.67 N alternative_donor CUFF.460 chr15 - chr15:102202020-102211688 chr15:102202020-102204372 chr15:102204373-102211688 chr15:102211688-102211689 2.50 N alternative_donor CUFF.698 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 85.71 N intron_retention chr9 + chr9:125027825-125033142 chr9:125027824-125027825;chr9:125033142-125033143 68.09 K alternative_donor CUFF.1093,CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178043950-178044344 chr5:178044345-178045556 chr5:178045556-178045557 75.20 N jcn_only_AD CUFF.681 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 30.99 N jcn_only_AD chr14 - chr14:92105595-92112480;chr14:92105595-92126180 chr14:92105595-92136157 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 8.11 N cassette CUFF.631 chr18 + chr18:55862966-55912658;chr18:55888990-55912658;chr18:55833094-55912658 chr18:55833094-55895061,chr18:55888990-55895061,chr18:55862966-55895061;chr18:55895140-55912658 chr18:55895062-55895139 84.93 N alternative_donor CUFF.165 chr10 + chr10:124145704-124151818;chr10:124134478-124151818 chr10:124147500-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 8.33 K jcn_only_AA CUFF.1146 chr6 + chr6:32121414-32121972 chr6:32121414-32121775 chr6:32121776-32121972 chr6:32121972-32121973 93.24 N alternative_donor CUFF.964 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 33.33 N intron_retention chr16 + chr16:3115496-3115621 chr16:3115495-3115496;chr16:3115621-3115622 chr16:3115230-3115495 95.33 K intron_retention CUFF.903 chr22 + chr22:21058040-21058255 chr22:21058039-21058040;chr22:21058255-21058256 15.32 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33978155;chr19:33968997-33980901 chr19:33968997-33977808 chr19:33978156-33978244;chr19:33980902-33980963 chr19:33977809-33977904 4.12 N jcn_only_AD CUFF.409 chr15 + chr15:57213297-57565227 chr15:57555473-57565227 79.79 K intron_retention CUFF.1016 chr4 - chr4:3948645-3949468 chr4:3948644-3948645;chr4:3949468-3949469 42.03 N intron_retention chr17 + chr17:1945170-1946269 chr17:1945169-1945170;chr17:1946269-1946270 53.90 N intron_retention chr5 + chr5:134191018-134193046 chr5:134191017-134191018;chr5:134193046-134193047 81.25 K cassette CUFF.611 chr18 + chr18:180340-196636 chr18:180340-192841;chr18:192901-196636 chr18:192842-192900 85.23 K intron_retention CUFF.1279 chr8 - chr8:30657165-30670301 chr8:30657164-30657165;chr8:30670301-30670302 69.66 K alternative_last_exon CUFF.164 chr10 - chr10:123503374-123549683 chr10:123542215-123549683 chr10:123499935-123503373 chr10:123542100-123542214 17.06 N jcn_only_AA CUFF.408 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 2.52 N alternative_donor CUFF.1144,CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116980088-116981395 chr6:116981396-116981898 chr6:116981898-116981899 9.68 N alternative_donor CUFF.133,CUFF.148 chr10 - chr10:78637649-78647048 chr10:78637649-78644746 chr10:78644747-78647048 chr10:78647048-78647049 63.24 K alternative_first_exon CUFF.1244 chr7 - chr7:111201980-111202519 chr7:111201980-111202499 chr7:111202520-111202639 chr7:111202500-111202519 13.33 N alternative_donor CUFF.394 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 0.00 K intron_retention CUFF.1336 chr9 - chr9:46686830-46687372 chr9:46686829-46686830;chr9:46687372-46687373 12.00 K cassette CUFF.844 chr2 + chr2:219449445-219452308 chr2:219449445-219452027;chr2:219452124-219452308 chr2:219452028-219452123 44.74 K cassette CUFF.1374 chr9 + chr9:139815668-139818303 chr9:139815668-139816833;chr9:139816946-139818303 chr9:139816834-139816945 1.47 N cassette CUFF.780 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73215386 chr2:73195577-73195662 84.62 N intron_retention chr22 + chr22:20753981-20754921 chr22:20753980-20753981;chr22:20754921-20754922 chr22:20754922-20755048 37.50 N cassette CUFF.287 chr12 + chr12:53858637-53861004;chr12:53856352-53861004 chr12:53858637-53859715,chr12:53856352-53859715;chr12:53859758-53861004 chr12:53859716-53859757 42.32 K intron_retention CUFF.497 chr16 - chr16:23504780-23505623 chr16:23504779-23504780;chr16:23505623-23505624 6.99 N jcn_only_AD CUFF.148,CUFF.164 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 0.62 K alternative_first_exon CUFF.786 chr2 - chr2:86408496-86422460 chr2:86408496-86422044 chr2:86422461-86422683 chr2:86422045-86422125 19.15 K alternative_acceptor CUFF.1387 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 39.32 K coord_cassette CUFF.116 chr10 + chr10:6263491-6265920 chr10:6263491-6263603;chr10:6263709-6264817;chr10:6264948-6265920 chr10:6263604-6263708;chr10:6264818-6264947 99.07 N alternative_donor chr14 - chr14:71227900-71249939;chr14:71227900-71232158 chr14:71227900-71267383 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 100.00 K alternative_donor CUFF.12 chr1 + chr1:11159872-11161857 chr1:11159968-11161857 chr1:11159872-11159967 chr1:11159871-11159872 71.74 N jcn_only_AD CUFF.796 chr2 + chr2:109068923-109085435 chr2:109079142-109085435 chr2:109068923-109079141 chr2:109068922-109068923 30.43 K alternative_first_exon CUFF.1035 chr4 + chr4:57775206-57776795 chr4:57775754-57776795 chr4:57774995-57775205 chr4:57775347-57775753 55.26 K alternative_last_exon CUFF.1344 chr9 + chr9:95591446-95599058 chr9:95591446-95591955 chr9:95599059-95600022 chr9:95591956-95592045 45.08 N alternative_donor CUFF.941,CUFF.950 chr3 - chr3:33552257-33557514 chr3:33552257-33556071 chr3:33556072-33557514 chr3:33557514-33557515 4.44 K alternative_last_exon CUFF.1216 chr7 + chr7:54617864-54618445;chr7:54617864-54636823,chr7:54617864-54636701 chr7:54617864-54621559 chr7:54618446-54620224;chr7:54636824-54638776 chr7:54621560-54621619 5.53 K cassette CUFF.972 chr3 + chr3:119196296-119198754 chr3:119196296-119197180;chr3:119197322-119198754 chr3:119197181-119197321 70.33 K intron_retention CUFF.753 chr2 - chr2:27706805-27707093 chr2:27706804-27706805;chr2:27707093-27707094 18.97 K intron_retention chr6 + chr6:31928872-31929117 chr6:31928871-31928872;chr6:31929117-31929118 23.40 N jcn_only_AD CUFF.301 chr12 + chr12:72083485-72090215 chr12:72084211-72090215 chr12:72083485-72084210 chr12:72083484-72083485 25.42 K coord_cassette CUFF.453 chr15 + chr15:91341568-91352366 chr15:91341568-91346750;chr15:91346951-91347396;chr15:91347590-91352366 chr15:91346751-91346950;chr15:91347397-91347589 77.78 N alternative_donor CUFF.385 chr15 + chr15:29131425-29213842;chr15:29140756-29213842 chr15:29211691-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 0.00 K cassette CUFF.748 chr2 - chr2:11597360-11605897 chr2:11597360-11598406;chr2:11598478-11605897 chr2:11598407-11598477 32.23 N alternative_first_exon chr21 - chr21:40969917-40981509 chr21:40969917-40971267 chr21:40981510-40981592 chr21:40971268-40971583 21.21 K alternative_last_exon CUFF.405 chr15 - chr15:50793035-50821993;chr15:50805710-50821993 chr15:50793249-50821993 chr15:50792759-50793034;chr15:50805621-50805709 chr15:50793102-50793248 28.57 N alternative_donor CUFF.428 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 29.41 K cassette CUFF.1266 chr7 + chr7:157647568-157649981 chr7:157647568-157648618;chr7:157648823-157649981 chr7:157648619-157648822 19.37 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 39.16 K intron_retention CUFF.182 chr11 + chr11:3418637-3422988 chr11:3418636-3418637;chr11:3422988-3422989 chr11:3418319-3418636 74.07 N alternative_acceptor CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 26.36 N cassette CUFF.164 chr10 - chr10:123659510-123670420 chr10:123659510-123661905;chr10:123662136-123670420 chr10:123661906-123662135 94.71 N coord_cassette CUFF.30 chr1 + chr1:32541424-32557275 chr1:32541424-32542363;chr1:32542448-32542764;chr1:32542920-32557275 chr1:32542364-32542447;chr1:32542765-32542919 50.15 N jcn_only_AA CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120384135-120409799 chr4:120409800-120414487 chr4:120414487-120414488 28.38 K intron_retention CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924401-39924402;chr19:39926297-39926298 28.25 N jcn_only_AD CUFF.249 chr12 - chr12:332401-344255;chr12:332401-332911 chr12:332401-333157 14.15 K intron_retention CUFF.72 chr1 - chr1:156908306-156909339 chr1:156908305-156908306;chr1:156909339-156909340 23.21 N jcn_only_AD CUFF.856 chr2 - chr2:42180449-42181155 chr2:42180449-42180866 chr2:42180867-42181155 chr2:42181155-42181156 4.44 K intron_retention CUFF.175 chr11 + chr11:828260-828574 chr11:828259-828260;chr11:828574-828575 86.29 N alternative_donor CUFF.299 chr12 + chr12:69202272-69202987 chr12:69202867-69202987 chr12:69202272-69202866 chr12:69202271-69202272 40.36 K alternative_first_exon CUFF.527,CUFF.606 chr17 - chr17:79993940-79994057;chr17:79993940-79994066 chr17:79993940-79994022 chr17:79994067-79994198 chr17:79994023-79994055 4.96 N alternative_donor ENSG00000163961.4 chr3 - chr3:107568819-107572719 chr3:107568819-107569143 chr3:107569144-107572719 chr3:107572719-107572720 4.55 K intron_retention CUFF.52 chr1 + chr1:110212194-110213908 chr1:110212193-110212194;chr1:110213908-110213909 28.85 N jcn_only_AA CUFF.736 chr2 - chr2:242872-243502;chr2:234273-243502 chr2:242177-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 4.80 K cassette CUFF.595 chr17 - chr17:66274469-66287226 chr17:66274469-66279137;chr17:66279265-66287226 chr17:66279138-66279264 92.45 K intron_retention CUFF.73 chr1 - chr1:158464345-158464444 chr1:158464344-158464345;chr1:158464444-158464445 14.67 N jcn_only_AA CUFF.175,CUFF.208 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 4.93 N jcn_only_AA CUFF.409 chr15 + chr15:77756730-77759524 chr15:77756730-77759436 chr15:77759437-77759524 chr15:77759524-77759525 66.00 K intron_retention chr19 + chr19:17449551-17449762 chr19:17449550-17449551;chr19:17449762-17449763 10.83 K intron_retention CUFF.462 chr16 + chr16:105883-106538 chr16:105882-105883;chr16:106538-106539 chr16:105794-105882;chr16:106539-106613 5.03 K intron_retention chr2 + chr2:3469467-3481462 chr2:3469466-3469467;chr2:3481462-3481463 46.56 K intron_retention chr17 - chr17:1615694-1616996 chr17:1615693-1615694;chr17:1616996-1616997 68.18 N alternative_acceptor CUFF.933 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 0.18 K cassette CUFF.751 chr2 - chr2:23598556-23599654 chr2:23598556-23599108;chr2:23599201-23599654 chr2:23599109-23599200 90.20 N alternative_acceptor CUFF.148 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 6.76 K alternative_first_exon CUFF.1057 chr4 + chr4:124582989-124750249 chr4:124695531-124750249 chr4:124582908-124582988 chr4:124695353-124695530 43.81 N alternative_acceptor CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 3.12 N cassette CUFF.1243 chr7 - chr7:107642179-107643293 chr7:107642179-107642571;chr7:107642830-107643293 chr7:107642572-107642829 43.40 N cassette CUFF.856 chr2 - chr2:242441124-242447857 chr2:242441124-242443452;chr2:242443512-242447857 chr2:242443453-242443511 23.81 N jcn_only_AD CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122182-32122363 chr6:32122172-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 2.96 N jcn_only_AD CUFF.1146 chr6 + chr6:32122024-32122363;chr6:32122172-32122363 chr6:32122182-32122363 chr6:32122024-32122171;chr6:32122172-32122181 chr6:32122023-32122024;chr6:32122171-32122172 91.18 K intron_retention chr16 + chr16:89789592-89789667 chr16:89789591-89789592;chr16:89789667-89789668 38.00 N alternative_acceptor CUFF.108,CUFF.84 chr1 + chr1:167365665-167367230 chr1:167365665-167365769 chr1:167365770-167367230 chr1:167367230-167367231 5.26 N alternative_acceptor CUFF.301 chr12 + chr12:72083485-72090215 chr12:72083485-72084118 chr12:72084119-72090215 chr12:72090215-72090216 2.22 N alternative_donor chr7 + chr7:129015768-129019481;chr7:129008393-129019481 chr7:129017465-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 28.57 K cassette CUFF.669 chr19 - chr19:11537392-11537692 chr19:11537392-11537502;chr19:11537605-11537692 chr19:11537503-11537604 84.27 N jcn_only_AA CUFF.148 chr10 - chr10:78771802-78778770 chr10:78772316-78778770 chr10:78771802-78772315 chr10:78771801-78771802 7.28 N cassette CUFF.1333 chr9 + chr9:43861207-43884944 chr9:43861207-43875988;chr9:43876146-43884944 chr9:43875989-43876145 33.33 N jcn_only_AA CUFF.355 chr14 - chr14:75127644-75130601 chr14:75130526-75130601 89.32 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104225643-104245081 chr14:104230817-104245081 18.75 K alternative_first_exon CUFF.478 chr16 - chr16:4463406-4465766,chr16:4463406-4466785;chr16:4463406-4465715;chr16:4463406-4464307 chr16:4463406-4466459 chr16:4465716-4465751;chr16:4464308-4464367 chr16:4466460-4466962 73.50 N alternative_acceptor CUFF.743 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 0.20 N alternative_donor CUFF.1367 chr9 + chr9:133320586-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133325721-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 0.00 N jcn_only_AD CUFF.142 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 3.85 N alternative_acceptor CUFF.322 chr13 - chr13:25507675-25525534 chr13:25517160-25525534 chr13:25507675-25517159 chr13:25507674-25507675 0.00 N alternative_acceptor CUFF.917 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 3.27 N coord_cassette CUFF.1341 chr9 - chr9:86474287-86495211 chr9:86474287-86482598;chr9:86482776-86485433;chr9:86485548-86495211 chr9:86482599-86482775;chr9:86485434-86485547 91.30 N alternative_donor CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 0.00 K jcn_only_AA CUFF.1074 chr5 - chr5:36668814-36725215 chr5:36705954-36725215 63.64 N jcn_only_AD CUFF.964 chr3 + chr3:97652352-97652537;chr3:97634581-97652537 chr3:97643256-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 67.14 N intron_retention chr16 + chr16:3115689-3115781 chr16:3115688-3115689;chr16:3115781-3115782 chr16:3115782-3115827 98.27 K intron_retention CUFF.236 chr11 - chr11:118531625-118531868 chr11:118531624-118531625;chr11:118531868-118531869 3.17 N cassette CUFF.299 chr12 + chr12:69218211-69222550 chr12:69218211-69218334;chr12:69218432-69222550 chr12:69218335-69218431 79.44 N jcn_only_AD CUFF.1326 chr9 - chr9:15226011-15267911 chr9:15226011-15232229 chr9:15232230-15267911 chr9:15267911-15267912 72.34 N jcn_only_AA CUFF.1067 chr4 + chr4:120379233-120381897 chr4:120379233-120381337 chr4:120381338-120381897 chr4:120381897-120381898 71.62 K jcn_only_AA CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 36.71 N jcn_only_AA CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815432-150815560 chr7:150815561-150815591 chr7:150815591-150815592 40.16 N alternative_first_exon CUFF.923 chr22 + chr22:47158746-47185208 chr22:47159229-47185208 chr22:47158461-47158745 chr22:47159120-47159228 75.00 N jcn_only_AD CUFF.478,CUFF.509 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 2.08 K cassette CUFF.454 chr15 + chr15:94408878-94421262 chr15:94408878-94412919;chr15:94413063-94421262 chr15:94412920-94413062 15.69 N alternative_acceptor CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149 chr17:1615941-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 0.47 N intron_retention chr7 - chr7:107580804-107591670 chr7:107580803-107580804;chr7:107591670-107591671 61.45 K alternative_last_exon CUFF.402 chr15 + chr15:45741000-45753476 chr15:45741000-45752643 chr15:45753477-45753588 chr15:45752644-45752767 19.05 N alternative_acceptor CUFF.490 chr16 + chr16:3115689-3115784 chr16:3115689-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 15.80 N intron_retention CUFF.193 chr11 - chr11:10828929-10829823 chr11:10828928-10828929;chr11:10829823-10829824 81.13 K intron_retention CUFF.72 chr1 - chr1:156909078-156909339 chr1:156909077-156909078;chr1:156909339-156909340 14.12 N jcn_only_AD CUFF.728 chr19 + chr19:52901274-52901619;chr19:52901154-52901619 chr19:52901158-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 52.22 N jcn_only_AA CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439604 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 2.58 N cassette CUFF.71 chr1 - chr1:156449589-156452228 chr1:156449589-156450434;chr1:156450570-156452228 chr1:156450435-156450569 50.00 K jcn_only_AD CUFF.512,CUFF.524 chr16 - chr16:67221042-67222922 chr16:67221042-67221127 81.91 K intron_retention CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419058-120419059;chr4:120433505-120433506 40.54 N alternative_acceptor CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 55.66 N alternative_donor CUFF.894 chr21 - chr21:43342195-43362255 chr21:43342195-43346680 chr21:43346681-43362255 chr21:43362255-43362256 0.00 K intron_retention CUFF.458 chr15 + chr15:97327061-97327382 chr15:97327060-97327061;chr15:97327382-97327383 72.04 N coord_cassette CUFF.1333 chr9 + chr9:43828222-43853496 chr9:43828222-43844143;chr9:43844316-43849744;chr9:43849852-43853496 chr9:43844144-43844315;chr9:43849745-43849851 33.33 N alternative_acceptor CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 1.37 K intron_retention CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817832-150817833;chr7:150820880-150820881 16.24 K intron_retention CUFF.940 chr3 - chr3:33481349-33481950 chr3:33481348-33481349;chr3:33481950-33481951 67.57 N coord_cassette CUFF.736 chr2 - chr2:253116-264781 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263369-264781 chr2:260085-260702;chr2:262631-262786;chr2:263211-263368 55.62 K alternative_first_exon CUFF.277 chr12 - chr12:48381493-48383010 chr12:48381493-48382208 chr12:48383011-48383064 chr12:48382209-48382320 96.20 N jcn_only_AD CUFF.1219 chr7 + chr7:65610488-65617194 chr7:65615936-65617194 chr7:65610488-65615935 chr7:65610487-65610488 10.20 N alternative_acceptor CUFF.1262 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 35.71 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291159-119291578 chr11:119291046-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 18.71 K intron_retention CUFF.1094 chr5 - chr5:64887330-64887669 chr5:64887329-64887330;chr5:64887669-64887670 62.07 N intron_retention chr16 - chr16:4411805-4411985 chr16:4411804-4411805;chr16:4411985-4411986 84.31 K alternative_acceptor CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 21.21 N jcn_only_AD CUFF.110 chr1 - chr1:247302060-247322307 chr1:247302060-247313159 chr1:247313160-247322307 chr1:247322307-247322308 62.50 K alternative_donor CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927408-231931619 chr2:231927390-231927407 chr2:231927389-231927390 52.00 K alternative_donor CUFF.1186 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 14.29 N jcn_only_AD CUFF.593 chr17 + chr17:61907862-61908395 chr17:61908296-61908395 chr17:61908396-61908586 94.24 K alternative_first_exon CUFF.1151 chr6 + chr6:34452922-34494019;chr6:34434048-34494019 chr6:34482846-34494019 chr6:34433916-34434047 chr6:34482606-34482845 24.47 K cassette CUFF.814 chr2 + chr2:169668163-169684667 chr2:169668163-169681143;chr2:169681228-169684667 chr2:169681144-169681227 87.84 K cassette CUFF.1353 chr9 + chr9:116769720-116770756 chr9:116769720-116770623;chr9:116770660-116770756 chr9:116770624-116770659 29.89 N intron_retention chr16 - chr16:23478100-23478752 chr16:23478099-23478100;chr16:23478752-23478753 28.36 K intron_retention CUFF.1116 chr5 + chr5:140706205-140707336 chr5:140706204-140706205;chr5:140707336-140707337 chr5:140705755-140706204;chr5:140707337-140708924 41.38 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763336 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 12.50 K cassette CUFF.1281 chr8 - chr8:38001905-38003480 chr8:38001905-38002739;chr8:38002834-38003480 chr8:38002740-38002833 39.13 N jcn_only_AA chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 38.81 N jcn_only_AD CUFF.198 chr11 + chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36371616-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 11.65 N alternative_donor CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 4.12 N alternative_acceptor CUFF.309 chr12 - chr12:120172163-120172964 chr12:120172212-120172964 chr12:120172163-120172211 chr12:120172162-120172163 60.00 K intron_retention CUFF.1050 chr4 - chr4:99403327-99407888 chr4:99403326-99403327;chr4:99407888-99407889 18.26 K cassette CUFF.152 chr10 - chr10:80705747-80721010 chr10:80705747-80720261;chr10:80720474-80721010 chr10:80720262-80720473 50.60 N cassette CUFF.587 chr17 + chr17:61561903-61562596 chr17:61561903-61562330;chr17:61562428-61562596 chr17:61562331-61562427 61.54 N alternative_donor CUFF.490 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 25.82 N mutually_exclusive CUFF.229 chr11 + chr11:107904638-107920616,chr11:107920794-107923386 chr11:107904638-107916996,chr11:107917097-107923386 chr11:107920617-107920793 chr11:107916997-107917096 62.50 K cassette CUFF.1248 chr7 - chr7:117364787-117368142 chr7:117364787-117365105;chr7:117365312-117368142 chr7:117365106-117365311 14.16 K jcn_only_AA CUFF.739 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 7.57 N jcn_only_AD CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 chr7:86569326-86569431;chr7:86571334-86571420 23.53 K intron_retention CUFF.189 chr11 - chr11:6638385-6638531 chr11:6638384-6638385;chr11:6638531-6638532 47.76 N alternative_acceptor chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 20.00 N jcn_only_AD chr14 - chr14:104224089-104245081;chr14:104224089-104225527 chr14:104224089-104230199 26.92 N alternative_acceptor CUFF.600 chr17 - chr17:79220859-79225292;chr17:79220862-79225292 chr17:79223894-79225292 chr17:79220859-79220861;chr17:79220862-79223893 chr17:79220858-79220859;chr17:79220861-79220862 1.72 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2006819-2066700;chr1:2036335-2066700 chr1:2006207-2066700 chr1:1990980-1991030;chr1:2006629-2006818;chr1:2036131-2036334 chr1:2006089-2006206 4.23 N jcn_only_AD CUFF.1362,CUFF.1368 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 13.79 K cassette CUFF.119 chr10 - chr10:17636383-17645558 chr10:17636383-17641288;chr10:17641411-17645558 chr10:17641289-17641410 87.83 K intron_retention chr1 + chr1:110211994-110212092 chr1:110211993-110211994;chr1:110212092-110212093 1.23 K alternative_last_exon CUFF.1098 chr5 + chr5:121358103-121411009 chr5:121358103-121362636 chr5:121411010-121411236 chr5:121362637-121364314 39.38 N coord_cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311915-345853 chr6:304628-304661;chr6:311880-311914 84.74 N cassette CUFF.255 chr12 + chr12:4653078-4657257;chr12:4653071-4657257 chr12:4653078-4655474,chr12:4653071-4655474;chr12:4655585-4657257 chr12:4655475-4655584 54.87 N intron_retention chr1 - chr1:213186761-213188567 chr1:213186760-213186761;chr1:213188567-213188568 80.56 N intron_retention CUFF.509 chr16 - chr16:57513598-57513772 chr16:57513597-57513598;chr16:57513772-57513773 88.89 N intron_retention chr17 - chr17:15531376-15532187 chr17:15531375-15531376;chr17:15532187-15532188 78.23 K coord_cassette CUFF.572 chr17 - chr17:40744181-40761103 chr17:40744181-40748550;chr17:40748646-40757265;chr17:40757310-40761103 chr17:40748551-40748645;chr17:40757266-40757309 18.52 N alternative_acceptor CUFF.642 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 0.00 K intron_retention CUFF.1383 chrX - chrX:15343275-15349711 chrX:15343274-15343275;chrX:15349711-15349712 5.21 N alternative_acceptor CUFF.241 chr11 - chr11:119230945-119252182 chr11:119244232-119252182 chr11:119230945-119244231 chr11:119230944-119230945 20.00 K alternative_acceptor CUFF.606 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 14.44 K intron_retention chr2 - chr2:253116-262630 chr2:253115-253116;chr2:262630-262631 4.91 N jcn_only_AD chr3 - chr3:141724387-141747883;chr3:141724387-141772956 chr3:141724387-141809633 4.80 N alternative_acceptor CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45769966 chr15:45768751-45789310 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 0.00 K intron_retention CUFF.903 chr22 + chr22:21058172-21058255 chr22:21058171-21058172;chr22:21058255-21058256 32.03 K intron_retention CUFF.657 chr19 - chr19:6211077-6211308 chr19:6211076-6211077;chr19:6211308-6211309 20.00 N jcn_only_AD CUFF.907 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 7.89 K alternative_donor CUFF.328 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 25.91 K cassette CUFF.513 chr16 + chr16:67233660-67234094 chr16:67233660-67233853;chr16:67233905-67234094 chr16:67233854-67233904 85.71 N alternative_acceptor CUFF.1408 chrX - chrX:106235661-106236459;chrX:106229431-106236459 chrX:106059017-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 100.00 N jcn_only_AA CUFF.792 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 16.33 K cassette CUFF.887 chr21 - chr21:30963546-30971149 chr21:30963546-30968845;chr21:30968891-30971149 chr21:30968846-30968890 chr21:30963432-30963545;chr21:30971150-30971257 47.75 K cassette CUFF.1017 chr4 - chr4:6055876-6058423 chr4:6055876-6056474;chr4:6056531-6058423 chr4:6056475-6056530 54.55 N jcn_only_AD chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 83.78 N jcn_only_AA CUFF.794 chr2 + chr2:101565943-101584742;chr2:101565943-101580519 chr2:101565943-101579216 5.60 K intron_retention CUFF.1177 chr6 - chr6:133050073-133055391 chr6:133050072-133050073;chr6:133055391-133055392 44.30 N coord_cassette CUFF.1362 chr9 - chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607;chr9:130952724-130952966 chr9:130950142-130950213;chr9:130952608-130952723 91.45 N alternative_donor CUFF.142 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 1.69 N alternative_acceptor CUFF.607 chr17 + chr17:80436795-80437813;chr17:80436795-80438957 chr17:80436795-80438282 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 9.36 K cassette CUFF.1075 chr5 - chr5:37309370-37310653 chr5:37309370-37309505;chr5:37309675-37310653 chr5:37309506-37309674 68.18 N intron_retention CUFF.276 chr12 - chr12:48276558-48298737 chr12:48276557-48276558;chr12:48298737-48298738 64.29 N intron_retention chr2 - chr2:253116-264083 chr2:253115-253116;chr2:264083-264084 18.75 N jcn_only_AD chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 61.03 N intron_retention chr22 - chr22:21830450-21830932 chr22:21830449-21830450;chr22:21830932-21830933 24.07 K alternative_first_exon CUFF.511 chr16 + chr16:66613796-66620899 chr16:66614088-66620899 chr16:66613351-66613795 chr16:66614042-66614087 chr16:66620900-66621001 84.67 N alternative_donor chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 0.84 N intron_retention chr17 - chr17:1616220-1616996 chr17:1616219-1616220;chr17:1616996-1616997 70.13 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 21.05 N alternative_donor chr2 - chr2:287893-288552 chr2:287893-288012 chr2:288013-288552 chr2:288552-288553 22.00 K intron_retention CUFF.1381 chrX - chrX:13835315-13835376 chrX:13835314-13835315;chrX:13835376-13835377 21.43 K alternative_first_exon CUFF.1149 chr6 + chr6:32812648-32823914;chr6:32822067-32823914 chr6:32812052-32823914 chr6:32812549-32812647;chr6:32821895-32822066 chr6:32811870-32812051 20.45 K alternative_acceptor CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 34.48 K cassette CUFF.1041 chr4 + chr4:77172974-77184856 chr4:77172974-77177330;chr4:77177677-77184856 chr4:77177331-77177676 23.91 N intron_retention chr2 - chr2:242440335-242440892 chr2:242440334-242440335;chr2:242440892-242440893 79.10 K intron_retention CUFF.235 chr11 + chr11:118403923-118404571 chr11:118403922-118403923;chr11:118404571-118404572 2.78 N cassette CUFF.724 chr19 - chr19:51534178-51537235 chr19:51534178-51535131;chr19:51535392-51537235 chr19:51535132-51535391 23.91 N coord_cassette CUFF.299 chr12 + chr12:69214155-69233053 chr12:69214155-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 32.35 K intron_retention CUFF.983 chr3 - chr3:125725408-125725956 chr3:125725407-125725408;chr3:125725956-125725957 64.56 K cassette CUFF.405 chr15 - chr15:50831049-50838669 chr15:50831049-50833245;chr15:50833462-50838669 chr15:50833246-50833461 68.29 K alternative_first_exon CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100818093-100822377 chr7:100823323-100823557 chr7:100822378-100822516 30.10 N alternative_first_exon CUFF.626 chr18 - chr18:44486279-44500021;chr18:44486279-44497964 chr18:44486279-44497284 chr18:44497965-44498045 chr18:44497285-44497537 17.48 K jcn_only_AD CUFF.1251 chr7 + chr7:129019591-129028896 chr7:129028782-129028896 44.66 N jcn_only_AA chr20 - chr20:1517957-1532336 chr20:1517960-1532336 chr20:1517957-1517959 chr20:1517956-1517957 45.76 N cassette CUFF.1142 chr6 + chr6:31928872-31929323 chr6:31928872-31929117;chr6:31929164-31929323 chr6:31929118-31929163 36.07 N intron_retention CUFF.239 chr11 + chr11:119056220-119056630 chr11:119056219-119056220;chr11:119056630-119056631 chr11:119056112-119056219 66.10 N alternative_acceptor chr11 + chr11:827712-828259 chr11:827712-828229 chr11:828230-828259 chr11:828259-828260 58.82 N intron_retention chr7 + chr7:107204693-107205032 chr7:107204692-107204693;chr7:107205032-107205033 91.43 K coord_cassette CUFF.256 chr12 - chr12:7091066-7125577 chr12:7091066-7091836;chr12:7091944-7092592;chr12:7092701-7125577 chr12:7091837-7091943;chr12:7092593-7092700 75.42 N alternative_donor CUFF.652 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 8.89 N alternative_first_exon CUFF.955 chr3 - chr3:196214450-196229743 chr3:196214450-196215477 chr3:196229744-196230639 chr3:196215478-196215554 12.50 N jcn_only_AD CUFF.84 chr1 + chr1:167353189-167358824 chr1:167356485-167358824 chr1:167353189-167356484 chr1:167353188-167353189 48.04 K intron_retention CUFF.798 chr2 - chr2:110883259-110886762 chr2:110883258-110883259;chr2:110886762-110886763 15.05 N cassette CUFF.256 chr12 - chr12:7088742-7090755 chr12:7088742-7090165;chr12:7090345-7090755 chr12:7090166-7090344 89.36 K alternative_acceptor CUFF.1158,CUFF.1169 chr6 + chr6:46638966-46644383 chr6:46638966-46644119 chr6:46644120-46644383 chr6:46644383-46644384 52.59 N alternative_donor CUFF.108 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 0.00 N jcn_only_AA CUFF.1081,CUFF.1111 chr5 + chr5:139915124-139916973 chr5:139915124-139916922 chr5:139916923-139916973 chr5:139916973-139916974 chr5:139914947-139915123;chr5:139916974-139917174 43.36 N coord_cassette CUFF.1262 chr7 - chr7:156626487-156685621 chr7:156626487-156627171;chr7:156627270-156629506;chr7:156629580-156685621 chr7:156627172-156627269;chr7:156629507-156629579 61.67 N jcn_only_AA CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 18.88 K cassette CUFF.510 chr16 - chr16:63565209-63651596 chr16:63565209-63566720;chr16:63566836-63651596 chr16:63566721-63566835 13.40 N alternative_donor chr7 - chr7:37433521-37488462 chr7:37433521-37488277 chr7:37488278-37488462 chr7:37488462-37488463 87.56 K alternative_first_exon CUFF.1162 chr6 + chr6:88066222-88074678 chr6:88068920-88074678 chr6:88066019-88066221 chr6:88068843-88068919 2.79 N intron_retention chr19 - chr19:40903878-40904526 chr19:40903877-40903878;chr19:40904526-40904527 50.00 K intron_retention CUFF.337 chr14 + chr14:24569423-24571961 chr14:24569422-24569423;chr14:24571961-24571962 14.88 N jcn_only_AA CUFF.1238 chr7 - chr7:102462651-102553532 chr7:102524760-102553532 82.74 K intron_retention CUFF.500 chr16 - chr16:30004879-30004960 chr16:30004878-30004879;chr16:30004960-30004961 34.17 N jcn_only_AD CUFF.756 chr2 + chr2:33487889-33488360 chr2:33487892-33488360 chr2:33487889-33487891 chr2:33487888-33487889 36.00 K alternative_donor CUFF.324 chr13 + chr13:33629453-33634815 chr13:33629503-33634815 chr13:33629453-33629502 chr13:33629452-33629453 86.00 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 42.11 N cassette CUFF.193 chr11 - chr11:10828433-10829823;chr11:10828433-10830251 chr11:10828433-10828801;chr11:10828929-10829823,chr11:10828929-10830251 chr11:10828802-10828928 78.82 N cassette CUFF.1282 chr8 - chr8:56652778-56663522;chr8:56652778-56657619 chr8:56652778-56656039;chr8:56656180-56663522,chr8:56656180-56657619 chr8:56656040-56656179 58.65 N cassette CUFF.299 chr12 + chr12:69207409-69222550;chr12:69214155-69222550 chr12:69207409-69218142,chr12:69214155-69218142;chr12:69218211-69222550 chr12:69218143-69218210 51.28 N alternative_donor CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 17.05 K coord_cassette CUFF.599 chr17 - chr17:76994046-77005745 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77005745 chr17:76994230-76994368;chr17:76996182-76996352 51.67 N coord_cassette CUFF.297 chr12 + chr12:58017882-58018648 chr12:58017882-58018282;chr12:58018390-58018506;chr12:58018577-58018648 chr12:58018283-58018389;chr12:58018507-58018576 31.43 N cassette CUFF.183 chr11 - chr11:5701469-5706097 chr11:5701469-5705215;chr11:5705370-5706097 chr11:5705216-5705369 99.41 N cassette CUFF.355 chr14 - chr14:75159032-75179635 chr14:75159032-75165466;chr14:75165560-75179635 chr14:75165467-75165559 54.76 K jcn_only_AD CUFF.210 chr11 + chr11:65480527-65480818 chr11:65480530-65480818 chr11:65480527-65480529 chr11:65480526-65480527 92.70 K intron_retention CUFF.539 chr17 - chr17:15496810-15498061 chr17:15496809-15496810;chr17:15498061-15498062 4.72 N jcn_only_AA CUFF.591 chr17 - chr17:61843555-61850771 chr17:61850224-61850771 chr17:61843555-61850223 chr17:61843554-61843555 11.11 N alternative_acceptor CUFF.401 chr15 - chr15:45491299-45492924;chr15:45491319-45492924 chr15:45470505-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 99.66 N coord_cassette CUFF.449 chr15 - chr15:83687606-83698887 chr15:83687606-83689426;chr15:83689515-83697367;chr15:83697481-83698887 chr15:83689427-83689514;chr15:83697368-83697480 59.26 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34818106 chr7:34724297-34725362 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 0.00 K alternative_first_exon CUFF.1081 chr5 + chr5:50680565-50683323 chr5:50682461-50683323 chr5:50680375-50680564 chr5:50681971-50682460 chr5:50683324-50683583 70.27 K intron_retention CUFF.1305 chr8 - chr8:99055004-99057170 chr8:99055003-99055004;chr8:99057170-99057171 10.62 N jcn_only_AA CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586273-107591814 chr3:107586425-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 23.88 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29669726 chr22:29668421-29674119 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 20.93 N alternative_acceptor CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483852-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483834-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 35.16 N alternative_donor CUFF.933,CUFF.958 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 0.00 N jcn_only_AA CUFF.736 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 2.87 N jcn_only_AA CUFF.950 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 39.18 K alternative_last_exon CUFF.1028 chr4 - chr4:36152667-36160351 chr4:36159173-36160351 chr4:36152522-36152666 chr4:36159032-36159172 67.86 K alternative_acceptor CUFF.1090 chr5 - chr5:54569206-54570441 chr5:54569255-54570441 chr5:54569206-54569254 chr5:54569205-54569206 36.84 N jcn_only_AA chr1 + chr1:32540679-32541267 chr1:32540679-32541203 chr1:32541204-32541267 chr1:32541267-32541268 91.73 N alternative_acceptor CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 17.50 K mutually_exclusive CUFF.923 chr22 + chr22:47308085-47370185,chr22:47370296-47393529 chr22:47308085-47309229,chr22:47309343-47393529 chr22:47370186-47370295 chr22:47309230-47309342 47.37 N jcn_only_AD CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 33.77 N alternative_acceptor chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 14.29 N alternative_acceptor CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478830-79478928 chr17:79478653-79478829 chr17:79478652-79478653 25.48 N jcn_only_AA CUFF.723 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 8.28 N mutually_exclusive CUFF.193 chr11 - chr11:10827595-10828801,chr11:10828929-10830251 chr11:10827595-10828366,chr11:10828433-10830251 chr11:10828802-10828928 chr11:10828367-10828432 8.84 N intron_retention chr11 - chr11:10830291-10830428 chr11:10830290-10830291;chr11:10830428-10830429 95.68 K intron_retention CUFF.683 chr19 + chr19:18120849-18121004 chr19:18120848-18120849;chr19:18121004-18121005 4.96 K intron_retention CUFF.419 chr15 + chr15:64444050-64444836 chr15:64444049-64444050;chr15:64444836-64444837 93.75 N alternative_donor CUFF.1062,CUFF.1065 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 0.00 N jcn_only_AD CUFF.152,CUFF.164 chr10 - chr10:80808690-80814352 chr10:80808690-80810038 chr10:80810039-80814352 chr10:80814352-80814353 23.91 N intron_retention CUFF.509 chr16 - chr16:57513598-57513756 chr16:57513597-57513598;chr16:57513756-57513757 92.63 N alternative_acceptor CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 14.58 K cassette CUFF.1393 chrX + chrX:47028898-47032526 chrX:47028898-47030426;chrX:47030658-47032526 chrX:47030427-47030657 86.21 N jcn_only_AD CUFF.593 chr17 + chr17:61904875-61905497 chr17:61905284-61905497 chr17:61904875-61905283 chr17:61904874-61904875 chr17:61905498-61905569;chr17:61904778-61904874 57.43 N alternative_acceptor CUFF.490 chr16 + chr16:19576273-19580745 chr16:19576273-19580565 chr16:19580566-19580745 chr16:19580745-19580746 8.42 K intron_retention CUFF.959 chr3 - chr3:73432957-73433799 chr3:73432956-73432957;chr3:73433799-73433800 76.72 K coord_cassette CUFF.1257 chr7 + chr7:150831656-150838984 chr7:150831656-150835229;chr7:150835401-150837065;chr7:150837204-150838984 chr7:150835230-150835400;chr7:150837066-150837203 26.15 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 67.01 N alternative_donor CUFF.769 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 13.26 K alternative_first_exon CUFF.599 chr17 - chr17:77001564-77005745 chr17:77001564-77004144 chr17:77005746-77006035 chr17:77004145-77004235 7.14 N alternative_first_exon chr10 - chr10:73973090-73975534,chr10:73973090-73976578;chr10:73973090-73975964 chr10:73973090-73975539 chr10:73975965-73976063 chr10:73975540-73975867 50.00 N jcn_only_AA CUFF.1257 chr7 + chr7:150817833-150820880 chr7:150817833-150819811 chr7:150819812-150820880 chr7:150820880-150820881 15.52 K jcn_only_AD CUFF.712 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 42.31 N jcn_only_AD CUFF.354 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 11.54 N alternative_donor CUFF.497 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 5.11 K cassette CUFF.286 chr12 - chr12:53467256-53468878 chr12:53467256-53468432;chr12:53468569-53468878 chr12:53468433-53468568 94.80 N cassette CUFF.806 chr2 + chr2:160569173-160585519 chr2:160569173-160572191;chr2:160572278-160585519 chr2:160572192-160572277 25.58 K cassette CUFF.712 chr19 - chr19:49316606-49316919 chr19:49316606-49316712;chr19:49316810-49316919 chr19:49316713-49316809 53.23 K intron_retention CUFF.237 chr11 - chr11:118923142-118923348 chr11:118923141-118923142;chr11:118923348-118923349 4.17 K intron_retention CUFF.1257 chr7 + chr7:150837204-150838984 chr7:150837203-150837204;chr7:150838984-150838985 45.16 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13486242;chr6:13470863-13472212 chr6:13470863-13486869 chr6:13486243-13486486;chr6:13472213-13472329 chr6:13486870-13486935 18.18 N alternative_donor CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012145-51012236 chr22:51012237-51012763 chr22:51012763-51012764 10.81 N coord_cassette CUFF.490 chr16 + chr16:19621738-19637498 chr16:19621738-19623049;chr16:19623121-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19623050-19623120;chr16:19627436-19627513;chr16:19628008-19628130 77.93 N jcn_only_AD CUFF.497,CUFF.500 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 2.45 K intron_retention CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220861-79220862;chr17:79225292-79225293 3.15 N cassette CUFF.1163 chr6 + chr6:90333777-90337301 chr6:90333777-90334257;chr6:90334411-90337301 chr6:90334258-90334410 80.07 N alternative_donor chr11 - chr11:407569-407851 chr11:407569-407816 chr11:407817-407851 chr11:407851-407852 86.93 N alternative_acceptor CUFF.669 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 0.00 K cassette CUFF.93 chr1 - chr1:202861788-202863311 chr1:202861788-202862366;chr1:202862554-202863311 chr1:202862367-202862553 55.36 N alternative_donor CUFF.462 chr16 + chr16:105543-105793 chr16:105550-105793 chr16:105543-105549 chr16:105542-105543 chr16:105794-105882;chr16:105459-105542 7.50 N intron_retention chr19 + chr19:17447967-17448816 chr19:17447966-17447967;chr19:17448816-17448817 95.80 N jcn_only_AA chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 70.18 N alternative_donor CUFF.1238 chr7 - chr7:102608565-102665509 chr7:102608565-102613596 chr7:102613597-102665509 chr7:102665509-102665510 0.00 K intron_retention CUFF.683 chr19 + chr19:18119928-18120400 chr19:18119927-18119928;chr19:18120400-18120401 23.81 K intron_retention CUFF.976 chr3 + chr3:119529042-119530385 chr3:119529041-119529042;chr3:119530385-119530386 18.95 N jcn_only_AD chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 chr6:112557980-112558117 46.03 K intron_retention CUFF.256 chr12 - chr12:7086908-7087502 chr12:7086907-7086908;chr12:7087502-7087503 37.62 N cassette CUFF.1043 chr4 - chr4:77969816-77977114 chr4:77969816-77976302;chr4:77976534-77977114 chr4:77976303-77976533 78.26 N jcn_only_AA CUFF.669 chr19 - chr19:11541841-11545593 chr19:11545352-11545593 chr19:11541841-11545351 chr19:11541840-11541841 16.22 N alternative_donor CUFF.142 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 1.66 N intron_retention chr7 + chr7:107234551-107236313 chr7:107234550-107234551;chr7:107236313-107236314 55.56 N jcn_only_AD CUFF.1421 chrX + chrX:148867506-148867663;chrX:148863659-148867663 chrX:148863691-148867663 chrX:148863659-148863690;chrX:148863691-148867505 chrX:148863658-148863659;chrX:148863690-148863691 chrX:148867664-148867732;chrX:148863584-148863658 9.17 K alternative_first_exon CUFF.733 chr19 - chr19:56344282-56348075 chr19:56344282-56347701 chr19:56348076-56348164 chr19:56347702-56348040 40.00 K alternative_last_exon CUFF.1169 chr6 + chr6:112375609-112382193 chr6:112375609-112375825 chr6:112382194-112382497 chr6:112375826-112376094 34.34 N alternative_acceptor CUFF.925 chr22 - chr22:51018232-51018402 chr22:51018260-51018402 chr22:51018232-51018259 chr22:51018231-51018232 73.24 N alternative_acceptor CUFF.1384,CUFF.1389 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 0.31 K intron_retention CUFF.606 chr17 - chr17:79994640-79994734 chr17:79994639-79994640;chr17:79994734-79994735 3.55 N jcn_only_AA CUFF.933 chr3 - chr3:27297863-27326092 chr3:27320465-27326092 chr3:27297863-27320464 chr3:27297862-27297863 4.96 N alternative_acceptor CUFF.1262 chr7 - chr7:156469378-156471770;chr7:156471045-156471770 chr7:156469319-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 16.07 K intron_retention CUFF.193 chr11 - chr11:10821716-10821790 chr11:10821715-10821716;chr11:10821790-10821791 69.89 K alternative_last_exon CUFF.116 chr10 + chr10:6268329-6274857 chr10:6268329-6270158 chr10:6274858-6277495 chr10:6270159-6270241 84.84 N jcn_only_AD CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107240748-107240841 chr7:107236448-107240747 chr7:107236447-107236448 9.15 K intron_retention CUFF.142 chr10 - chr10:73973036-73975964 chr10:73973035-73973036;chr10:73975964-73975965 61.14 N jcn_only_AA CUFF.1384,CUFF.1389 chrX + chrX:15706982-15711085 chrX:15706982-15709260 chrX:15709261-15711085 chrX:15711085-15711086 4.12 N cassette CUFF.522 chr16 + chr16:77769884-77775478 chr16:77769884-77770546;chr16:77770641-77775478 chr16:77770547-77770640 40.43 K alternative_donor CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 12.20 N cassette CUFF.86 chr1 - chr1:169696667-169698326;chr1:169697069-169698326 chr1:169696667-169697198,chr1:169697069-169697198;chr1:169697388-169698326 chr1:169697199-169697387 26.95 N alternative_acceptor CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953196-161953385 chr1:161953126-161953195 chr1:161953125-161953126 60.42 N alternative_donor CUFF.409 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 2.15 N intron_retention CUFF.736 chr2 - chr2:260703-262630 chr2:260702-260703;chr2:262630-262631 87.50 K alternative_acceptor CUFF.285 chr12 - chr12:52993087-52994810 chr12:52993194-52994810 chr12:52993087-52993193 chr12:52993086-52993087 45.45 N cassette CUFF.272 chr12 - chr12:25699489-25801427 chr12:25699489-25702259;chr12:25702481-25801427 chr12:25702260-25702480 79.81 N alternative_donor CUFF.339 chr14 - chr14:31355533-31358348 chr14:31355533-31358325 chr14:31358326-31358348 chr14:31358348-31358349 33.33 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 34.81 K jcn_only_AA CUFF.856 chr2 - chr2:242441124-242447420 chr2:242441215-242447420 chr2:242441124-242441214 chr2:242441123-242441124 20.88 N alternative_donor chr17 - chr17:79354385-79358745;chr17:79354385-79355676 chr17:79354385-79358928 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 74.36 N intron_retention chr17 - chr17:79894738-79895068 chr17:79894737-79894738;chr17:79895068-79895069 75.76 N jcn_only_AD CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 84.00 N alternative_acceptor CUFF.319 chr13 - chr13:24415628-24432998 chr13:24416709-24432998 chr13:24415628-24416708 chr13:24415627-24415628 30.77 N intron_retention chr17 - chr17:79894738-79895103 chr17:79894737-79894738;chr17:79895103-79895104 83.93 K intron_retention CUFF.607 chr17 + chr17:80436795-80438957 chr17:80436794-80436795;chr17:80438957-80438958 32.38 N cassette CUFF.596 chr17 + chr17:66509120-66511534;chr17:66508690-66511534;chr17:66508284-66511534 chr17:66509120-66511127,chr17:66508690-66511127,chr17:66508284-66511127;chr17:66511261-66511534 chr17:66511128-66511260 chr17:66507921-66508283;chr17:66511535-66511717 12.10 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 42.86 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470207 chr19:11468416-11470282 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 47.62 N alternative_acceptor CUFF.736 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 1.88 N jcn_only_AA CUFF.126 chr10 - chr10:35349853-35351887 chr10:35349897-35351887 chr10:35349853-35349896 chr10:35349852-35349853 95.28 N intron_retention CUFF.593 chr17 + chr17:61904875-61905033 chr17:61904874-61904875;chr17:61905033-61905034 chr17:61904778-61904874 73.28 K cassette CUFF.116 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6268154 chr10:6266112-6266176 99.18 N mutually_exclusive CUFF.473 chr16 + chr16:3117417-3118180,chr16:3118241-3118990 chr16:3117417-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 chr16:3117378-3117416 77.08 N alternative_first_exon chr9 - chr9:125652825-125667388 chr9:125652825-125655187 chr9:125667389-125667637 chr9:125655188-125655305 73.68 N jcn_only_AD CUFF.517 chr16 - chr16:70268196-70274909 chr16:70268196-70268899 chr16:70268900-70274909 chr16:70274909-70274910 8.75 N alternative_donor CUFF.354 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 0.00 N jcn_only_AD CUFF.473 chr16 + chr16:3115689-3115781;chr16:3115712-3115781 chr16:3115496-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 88.73 K alternative_last_exon CUFF.639 chr18 + chr18:63430289-63476939 chr18:63430289-63470350 chr18:63476940-63477234 chr18:63470351-63471041 73.44 N coord_cassette CUFF.566 chr17 - chr17:34500807-34503839 chr17:34500807-34502089;chr17:34502176-34502338;chr17:34502412-34503839 chr17:34502090-34502175;chr17:34502339-34502411 15.00 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291097-119291578;chr11:119291046-119291578 chr11:119291159-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 26.62 K cassette CUFF.818 chr2 + chr2:171356319-171371430 chr2:171356319-171358294;chr2:171358376-171371430 chr2:171358295-171358375 72.34 N cassette CUFF.835 chr2 - chr2:204335037-204354306;chr2:204326649-204354306 chr2:204326649-204341798,chr2:204335037-204341798;chr2:204341880-204354306 chr2:204341799-204341879 43.48 N jcn_only_AA CUFF.287 chr12 + chr12:53865592-53873189 chr12:53865592-53868652 chr12:53868653-53873189 chr12:53873189-53873190 0.28 K intron_retention chr12 - chr12:7090345-7090755 chr12:7090344-7090345;chr12:7090755-7090756 30.84 K cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483599-44497284 chr18:44483490-44483598 66.56 N jcn_only_AD CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 13.51 N jcn_only_AA chr19 + chr19:17597767-17597982 chr19:17597767-17597908 9.65 K jcn_only_AA CUFF.16 chr1 - chr1:16909254-16918341 chr1:16916497-16918341 7.41 K intron_retention chr16 + chr16:3117615-3117984 chr16:3117614-3117615;chr16:3117984-3117985 chr16:3117378-3117614 26.30 N cassette CUFF.164 chr10 - chr10:123670667-123681863 chr10:123670667-123673304;chr10:123673409-123681863 chr10:123673305-123673408 19.56 N alternative_donor CUFF.1183 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 14.84 N intron_retention chr17 - chr17:40738156-40761103 chr17:40738155-40738156;chr17:40761103-40761104 21.43 N jcn_only_AA CUFF.142 chr10 - chr10:73972044-73972944;chr10:73970590-73972944 chr10:73956748-73972944 4.91 N jcn_only_AD CUFF.575,CUFF.602 chr17 - chr17:42113669-42114779 chr17:42113669-42114229 chr17:42114230-42114779 chr17:42114779-42114780 10.34 K alternative_acceptor CUFF.753 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 89.74 K intron_retention CUFF.399 chr15 - chr15:44858208-44858414 chr15:44858207-44858208;chr15:44858414-44858415 14.47 N coord_cassette CUFF.350 chr14 + chr14:61451522-61497162 chr14:61451522-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61482622-61482674;chr14:61486259-61486298 88.26 K cassette CUFF.1111 chr5 + chr5:139886563-139889221 chr5:139886563-139887369;chr5:139887584-139889221 chr5:139887370-139887583 chr5:139886420-139886562;chr5:139889222-139889397 71.74 N jcn_only_AD CUFF.357 chr14 + chr14:76150000-76156534 chr14:76156205-76156534 chr14:76150000-76156204 chr14:76149999-76150000 26.24 N alternative_acceptor CUFF.352 chr14 - chr14:69584993-69585910 chr14:69584996-69585910 chr14:69584993-69584995 chr14:69584992-69584993 71.25 K alternative_donor CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712391-21716489 chr16:21712349-21712390 chr16:21712348-21712349 4.08 N alternative_first_exon CUFF.631 chr18 + chr18:55758860-55833019,chr18:55816802-55833019,chr18:55816792-55833019,chr18:55713251-55833019,chr18:55712848-55833019,chr18:55722109-55833019,chr18:55714743-55833019;chr18:55711941-55833019 chr18:55713021-55833019 chr18:55711599-55711940 chr18:55712870-55713020 6.19 N intron_retention chr8 + chr8:144356973-144358172 chr8:144356972-144356973;chr8:144358172-144358173 78.16 N intron_retention chr1 + chr1:145578296-145578400 chr1:145578295-145578296;chr1:145578400-145578401 96.24 K alternative_acceptor CUFF.207 chr11 + chr11:63669803-63670075 chr11:63669803-63670072 chr11:63670073-63670075 chr11:63670075-63670076 chr11:63669670-63669802;chr11:63670076-63670254 7.62 N alternative_donor CUFF.124 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 0.00 N alternative_acceptor CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 1.81 N jcn_only_AA CUFF.911,CUFF.917 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 1.21 N jcn_only_AD CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404992-52407470 chr12:52404926-52404991 chr12:52404925-52404926 9.78 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38948753;chr7:38937730-38971877 chr7:38937730-38969071 chr7:38948754-38948865;chr7:38971878-38972085 chr7:38969072-38969236 30.40 N jcn_only_AD CUFF.619 chr18 + chr18:14791491-14796341 chr18:14796249-14796341 chr18:14791491-14796248 chr18:14791490-14791491 14.29 K intron_retention CUFF.478 chr16 - chr16:4408485-4409296 chr16:4408484-4408485;chr16:4409296-4409297 7.05 N mutually_exclusive CUFF.235 chr11 + chr11:118402587-118403631,chr11:118403923-118404134 chr11:118402587-118402864,chr11:118403177-118404134 chr11:118403632-118403922 chr11:118402865-118403176 91.14 K cassette CUFF.1213 chr7 - chr7:38835212-38836344 chr7:38835212-38836014;chr7:38836127-38836344 chr7:38836015-38836126 49.11 K intron_retention CUFF.281 chr12 + chr12:50357440-50357874 chr12:50357439-50357440;chr12:50357874-50357875 27.03 K intron_retention CUFF.177 chr11 - chr11:2188747-2189095 chr11:2188746-2188747;chr11:2189095-2189096 28.21 K intron_retention chr1 + chr1:245246991-245254795 chr1:245246990-245246991;chr1:245254795-245254796 81.03 K cassette CUFF.207 chr11 + chr11:63670631-63672257 chr11:63670631-63671457;chr11:63671620-63672257 chr11:63671458-63671619 chr11:63670533-63670630;chr11:63672258-63672515 20.87 K intron_retention CUFF.171 chr11 - chr11:407165-407424 chr11:407164-407165;chr11:407424-407425 28.07 N jcn_only_AA CUFF.175 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 27.05 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47185208;chr22:47185369-47188416;chr22:47188474-47189397 chr22:47185209-47185368;chr22:47188417-47188473 68.89 K intron_retention CUFF.857 chr2 + chr2:242608101-242610140 chr2:242608100-242608101;chr2:242610140-242610141 11.17 K cassette CUFF.341 chr14 + chr14:50069187-50080973 chr14:50069187-50074117;chr14:50074840-50080973 chr14:50074118-50074839 97.45 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845 chr17:79894738-79895103 7.83 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117511643;chr7:117501371-117512157 chr7:117501371-117514054 chr7:117511644-117511775;chr7:117512158-117512306 chr7:117514055-117514277 33.57 K intron_retention CUFF.1144 chr6 - chr6:31938925-31939705 chr6:31938924-31938925;chr6:31939705-31939706 29.67 K alternative_first_exon CUFF.493 chr16 + chr16:21712349-21716489,chr16:21712391-21716489 chr16:21716359-21716489 chr16:21712209-21712348 chr16:21716356-21716358 15.05 N alternative_acceptor CUFF.921 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 1.26 N jcn_only_AA CUFF.367 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 86.36 N alternative_last_exon CUFF.951 chr3 - chr3:49315885-49318176 chr3:49316336-49318176 chr3:49315264-49315884 chr3:49316247-49316335 56.76 N alternative_acceptor CUFF.76,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 88.68 N jcn_only_AA CUFF.294 chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 29.05 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77276431;chr14:77275987-77278647 chr14:77275987-77280649 chr14:77276432-77276494;chr14:77278648-77278992 chr14:77280650-77280764 14.81 N alternative_acceptor CUFF.148 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 0.00 K coord_cassette CUFF.84 chr1 + chr1:167190196-167301706 chr1:167190196-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 82.64 K intron_retention CUFF.942 chr3 - chr3:33644082-33644443 chr3:33644081-33644082;chr3:33644443-33644444 58.82 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69616147 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 58.77 K intron_retention CUFF.1425 chrX + chrX:153608380-153608593 chrX:153608379-153608380;chrX:153608593-153608594 6.19 N alternative_donor CUFF.401,CUFF.406 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 20.25 K alternative_first_exon CUFF.354 chr14 - chr14:71216799-71227718 chr14:71216799-71219654 chr14:71227719-71227899 chr14:71219655-71219716 48.72 N jcn_only_AA CUFF.277 chr12 - chr12:48396825-48398019;chr12:48394878-48398019 chr12:48393909-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 32.28 N intron_retention chr6 - chr6:30711974-30712085 chr6:30711973-30711974;chr6:30712085-30712086 60.00 N jcn_only_AD CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186782405-186790636 chr3:186769135-186782404 chr3:186769134-186769135 21.90 N jcn_only_AD CUFF.607 chr17 + chr17:80439088-80441591 chr17:80441181-80441591 chr17:80439088-80441180 chr17:80439087-80439088 9.69 K alternative_last_exon CUFF.303 chr12 - chr12:77254194-77256955 chr12:77256740-77256955 chr12:77254064-77254193 chr12:77256520-77256739 24.29 N jcn_only_AD CUFF.814 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 28.43 N jcn_only_AA chr19 + chr19:17581517-17594690;chr19:17581517-17598268 chr19:17581517-17597371 81.67 N jcn_only_AA chr11 + chr11:36398255-36400930;chr11:36398255-36422546 chr11:36398255-36415395 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 25.06 K alternative_first_exon CUFF.63 chr1 - chr1:151158427-151162599;chr1:151158427-151167754 chr1:151158427-151162480 chr1:151167755-151167870 chr1:151162481-151162664 85.82 N jcn_only_AD CUFF.452 chr15 - chr15:90380955-90391824;chr15:90380955-90414706;chr15:90380955-90381260 chr15:90380955-90395592 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 13.85 N alternative_acceptor chr1 + chr1:110211994-110212257 chr1:110211994-110212092 chr1:110212093-110212257 chr1:110212257-110212258 89.04 N intron_retention chrX - chrX:46382561-46387769 chrX:46382560-46382561;chrX:46387769-46387770 30.38 N alternative_donor CUFF.473 chr16 + chr16:3115689-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115712-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 16.40 K intron_retention CUFF.599 chr17 - chr17:76991304-76993073 chr17:76991303-76991304;chr17:76993073-76993074 34.48 N alternative_donor CUFF.1402 chrX - chrX:20252933-20285156 chrX:20252933-20258686 chrX:20258687-20285156 chrX:20285156-20285157 3.70 N intron_retention chr2 - chr2:110882901-110883213 chr2:110882900-110882901;chr2:110883213-110883214 61.70 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 58.20 N jcn_only_AD CUFF.309 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 26.44 N jcn_only_AD chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 30.19 K jcn_only_AA CUFF.1387 chrX - chrX:20183080-20185706 chrX:20183179-20185706 chrX:20183080-20183178 chrX:20183079-20183080 50.00 N jcn_only_AA CUFF.357 chr14 + chr14:76219299-76230957 chr14:76219299-76224173 chr14:76224174-76230957 chr14:76230957-76230958 49.48 K cassette CUFF.543 chr17 + chr17:15603092-15604465 chr17:15603092-15603361;chr17:15603483-15604465 chr17:15603362-15603482 82.56 K alternative_donor CUFF.1075,CUFF.1094 chr5 - chr5:37364487-37370922 chr5:37364487-37370767 chr5:37370768-37370922 chr5:37370922-37370923 60.87 K cassette CUFF.1394 chrX - chrX:53570930-53571989 chrX:53570930-53571520;chrX:53571724-53571989 chrX:53571521-53571723 17.94 K cassette CUFF.478 chr16 - chr16:4445341-4455491 chr16:4445341-4447318;chr16:4447452-4455491 chr16:4447319-4447451 16.60 K cassette CUFF.396 chr15 - chr15:41108452-41120584 chr15:41108452-41109429;chr15:41109546-41120584 chr15:41109430-41109545 58.51 N alternative_acceptor CUFF.953 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 77.55 N jcn_only_AD CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995325 chr17:79994890-79995506 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 12.84 N jcn_only_AA CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 14.55 K coord_cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007365-4007505 chr2:4006842-4006985;chr2:4007154-4007364 63.41 K alternative_first_exon CUFF.226 chr11 - chr11:102954056-102962515 chr11:102954056-102959955 chr11:102962516-102962991 chr11:102959956-102960047 45.95 N jcn_only_AD chr7 + chr7:129015768-129019481;chr7:129017465-129019481 chr7:129008393-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 7.84 N alternative_acceptor chr11 + chr11:36398255-36400930;chr11:36398255-36422546 chr11:36398255-36415395 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 11.32 K cassette CUFF.1086 chr5 - chr5:54415747-54420630 chr5:54415747-54416252;chr5:54416379-54420630 chr5:54416253-54416378 93.29 N alternative_donor CUFF.94 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 0.00 K jcn_only_AA CUFF.870,CUFF.879 chr20 + chr20:30132839-30136831 chr20:30132839-30136767 chr20:30136768-30136831 chr20:30136831-30136832 2.02 N alternative_acceptor CUFF.22 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 35.19 N jcn_only_AD CUFF.1241 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 28.33 K cassette CUFF.967 chr3 - chr3:107591874-107594976 chr3:107591874-107594305;chr3:107594422-107594976 chr3:107594306-107594421 14.65 N jcn_only_AA CUFF.22 chr1 - chr1:27436269-27480473 chr1:27440778-27480473 chr1:27436269-27440777 chr1:27436268-27436269 92.07 N jcn_only_AD CUFF.596 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 91.73 N alternative_acceptor CUFF.907 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 0.00 N jcn_only_AA chr7 - chr7:117424509-117431344 chr7:117426480-117431344 chr7:117424509-117426479 chr7:117424508-117424509 60.00 N intron_retention chr11 + chr11:118404267-118404571 chr11:118404266-118404267;chr11:118404571-118404572 6.67 N jcn_only_AA CUFF.325 chr13 + chr13:21205242-21228014 chr13:21205242-21212470 88.28 N alternative_donor CUFF.951 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 13.89 N alternative_donor CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 72.58 N jcn_only_AD chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 85.02 N jcn_only_AD chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 34.62 N cassette CUFF.736 chr2 - chr2:260703-263210;chr2:253116-264781;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262787-264781,chr2:262787-263210 chr2:262631-262786 60.10 N jcn_only_AD CUFF.239 chr11 + chr11:119056875-119057187 chr11:119056951-119057187 chr11:119056875-119056950 chr11:119056874-119056875 chr11:119057188-119057399;chr11:119056634-119056874 17.65 N jcn_only_AA CUFF.401 chr15 - chr15:45464201-45464344 chr15:45464277-45464344 chr15:45464201-45464276 chr15:45464200-45464201 6.97 N alternative_acceptor CUFF.1230 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 chr7:86544039-86544176;chr7:86542257-86542381 97.83 N jcn_only_AD CUFF.1054 chr4 + chr4:120434076-120449894 chr4:120434126-120449894 chr4:120434076-120434125 chr4:120434075-120434076 32.43 K intron_retention CUFF.419 chr15 + chr15:64444526-64444836 chr15:64444525-64444526;chr15:64444836-64444837 84.21 K cassette CUFF.1024 chr4 + chr4:20555592-20568884 chr4:20555592-20555930;chr4:20555964-20568884 chr4:20555931-20555963 37.31 N alternative_acceptor CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 4.61 N intron_retention chr22 - chr22:21842671-21846282 chr22:21842670-21842671;chr22:21846282-21846283 15.62 K cassette CUFF.164 chr10 - chr10:123629554-123661905 chr10:123629554-123658355;chr10:123658485-123661905 chr10:123658356-123658484 31.03 N coord_cassette CUFF.1257 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150817606;chr7:150817833-150819811 chr7:150817074-150817232;chr7:150817607-150817832 60.99 N alternative_acceptor CUFF.1304,CUFF.1322 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 2.86 N intron_retention chr1 - chr1:27425496-27425702 chr1:27425495-27425496;chr1:27425702-27425703 45.10 K cassette CUFF.1125 chr5 - chr5:178032384-178039416 chr5:178032384-178035376;chr5:178035460-178039416 chr5:178035377-178035459 58.21 K cassette CUFF.742 chr2 + chr2:1204917-1243509 chr2:1204917-1241659;chr2:1241790-1243509 chr2:1241660-1241789 93.53 N jcn_only_AA CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524042-66524771 chr17:66524772-66525010 chr17:66525010-66525011 2.10 N intron_retention chr11 + chr11:117072658-117073717 chr11:117072657-117072658;chr11:117073717-117073718 80.49 N jcn_only_AD CUFF.142 chr10 - chr10:73963283-73970489 chr10:73963283-73964179 chr10:73964180-73970489 chr10:73970489-73970490 31.97 N cassette CUFF.265 chr12 + chr12:13349807-13366614 chr12:13349807-13366412;chr12:13366510-13366614 chr12:13366413-13366509 62.91 N jcn_only_AD chr4 - chr4:152065203-152069073 chr4:152065203-152065371 25.71 K jcn_only_AD CUFF.755 chr2 - chr2:31412345-31414264 chr2:31412345-31412532 52.87 N coord_cassette CUFF.350 chr14 + chr14:61497242-61504342 chr14:61497242-61500736;chr14:61500832-61503776;chr14:61503860-61504342 chr14:61500737-61500831;chr14:61503777-61503859 80.00 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 28.12 N alternative_last_exon CUFF.265 chr12 + chr12:1742072-1754959 chr12:1742072-1748849 chr12:1754960-1756409 chr12:1748850-1749142 75.20 N jcn_only_AA chr19 - chr19:6148341-6199486;chr19:6176455-6199486 chr19:6192041-6199486 16.67 N alternative_donor CUFF.304 chr12 - chr12:7086688-7087582 chr12:7086688-7086759 chr12:7086760-7087582 chr12:7087582-7087583 86.42 K cassette CUFF.145 chr10 - chr10:75479058-75480295 chr10:75479058-75479764;chr10:75479953-75480295 chr10:75479765-75479952 42.22 N mutually_exclusive CUFF.71 chr1 - chr1:156449589-156450625,chr1:156450764-156452228 chr1:156449589-156450434,chr1:156450570-156452228 chr1:156450626-156450763 chr1:156450435-156450569 50.00 N jcn_only_AD CUFF.81 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 35.56 N jcn_only_AD chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 85.00 N coord_cassette CUFF.753 chr2 - chr2:27668317-27668795 chr2:27668317-27668419;chr2:27668497-27668611;chr2:27668711-27668795 chr2:27668420-27668496;chr2:27668612-27668710 70.21 N alternative_donor CUFF.1380,CUFF.1381 chrX - chrX:13798109-13801483 chrX:13798109-13799033 chrX:13799034-13801483 chrX:13801483-13801484 2.52 K alternative_last_exon CUFF.888 chr21 - chr21:39427076-39492400;chr21:39325309-39492400 chr21:39471433-39492400 chr21:39426314-39427075;chr21:39325124-39325308 chr21:39471371-39471432 29.10 N jcn_only_AD CUFF.985 chr3 + chr3:126152048-126153018 chr3:126152318-126153018 chr3:126152048-126152317 chr3:126152047-126152048 27.20 N alternative_first_exon CUFF.1133 chr6 - chr6:114289861-114292020 chr6:114289861-114291643 chr6:114292021-114292449 chr6:114291644-114291742 42.11 K cassette CUFF.192 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949230-8950923 chr11:8949050-8949229 47.42 N jcn_only_AD CUFF.941,CUFF.995 chr3 - chr3:33614847-33617660;chr3:33614847-33615964 chr3:33614847-33614931 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 1.47 N intron_retention chr16 - chr16:15154031-15155645 chr16:15154030-15154031;chr16:15155645-15155646 59.46 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056557 chr11:119056220-119056630 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 4.01 N alternative_acceptor CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017078;chr3:19992554-20012039 chr3:19992554-20017134 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 16.67 N intron_retention chr19 - chr19:41531571-41531572 chr19:41531570-41531571;chr19:41531572-41531573 95.24 K jcn_only_AD CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 97.46 K alternative_last_exon CUFF.1193 chr7 + chr7:195733-208897 chr7:195733-197129 chr7:208898-208976 chr7:197130-197130 8.42 N jcn_only_AD CUFF.1160 chr6 - chr6:128563748-128718710 chr6:128563748-128643183 89.39 N alternative_donor CUFF.988 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 0.61 N alternative_acceptor CUFF.601 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 98.12 N alternative_donor CUFF.883 chr21 + chr21:15642931-15651916 chr21:15646479-15651916 chr21:15642931-15646478 chr21:15642930-15642931 36.84 K jcn_only_AD CUFF.1057 chr4 + chr4:124571485-124573941 chr4:124571488-124573941 chr4:124571485-124571487 chr4:124571484-124571485 87.50 N intron_retention chr3 - chr3:124951499-124951952 chr3:124951498-124951499;chr3:124951952-124951953 82.35 K intron_retention CUFF.446 chr15 - chr15:83357251-83357487 chr15:83357250-83357251;chr15:83357487-83357488 43.24 N alternative_donor CUFF.583 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 5.96 K alternative_first_exon CUFF.1049 chr4 - chr4:85416998-85418711 chr4:85416998-85417645 chr4:85418712-85419651 chr4:85417646-85418103 10.53 N cassette CUFF.1018 chr4 - chr4:6377659-6382723 chr4:6377659-6380133;chr4:6380300-6382723 chr4:6380134-6380299 47.60 N alternative_donor CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86569432-86570667 chr7:86570668-86571333 chr7:86571333-86571334 chr7:86569326-86569431;chr7:86571334-86571420 4.88 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 54.55 K alternative_first_exon CUFF.1272,CUFF.1303 chr8 - chr8:96081464-96085156 chr8:96081464-96084944 chr8:96085157-96085499 chr8:96084945-96085148 2.78 N alternative_acceptor CUFF.452 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 95.75 K intron_retention CUFF.193 chr11 - chr11:10827595-10828801 chr11:10827594-10827595;chr11:10828801-10828802 23.15 N alternative_acceptor CUFF.649 chr19 + chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439714 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 7.28 K alternative_last_exon CUFF.1073 chr5 + chr5:36177395-36183941 chr5:36177395-36181919 chr5:36183942-36184416 chr5:36181920-36182603 76.07 K coord_cassette CUFF.674 chr19 - chr19:14863339-14867049 chr19:14863339-14865765;chr19:14865940-14866465;chr19:14866690-14867049 chr19:14865766-14865939;chr19:14866466-14866689 28.48 N jcn_only_AA CUFF.369 chr14 + chr14:92958585-92959819 chr14:92958585-92959170 chr14:92959171-92959819 chr14:92959819-92959820 2.61 K intron_retention CUFF.294 chr12 - chr12:56708751-56708913 chr12:56708750-56708751;chr12:56708913-56708914 4.83 K jcn_only_AD CUFF.255 chr12 + chr12:4662256-4668022;chr12:4665669-4668022 chr12:4665717-4668022 26.32 K intron_retention CUFF.763 chr2 - chr2:46842325-46844108 chr2:46842324-46842325;chr2:46844108-46844109 32.47 N jcn_only_AD CUFF.110 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 14.29 K cassette CUFF.490 chr16 + chr16:19584564-19590373 chr16:19584564-19586419;chr16:19586445-19590373 chr16:19586420-19586444 90.99 K alternative_first_exon CUFF.506 chr16 + chr16:56269297-56309842,chr16:56227625-56309842;chr16:56226529-56309842 chr16:56260484-56309842 chr16:56226486-56226528 chr16:56260393-56260483 3.24 K jcn_only_AD CUFF.223 chr11 - chr11:94705358-94706661 chr11:94705358-94706452 chr11:94706453-94706661 chr11:94706661-94706662 22.40 K alternative_first_exon CUFF.178 chr11 + chr11:2466715-2542708 chr11:2483208-2542708 chr11:2466456-2466714 chr11:2483053-2483207 62.96 N alternative_donor CUFF.517 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 89.71 K jcn_only_AD CUFF.755,CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 82.11 N alternative_acceptor CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482350 chr2:33477912-33482509 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 20.00 N jcn_only_AA CUFF.1230 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 chr7:86542257-86542520;chr7:86541388-86541487 94.81 N coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44486189;chr18:44486279-44497284 chr18:44473394-44473494;chr18:44483490-44483596;chr18:44486190-44486278 20.47 K alternative_last_exon CUFF.272 chr12 - chr12:25655973-25656671,chr12:25652931-25656671;chr12:25650729-25656671;chr12:25562365-25656671 chr12:25629395-25656671 chr12:25650513-25650728;chr12:25562235-25562364 chr12:25629088-25629394 24.00 N cassette CUFF.431 chr15 - chr15:77544869-77578764 chr15:77544869-77577299;chr15:77577398-77578764 chr15:77577300-77577397 89.06 N alternative_acceptor chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 4.80 K cassette CUFF.599 chr17 - chr17:76994046-77001453;chr17:76994369-77005745;chr17:76994046-77005745 chr17:76994369-76996181,chr17:76994046-76996181;chr17:76996353-77001453,chr17:76996353-77005745 chr17:76996182-76996352 63.04 N alternative_donor CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 3.34 N jcn_only_AA CUFF.941 chr3 - chr3:33614847-33617660 chr3:33615989-33617660 chr3:33614847-33615988 chr3:33614846-33614847 19.71 N jcn_only_AD chr17 - chr17:79263609-79269221 chr17:79263609-79268622 chr17:79268623-79269221 chr17:79269221-79269222 87.18 K intron_retention CUFF.899 chr22 + chr22:19420131-19420787 chr22:19420130-19420131;chr22:19420787-19420788 20.22 N jcn_only_AD chr14 - chr14:104224089-104230199;chr14:104224089-104225527 chr14:104224089-104245081 42.31 K cassette CUFF.255 chr12 + chr12:4662314-4668022 chr12:4662314-4665518;chr12:4665717-4668022 chr12:4665519-4665716 50.00 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 22.98 N mutually_exclusive CUFF.122 chr10 - chr10:27040713-27047990,chr10:27048168-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048167 chr10:27044584-27044670 6.35 K intron_retention CUFF.983 chr3 - chr3:125741776-125745177 chr3:125741775-125741776;chr3:125745177-125745178 10.58 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3470024;chr2:3470165-3482616 chr2:3470025-3470164 54.55 K jcn_only_AA CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483810-131483929 chr9:131483782-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 51.23 K alternative_last_exon CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171885-3172410 chr20:3170992-3171465 chr20:3171836-3171884 48.74 N jcn_only_AA CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 3.51 N alternative_donor CUFF.69 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 6.25 N jcn_only_AA chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 65.52 K intron_retention CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478652-79478653;chr17:79478928-79478929 20.55 K cassette CUFF.1393 chrX + chrX:47038895-47039278 chrX:47038895-47039082;chrX:47039181-47039278 chrX:47039083-47039180 20.55 K jcn_only_AD CUFF.1361,CUFF.1368 chr9 - chr9:135702442-135703399 chr9:135702442-135702693 65.91 N jcn_only_AD CUFF.1017 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6196218-6201979 chr4:6201979-6201980 7.08 N jcn_only_AD CUFF.382 chr15 + chr15:24819892-24820053 chr15:24819961-24820053 chr15:24819892-24819960 chr15:24819891-24819892 56.00 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 66.09 N alternative_donor CUFF.165 chr10 + chr10:124145704-124151818;chr10:124147500-124151818 chr10:124134478-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 75.00 N jcn_only_AA CUFF.1170 chr6 + chr6:112664981-112668493 chr6:112664981-112666240 chr6:112666241-112668493 chr6:112668493-112668494 chr6:112664600-112664980;chr6:112668494-112668609 26.56 K coord_cassette CUFF.171 chr11 - chr11:408207-409867 chr11:408207-408694;chr11:408894-409216;chr11:409309-409867 chr11:408695-408893;chr11:409217-409308 58.76 K intron_retention CUFF.1315 chr8 + chr8:118541049-118542961 chr8:118541048-118541049;chr8:118542961-118542962 87.21 K alternative_first_exon CUFF.1188 chr6 + chr6:161488329-161491639;chr6:161413116-161491639 chr6:161471012-161491639 chr6:161412759-161413115 chr6:161469648-161471011 80.00 K cassette CUFF.1073 chr5 + chr5:36166765-36170445 chr5:36166765-36168414;chr5:36168550-36170445 chr5:36168415-36168549 38.20 N cassette CUFF.1401 chrX + chrX:78005721-78006706 chrX:78005721-78006226;chrX:78006290-78006706 chrX:78006227-78006289 75.56 N jcn_only_AA CUFF.1262 chr7 - chr7:156471045-156471770;chr7:156469319-156471770 chr7:156469378-156471770 chr7:156469319-156469377;chr7:156469378-156471044 chr7:156469318-156469319;chr7:156469377-156469378 64.52 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 85.38 N alternative_donor CUFF.805 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 0.00 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2036335-2066700;chr1:2006207-2066700 chr1:2006819-2066700 chr1:1990980-1991030;chr1:2036131-2036334;chr1:2006089-2006206 chr1:2006629-2006818 12.53 K intron_retention CUFF.593 chr17 + chr17:61907310-61907630 chr17:61907309-61907310;chr17:61907630-61907631 chr17:61907212-61907309;chr17:61907631-61907861 28.23 K coord_cassette CUFF.160 chr10 + chr10:106937932-106970894 chr10:106937932-106959756;chr10:106959875-106960877;chr10:106961012-106970894 chr10:106959757-106959874;chr10:106960878-106961011 40.00 K intron_retention CUFF.650 chr19 + chr19:4306210-4323020 chr19:4306209-4306210;chr19:4323020-4323021 62.79 K intron_retention chr14 + chr14:61518854-61519066 chr14:61518853-61518854;chr14:61519066-61519067 13.70 N alternative_acceptor chr12 + chr12:13366756-13367504 chr12:13366756-13367467 chr12:13367468-13367504 chr12:13367504-13367505 84.73 N jcn_only_AA CUFF.1262 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 16.14 N alternative_donor CUFF.601 chr17 - chr17:79354385-79358928;chr17:79354385-79355676 chr17:79354385-79358745 chr17:79355677-79358745;chr17:79358746-79358928 chr17:79358745-79358746;chr17:79358928-79358929 23.08 N jcn_only_AA CUFF.55 chr1 - chr1:120529706-120539619 chr1:120539370-120539619 chr1:120529706-120539369 chr1:120529705-120529706 1.79 N cassette CUFF.54 chr1 - chr1:114424620-114429870;chr1:114423763-114429870 chr1:114423763-114429158,chr1:114424620-114429158;chr1:114429281-114429870 chr1:114429159-114429280 41.26 K intron_retention CUFF.180 chr11 - chr11:2905365-2905899 chr11:2905364-2905365;chr11:2905899-2905900 29.53 K intron_retention CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616189-1616190;chr17:1617149-1617150 49.20 N alternative_acceptor chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 15.38 N jcn_only_AA CUFF.872 chr20 - chr20:31062546-31099149;chr20:31074605-31099149 chr20:31097744-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 25.97 N alternative_acceptor CUFF.135 chr10 + chr10:48231815-48235818 chr10:48231815-48235121 chr10:48235122-48235818 chr10:48235818-48235819 0.00 N alternative_acceptor CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070149-117070348 chr11:117070349-117073717 chr11:117073717-117073718 23.26 K cassette CUFF.1091 chr5 + chr5:56531860-56542126 chr5:56531860-56532939;chr5:56533000-56542126 chr5:56532940-56532999 31.43 K cassette CUFF.1333 chr9 + chr9:43885073-43890295 chr9:43885073-43887610;chr9:43887734-43890295 chr9:43887611-43887733 64.41 N jcn_only_AD CUFF.1411 chrX + chrX:107395089-107396208 chrX:107395236-107396208 chrX:107395089-107395235 chrX:107395088-107395089 5.80 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117511643;chr7:117501371-117514054 chr7:117501371-117512157 chr7:117511644-117511775;chr7:117514055-117514277 chr7:117512158-117512306 16.43 K intron_retention CUFF.798 chr2 - chr2:110881641-110883213 chr2:110881640-110881641;chr2:110883213-110883214 21.84 N jcn_only_AD CUFF.769,CUFF.786 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61761557 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 37.50 N jcn_only_AA CUFF.210,CUFF.216 chr11 + chr11:65479751-65479849 chr11:65479751-65479820 chr11:65479821-65479849 chr11:65479849-65479850 32.69 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49332631-49351092 chr12:49349981-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 61.50 N intron_retention chr17 - chr17:56081080-56082283 chr17:56081079-56081080;chr17:56082283-56082284 87.09 N alternative_donor CUFF.402 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 8.33 N jcn_only_AA chr10 + chr10:5123094-5138601 chr10:5123094-5123873 chr10:5123874-5138601 chr10:5138601-5138602 26.83 K intron_retention CUFF.213 chr11 - chr11:67766846-67766988 chr11:67766845-67766846;chr11:67766988-67766989 5.38 N cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-77005745 chr17:76993922-76994045 80.73 N alternative_acceptor CUFF.463 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 7.37 N cassette CUFF.607 chr17 + chr17:80417949-80426639 chr17:80417949-80422162;chr17:80422307-80426639 chr17:80422163-80422306 89.01 N cassette CUFF.1296 chr8 - chr8:80954904-80962679;chr8:80954904-80963761 chr8:80954904-80956401;chr8:80956444-80963761,chr8:80956444-80962679 chr8:80956402-80956443 75.78 K intron_retention chr22 + chr22:29684776-29686401 chr22:29684775-29684776;chr22:29686401-29686402 31.91 K intron_retention CUFF.494 chr16 + chr16:21976827-21979948 chr16:21976826-21976827;chr16:21979948-21979949 20.83 N jcn_only_AD CUFF.1018 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 55.73 N jcn_only_AD CUFF.463 chr16 + chr16:583999-596816 chr16:586143-596816 chr16:583999-586142 chr16:583998-583999 7.84 N intron_retention chr22 - chr22:30735024-30736197 chr22:30735023-30735024;chr22:30736197-30736198 16.00 K intron_retention CUFF.361 chr14 + chr14:77929103-77935419 chr14:77929102-77929103;chr14:77935419-77935420 82.00 N alternative_donor CUFF.5 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 91.16 K alternative_first_exon CUFF.611 chr18 + chr18:158715-162982 chr18:159022-162982 chr18:158309-158714 chr18:158885-159021 36.59 N jcn_only_AA CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 33.43 N alternative_donor chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 35.29 K alternative_donor CUFF.493 chr16 + chr16:21716614-21721208 chr16:21716766-21721208 chr16:21716614-21716765 chr16:21716613-21716614 7.38 N intron_retention chr17 + chr17:66508690-66509050 chr17:66508689-66508690;chr17:66509050-66509051 75.82 N jcn_only_AA CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 3.49 N jcn_only_AA chr2 + chr2:101565943-101579216;chr2:101565943-101584742 chr2:101565943-101580519 85.20 K alternative_acceptor CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 75.00 N jcn_only_AD CUFF.558 chr17 + chr17:29687722-29701030 chr17:29694297-29701030 chr17:29687722-29694296 chr17:29687721-29687722 20.43 N jcn_only_AA chr7 + chr7:129008393-129019481 chr7:129008393-129019478 chr7:129019479-129019481 chr7:129019481-129019482 95.92 N jcn_only_AA CUFF.754 chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 62.66 K intron_retention CUFF.824 chr2 - chr2:175869809-175869933 chr2:175869808-175869809;chr2:175869933-175869934 8.64 K jcn_only_AA CUFF.1294,CUFF.1317 chr8 + chr8:124629084-124646553 chr8:124629084-124637926 57.14 N jcn_only_AA CUFF.756 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 21.82 K alternative_acceptor CUFF.851 chr2 + chr2:231934883-231937046 chr2:231934883-231936902 chr2:231936903-231937046 chr2:231937046-231937047 34.15 K jcn_only_AA CUFF.705 chr19 + chr19:44764092-44768480 chr19:44764092-44768466 chr19:44768467-44768480 chr19:44768480-44768481 47.22 K alternative_first_exon CUFF.1122 chr5 - chr5:162516353-162852808 chr5:162516353-162683856 chr5:162852809-162852926 chr5:162683857-162684021 43.90 N coord_cassette CUFF.122 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048168-27054146 chr10:27044584-27044670;chr10:27047991-27048167 58.76 N jcn_only_AA CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637652-78647048 chr10:78637649-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 26.46 N cassette CUFF.84 chr1 + chr1:167353189-167365522 chr1:167353189-167358824;chr1:167358999-167365522 chr1:167358825-167358998 91.73 K cassette CUFF.249 chr12 - chr12:347177-351779 chr12:347177-347336;chr12:347510-351779 chr12:347337-347509 67.25 K intron_retention CUFF.419 chr15 + chr15:64445539-64445850 chr15:64445538-64445539;chr15:64445850-64445851 28.12 N cassette CUFF.736 chr2 - chr2:253116-263210;chr2:253116-262630 chr2:253116-260084;chr2:260703-262630,chr2:260703-263210 chr2:260085-260702 60.67 N alternative_donor CUFF.1202 chr7 - chr7:102234690-102234938 chr7:102234690-102234893 chr7:102234894-102234938 chr7:102234938-102234939 10.34 K coord_cassette CUFF.391 chr15 + chr15:40545491-40556981 chr15:40545491-40549043;chr15:40549288-40555999;chr15:40556121-40556981 chr15:40549044-40549287;chr15:40556000-40556120 30.59 K alternative_donor CUFF.1111 chr5 + chr5:139917820-139918503 chr5:139917847-139918503 chr5:139917820-139917846 chr5:139917819-139917820 chr5:139918504-139918668;chr5:139917671-139917819 73.88 K alternative_first_exon CUFF.1146 chr6 + chr6:32122555-32123464 chr6:32122961-32123464 chr6:32122364-32122554 chr6:32122784-32122960 55.39 K alternative_acceptor CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131485019-131486272 chr9:131484854-131485018 chr9:131484853-131484854 74.55 N intron_retention chr11 - chr11:6632684-6632894 chr11:6632683-6632684;chr11:6632894-6632895 12.28 K intron_retention CUFF.210 chr11 + chr11:65482382-65484137 chr11:65482381-65482382;chr11:65484137-65484138 21.88 K cassette CUFF.137 chr10 + chr10:60029065-60036876 chr10:60029065-60035877;chr10:60035973-60036876 chr10:60035878-60035972 62.33 K jcn_only_AD CUFF.1326,CUFF.1347 chr9 - chr9:104188921-104192090 chr9:104188921-104189763 21.43 K alternative_donor CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 90.26 N jcn_only_AA chr6 - chr6:133050119-133055391 chr6:133052667-133055391 46.78 N alternative_donor CUFF.315 chr13 + chr13:21179245-21189931 chr13:21188575-21189931 chr13:21179245-21188574 chr13:21179244-21179245 0.00 N alternative_donor chr6 + chr6:112558118-112604255 chr6:112600441-112604255 chr6:112558118-112600440 chr6:112558117-112558118 chr6:112557980-112558117 0.00 K jcn_only_AD CUFF.780 chr2 - chr2:73285726-73286222 chr2:73285726-73286136 chr2:73286137-73286222 chr2:73286222-73286223 38.30 K intron_retention CUFF.1150 chr6 + chr6:33244045-33244167 chr6:33244044-33244045;chr6:33244167-33244168 18.00 K jcn_only_AD CUFF.200 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 59.46 K jcn_only_AD CUFF.851 chr2 + chr2:231927390-231931619 chr2:231927408-231931619 chr2:231927390-231927407 chr2:231927389-231927390 64.71 K alternative_last_exon CUFF.743 chr2 + chr2:3482705-3488490 chr2:3482705-3482989 chr2:3488491-3488865 chr2:3482990-3483343 75.49 N alternative_acceptor CUFF.270 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 1.68 K alternative_last_exon CUFF.446 chr15 - chr15:83357251-83357487;chr15:83350333-83357487 chr15:83355772-83357487 chr15:83357210-83357250;chr15:83350172-83350332 chr15:83355213-83355771 41.89 N alternative_acceptor CUFF.1054 chr4 + chr4:120419059-120433505 chr4:120419059-120420715 chr4:120420716-120433505 chr4:120433505-120433506 12.00 K coord_cassette CUFF.81 chr1 + chr1:166810326-166818174 chr1:166810326-166815848;chr1:166815976-166816730;chr1:166816830-166818174 chr1:166815849-166815975;chr1:166816731-166816829 16.90 N alternative_acceptor CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 4.59 N alternative_acceptor CUFF.1385 chrX - chrX:19948773-19955622 chrX:19954017-19955622 chrX:19948773-19954016 chrX:19948772-19948773 5.26 N alternative_donor CUFF.988 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 100.00 K mutually_exclusive CUFF.786 chr2 - chr2:86393768-86398330,chr2:86398505-86400772 chr2:86393768-86397871,chr2:86397965-86400772 chr2:86398331-86398504 chr2:86397872-86397964 95.35 N alternative_acceptor CUFF.409 chr15 + chr15:57484492-57489970 chr15:57484492-57486223 chr15:57486224-57489970 chr15:57489970-57489971 0.00 K intron_retention CUFF.1226 chr7 + chr7:75045695-75045764 chr7:75045694-75045695;chr7:75045764-75045765 98.25 K intron_retention CUFF.695 chr19 - chr19:39924059-39924161 chr19:39924058-39924059;chr19:39924161-39924162 12.88 K intron_retention CUFF.710 chr19 - chr19:49300591-49302931 chr19:49300590-49300591;chr19:49302931-49302932 7.66 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 83.04 K alternative_first_exon CUFF.1222 chr7 + chr7:73098232-73100965,chr7:73098254-73100965;chr7:73097714-73100965 chr7:73098135-73100965,chr7:73098331-73100965 chr7:73097355-73097713 chr7:73098097-73098134 84.69 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 6.25 N alternative_first_exon CUFF.373 chr14 - chr14:104202540-104205015 chr14:104202540-104204030 chr14:104205016-104205149 chr14:104204031-104204153 30.51 K intron_retention chr11 - chr11:118926284-118926461 chr11:118926283-118926284;chr11:118926461-118926462 10.46 K coord_cassette CUFF.974 chr3 - chr3:119246689-119263396 chr3:119246689-119248688;chr3:119248785-119255983;chr3:119256266-119263396 chr3:119248689-119248784;chr3:119255984-119256265 44.00 N jcn_only_AA chr11 + chr11:36398255-36415395;chr11:36398255-36422546 chr11:36398255-36400930 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 64.53 K jcn_only_AD CUFF.517 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 86.43 N intron_retention chr19 + chr19:16191886-16192722 chr19:16191885-16191886;chr19:16192722-16192723 54.32 K intron_retention CUFF.914 chr22 - chr22:30742509-30748939 chr22:30742508-30742509;chr22:30748939-30748940 48.72 N cassette CUFF.30 chr1 + chr1:32541424-32557275;chr1:32541424-32542764 chr1:32541424-32542363;chr1:32542448-32542764,chr1:32542448-32557275 chr1:32542364-32542447 51.78 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123464;chr6:32122555-32123544 chr6:32122555-32122806 56.66 N alternative_acceptor chr9 + chr9:125027218-125027740;chr9:125027218-125033231 chr9:125027218-125033142 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 93.20 N alternative_donor CUFF.690,CUFF.695 chr19 - chr19:33878388-33878795 chr19:33878388-33878560 chr19:33878561-33878795 chr19:33878795-33878796 8.51 N jcn_only_AA chr15 + chr15:45768751-45789310;chr15:45768751-45769966 chr15:45768751-45804570 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 71.43 N jcn_only_AA CUFF.466,CUFF.473 chr16 + chr16:603042-604553 chr16:603042-603338 chr16:603339-604553 chr16:604553-604554 16.99 N coord_cassette CUFF.991 chr3 - chr3:141697525-141747420 chr3:141697525-141712379;chr3:141712428-141713861;chr3:141713984-141747420 chr3:141712380-141712427;chr3:141713862-141713983 84.71 K intron_retention CUFF.593 chr17 + chr17:61908786-61908865 chr17:61908785-61908786;chr17:61908865-61908866 chr17:61908687-61908785;chr17:61908866-61908976 3.53 N jcn_only_AA CUFF.388,CUFF.428 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 53.85 N jcn_only_AD chr2 - chr2:263373-263563;chr2:263373-264083 chr2:263373-264781 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 87.45 N jcn_only_AD CUFF.394 chr15 + chr15:40780407-40800530 chr15:40800267-40800530 chr15:40780407-40800266 chr15:40780406-40780407 94.44 K alternative_first_exon CUFF.113 chr10 - chr10:532471-735433 chr10:532471-629528 chr10:735434-735770 chr10:629529-629652 chr10:532399-532470 8.89 N alternative_donor CUFF.935 chr3 + chr3:28357915-28360999;chr3:28358351-28360999 chr3:28360371-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 7.50 N alternative_donor CUFF.270 chr12 - chr12:22671072-22676359 chr12:22671072-22671973 chr12:22671974-22676359 chr12:22676359-22676360 7.69 K intron_retention CUFF.1232 chr7 + chr7:91718844-91722410 chr7:91718843-91718844;chr7:91722410-91722411 35.29 K cassette CUFF.193 chr11 - chr11:10822635-10823595 chr11:10822635-10823207;chr11:10823322-10823595 chr11:10823208-10823321 46.38 K alternative_first_exon CUFF.13 chr1 - chr1:11710892-11715696;chr1:11710892-11714375 chr1:11710892-11713447 chr1:11714376-11714739 chr1:11713448-11713670 24.48 N jcn_only_AA chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 95.76 N cassette CUFF.399 chr15 - chr15:44859791-44862722 chr15:44859791-44861595;chr15:44861704-44862722 chr15:44861596-44861703 32.37 K intron_retention CUFF.1378 chrX - chrX:9000503-9000999 chrX:9000502-9000503;chrX:9000999-9001000 5.31 N intron_retention chr2 + chr2:242594063-242606059 chr2:242594062-242594063;chr2:242606059-242606060 63.04 N alternative_donor CUFF.135 chr10 + chr10:48231815-48235818 chr10:48235174-48235818 chr10:48231815-48235173 chr10:48231814-48231815 0.00 N alternative_donor CUFF.736 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 60.00 N jcn_only_AD CUFF.133 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 25.40 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73618301;chr3:73453547-73523605 chr3:73453547-73605850 chr3:73610602-73610793;chr3:73618302-73618634;chr3:73523606-73523825 chr3:73605851-73606140 40.00 N jcn_only_AD CUFF.402 chr15 + chr15:45741000-45752643 chr15:45751249-45752643 chr15:45741000-45751248 chr15:45740999-45741000 59.26 K jcn_only_AA CUFF.1122 chr5 - chr5:162516353-162852808 chr5:162683994-162852808 32.95 K coord_cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250440;chr7:44250531-44250621;chr7:44250724-44251845 chr7:44250441-44250530;chr7:44250622-44250723 20.59 N intron_retention chr16 + chr16:3117615-3118180 chr16:3117614-3117615;chr16:3118180-3118181 chr16:3117378-3117614 82.86 N mutually_exclusive CUFF.991 chr3 - chr3:141697525-141724282,chr3:141724387-141747420 chr3:141697525-141713861,chr3:141713984-141747420 chr3:141724283-141724386 chr3:141713862-141713983 7.64 N intron_retention chr17 + chr17:29684388-29685497 chr17:29684387-29684388;chr17:29685497-29685498 17.83 N alternative_donor CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 50.00 N jcn_only_AD chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130953710 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 55.17 N jcn_only_AA CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 36.84 K coord_cassette CUFF.1381 chrX - chrX:13803928-13834962 chrX:13803928-13825768;chrX:13825889-13830989;chrX:13831028-13834962 chrX:13825769-13825888;chrX:13830990-13831027 46.71 K jcn_only_AA CUFF.743,CUFF.796 chr2 + chr2:109085541-109086106 chr2:109085541-109085755 18.92 K jcn_only_AD CUFF.513 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 81.56 K intron_retention CUFF.676 chr19 + chr19:16178549-16186856 chr19:16178548-16178549;chr19:16186856-16186857 12.15 N jcn_only_AD CUFF.171 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 14.02 N intron_retention chr17 - chr17:79479387-79479489 chr17:79479386-79479387;chr17:79479489-79479490 31.25 N jcn_only_AD CUFF.805 chr2 + chr2:153497429-153504309 chr2:153500059-153504309 chr2:153497429-153500058 chr2:153497428-153497429 70.00 N cassette CUFF.287 chr12 + chr12:53856352-53859715;chr12:53856352-53861004 chr12:53856352-53858543;chr12:53858637-53859715,chr12:53858637-53861004 chr12:53858544-53858636 21.89 K intron_retention CUFF.593 chr17 + chr17:61907550-61907630 chr17:61907549-61907550;chr17:61907630-61907631 chr17:61907493-61907549;chr17:61907631-61907861 9.53 K intron_retention CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937093-31937094;chr6:31937291-31937292 44.21 N alternative_acceptor CUFF.375 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 0.00 K jcn_only_AA CUFF.204 chr11 + chr11:61608198-61615630 chr11:61608198-61615292 chr11:61615293-61615630 chr11:61615630-61615631 14.52 N cassette CUFF.84 chr1 + chr1:167341274-167345265 chr1:167341274-167343344;chr1:167343534-167345265 chr1:167343345-167343533 90.48 K alternative_last_exon CUFF.742,CUFF.804 chr2 + chr2:139326797-139331421 chr2:139326797-139328337 chr2:139331422-139332028 chr2:139328338-139328645 chr2:139326565-139326796 63.64 K intron_retention CUFF.715 chr19 + chr19:50305399-50305790 chr19:50305398-50305399;chr19:50305790-50305791 23.33 N alternative_acceptor CUFF.113 chr10 - chr10:410523-412214 chr10:410962-412214 chr10:410523-410961 chr10:410522-410523 chr10:412215-412351;chr10:410314-410522 64.29 N jcn_only_AD CUFF.520 chr16 - chr16:75575354-75576499 chr16:75575354-75576452 chr16:75576453-75576499 chr16:75576499-75576500 5.35 K intron_retention CUFF.428 chr15 + chr15:74753977-74773545 chr15:74753976-74753977;chr15:74773545-74773546 14.14 N alternative_donor chr11 - chr11:2192001-2192926 chr11:2192001-2192914 chr11:2192915-2192926 chr11:2192926-2192927 48.00 N jcn_only_AA CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888553-11888930 chr19:11888931-11889144 chr19:11889144-11889145 92.00 K alternative_last_exon CUFF.1257 chr7 + chr7:150825772-150831486 chr7:150825772-150828158 chr7:150831487-150831655 chr7:150828159-150828368 33.13 N intron_retention chr17 - chr17:79995424-79995506 chr17:79995423-79995424;chr17:79995506-79995507 44.34 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 12.90 K intron_retention CUFF.925 chr22 - chr22:51018260-51018402 chr22:51018259-51018260;chr22:51018402-51018403 18.55 K cassette CUFF.90 chr1 - chr1:174084788-174124764 chr1:174084788-174091221;chr1:174091331-174124764 chr1:174091222-174091330 25.58 N jcn_only_AD CUFF.925 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 61.06 K intron_retention CUFF.954 chr3 + chr3:51749200-51750033 chr3:51749199-51749200;chr3:51750033-51750034 97.05 N jcn_only_AA CUFF.930 chr3 + chr3:19992554-20017092;chr3:19992554-20017134;chr3:19992554-20012039 chr3:19992554-20017078 chr3:20012040-20017078;chr3:20017079-20017092;chr3:20017093-20017134 chr3:20017078-20017079;chr3:20017092-20017093;chr3:20017134-20017135 13.41 N jcn_only_AA chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 50.00 N alternative_donor CUFF.334 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 40.29 N intron_retention chr14 - chr14:52486897-52495439 chr14:52486896-52486897;chr14:52495439-52495440 62.50 N jcn_only_AA CUFF.1111 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 chr5:139876105-139876863;chr5:139884406-139884551 83.33 N cassette CUFF.1003 chr3 + chr3:186756662-186769036 chr3:186756662-186760441;chr3:186761099-186769036 chr3:186760442-186761098 87.40 K intron_retention CUFF.478 chr16 - chr16:4408105-4408367 chr16:4408104-4408105;chr16:4408367-4408368 5.19 K jcn_only_AD CUFF.1067 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 76.79 K intron_retention CUFF.792 chr2 + chr2:99225190-99226218 chr2:99225189-99225190;chr2:99226218-99226219 94.31 N alternative_donor CUFF.249 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 30.00 K cassette CUFF.693 chr19 + chr19:36142252-36149495 chr19:36142252-36145472;chr19:36145574-36149495 chr19:36145473-36145573 40.99 N alternative_acceptor CUFF.681 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 15.57 N jcn_only_AD CUFF.273 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26148064-26164754 chr12:26148063-26148064 68.83 N cassette CUFF.84 chr1 + chr1:167272812-167301706 chr1:167272812-167288250;chr1:167288294-167301706 chr1:167288251-167288293 75.90 N jcn_only_AD CUFF.596 chr17 + chr17:66509120-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509112-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 76.00 N jcn_only_AA CUFF.575 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 12.36 N jcn_only_AD CUFF.29 chr1 + chr1:31819588-31821675 chr1:31819666-31821675 chr1:31819588-31819665 chr1:31819587-31819588 12.20 N jcn_only_AA CUFF.917 chr22 + chr22:37695348-37696947;chr22:37695348-37696110 chr22:37695348-37696193 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 11.79 N jcn_only_AA CUFF.971 chr3 + chr3:112048234-112051032 chr3:112048234-112049096 chr3:112049097-112051032 chr3:112051032-112051033 9.39 N alternative_donor chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 88.46 N jcn_only_AD CUFF.1356 chr9 - chr9:123555536-123555637 chr9:123555536-123555631 chr9:123555632-123555637 chr9:123555637-123555638 80.00 K jcn_only_AA CUFF.235 chr11 + chr11:118404845-118404983 chr11:118404845-118404980 chr11:118404981-118404983 chr11:118404983-118404984 58.20 N alternative_donor CUFF.509 chr16 - chr16:57513598-57513756;chr16:57513598-57517869 chr16:57513598-57513772 chr16:57513757-57513772;chr16:57513773-57517869 chr16:57513772-57513773;chr16:57517869-57517870 2.16 N jcn_only_AD CUFF.1120 chr5 - chr5:178047675-178050256 chr5:178047675-178049393 chr5:178049394-178050256 chr5:178050256-178050257 52.94 N jcn_only_AA CUFF.138 chr10 - chr10:69583151-69597691 chr10:69587442-69597691 chr10:69583151-69587441 chr10:69583150-69583151 3.46 N intron_retention chr15 - chr15:63134568-63136578 chr15:63134567-63134568;chr15:63136578-63136579 96.61 N jcn_only_AD CUFF.587 chr17 + chr17:61568730-61571282;chr17:61571021-61571282 chr17:61567390-61571282 20.90 K cassette CUFF.399 chr15 - chr15:44892831-44898222 chr15:44892831-44896302;chr15:44896396-44898222 chr15:44896303-44896395 60.66 N alternative_acceptor chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 61.90 K cassette CUFF.1360 chr9 + chr9:125033355-125047447 chr9:125033355-125042721;chr9:125042878-125047447 chr9:125042722-125042877 96.88 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402489;chr11:118402587-118403631 chr11:118402490-118402586 95.42 K intron_retention CUFF.606 chr17 - chr17:79994520-79994596 chr17:79994519-79994520;chr17:79994596-79994597 12.45 N jcn_only_AA CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 57.29 K jcn_only_AD CUFF.695 chr19 - chr19:39924402-39926297 chr19:39924402-39926246 chr19:39926247-39926297 chr19:39926297-39926298 44.30 N intron_retention chr16 + chr16:3115712-3115784 chr16:3115711-3115712;chr16:3115784-3115785 chr16:3115785-3115827 85.06 N cassette CUFF.424 chr15 - chr15:66786891-66789979;chr15:66786891-66789827 chr15:66786891-66787667;chr15:66787758-66789979,chr15:66787758-66789827 chr15:66787668-66787757 55.86 K intron_retention CUFF.553 chr17 + chr17:25972376-25972886 chr17:25972375-25972376;chr17:25972886-25972887 7.02 K intron_retention CUFF.549 chr17 - chr17:20279149-20279443 chr17:20279148-20279149;chr17:20279443-20279444 85.31 K coord_cassette CUFF.249 chr12 - chr12:347177-369016 chr12:347177-351779;chr12:351921-352844;chr12:352980-369016 chr12:351780-351920;chr12:352845-352979 73.21 N intron_retention CUFF.1362 chr9 - chr9:130929444-130931330 chr9:130929443-130929444;chr9:130931330-130931331 10.81 N alternative_donor CUFF.48 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 0.00 N jcn_only_AD CUFF.788 chr2 - chr2:88895182-88913241 chr2:88895182-88895268 chr2:88895269-88913241 chr2:88913241-88913242 50.00 N alternative_donor chr12 - chr12:22610096-22611417;chr12:22610096-22612425 chr12:22610096-22622642 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 40.00 N intron_retention chr2 - chr2:86849951-86850938 chr2:86849950-86849951;chr2:86850938-86850939 49.41 N jcn_only_AD chr11 - chr11:10819429-10823840 chr11:10819429-10820538 73.81 N alternative_donor chr1 - chr1:41486606-41487294 chr1:41486606-41487201 chr1:41487202-41487294 chr1:41487294-41487295 84.62 K alternative_last_exon CUFF.1059 chr4 + chr4:130821810-130849722 chr4:130821810-130829788 chr4:130849723-130849858 chr4:130829789-130829858 51.85 K cassette CUFF.453 chr15 + chr15:91306388-91310139 chr15:91306388-91308525;chr15:91308645-91310139 chr15:91308526-91308644 91.23 N coord_cassette CUFF.1127 chr6 + chr6:292561-345853 chr6:292561-304627;chr6:304662-311879;chr6:311963-345853 chr6:304628-304661;chr6:311880-311962 86.22 N jcn_only_AD CUFF.1163 chr6 + chr6:90337416-90338830 chr6:90338061-90338830 chr6:90337416-90338060 chr6:90337415-90337416 11.29 K intron_retention CUFF.541 chr17 - chr17:15584268-15586174 chr17:15584267-15584268;chr17:15586174-15586175 32.14 N cassette CUFF.1100 chr5 - chr5:127302621-127412638 chr5:127302621-127396835;chr5:127396937-127412638 chr5:127396836-127396936 77.42 N coord_cassette CUFF.1032 chr4 + chr4:37848917-37857228 chr4:37848917-37850142;chr4:37850273-37851804;chr4:37851995-37857228 chr4:37850143-37850272;chr4:37851805-37851994 88.31 N alternative_donor CUFF.758 chr2 + chr2:38231360-38244328 chr2:38239793-38244328 chr2:38231360-38239792 chr2:38231359-38231360 1.14 K alternative_first_exon CUFF.1257 chr7 + chr7:150815720-150817073 chr7:150816342-150817073 chr7:150815592-150815719 chr7:150816255-150816341 5.18 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 24.89 N intron_retention CUFF.9 chr1 + chr1:11083387-11084120 chr1:11083386-11083387;chr1:11084120-11084121 42.55 K intron_retention CUFF.1233 chr7 + chr7:92164285-92166164 chr7:92164284-92164285;chr7:92166164-92166165 50.00 N cassette CUFF.235 chr11 + chr11:118402587-118403631 chr11:118402587-118402960;chr11:118403177-118403631 chr11:118402961-118403176 98.82 N alternative_acceptor chr2 + chr2:33572578-33585669 chr2:33572578-33585663 chr2:33585664-33585669 chr2:33585669-33585670 91.67 N alternative_donor CUFF.490 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 8.70 K intron_retention CUFF.769 chr2 - chr2:61711241-61712902 chr2:61711240-61711241;chr2:61712902-61712903 42.11 N jcn_only_AA CUFF.1013 chr4 - chr4:2934418-2934832 chr4:2934486-2934832 chr4:2934418-2934485 chr4:2934417-2934418 91.12 K intron_retention CUFF.672 chr19 + chr19:12918144-12918232 chr19:12918143-12918144;chr19:12918232-12918233 21.24 N jcn_only_AD CUFF.1127 chr6 + chr6:311963-335113 chr6:320365-335113 chr6:311963-320364 chr6:311962-311963 7.95 N jcn_only_AA CUFF.642 chr18 - chr18:67563282-67613969 chr18:67611805-67613969 chr18:67563282-67611804 chr18:67563281-67563282 27.14 K intron_retention CUFF.399 chr15 - chr15:44890572-44890828 chr15:44890571-44890572;chr15:44890828-44890829 57.41 K alternative_last_exon CUFF.743 chr2 + chr2:3461465-3464033 chr2:3461465-3461565 chr2:3464034-3464107 chr2:3461566-3461942 45.03 N alternative_acceptor chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 98.31 K intron_retention CUFF.291 chr12 - chr12:56578896-56579938 chr12:56578895-56578896;chr12:56579938-56579939 chr12:56578814-56578895;chr12:56579939-56580024 52.94 K cassette CUFF.1188 chr6 + chr6:161518209-161522923 chr6:161518209-161519309;chr6:161519460-161522923 chr6:161519310-161519459 85.51 K cassette CUFF.587 chr17 + chr17:61571832-61574158 chr17:61571832-61573754;chr17:61573878-61574158 chr17:61573755-61573877 60.65 N alternative_acceptor CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 10.00 K cassette CUFF.350 chr14 + chr14:61512886-61517229 chr14:61512886-61514965;chr14:61515016-61517229 chr14:61514966-61515015 7.47 K cassette CUFF.856 chr2 - chr2:242435950-242437030 chr2:242435950-242436714;chr2:242436794-242437030 chr2:242436715-242436793 4.28 K alternative_acceptor CUFF.514 chr16 - chr16:67968575-67968699 chr16:67968598-67968699 chr16:67968575-67968597 chr16:67968574-67968575 60.82 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123544;chr6:32122555-32122806 chr6:32122555-32123464 39.81 K cassette CUFF.967 chr3 - chr3:107574077-107575926 chr3:107574077-107574159;chr3:107574273-107575926 chr3:107574160-107574272 15.21 N alternative_acceptor CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 20.00 N alternative_acceptor CUFF.249 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 31.82 N intron_retention chr17 - chr17:56082403-56083870 chr17:56082402-56082403;chr17:56083870-56083871 62.50 N alternative_donor CUFF.528 chr17 - chr17:79355741-79358928 chr17:79355741-79358745 chr17:79358746-79358928 chr17:79358928-79358929 76.72 N alternative_donor CUFF.294 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 54.39 N jcn_only_AA chr11 - chr11:10828867-10830251 chr11:10830056-10830251 14.94 K jcn_only_AA CUFF.835 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 89.60 N jcn_only_AD CUFF.357 chr14 + chr14:76259444-76286349 chr14:76269597-76286349 chr14:76259444-76269596 chr14:76259443-76259444 13.89 N jcn_only_AA CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 34.39 N jcn_only_AD CUFF.988 chr3 + chr3:132948196-133098595;chr3:133022182-133098595 chr3:133097401-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 22.74 N alternative_last_exon CUFF.1121 chr5 - chr5:149785885-149786714 chr5:149786524-149786714 chr5:149785596-149785884 chr5:149786273-149786523 91.79 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194284;chr2:25190163-25194686 chr2:25190163-25194424 chr2:25194285-25194376;chr2:25194687-25194963 chr2:25194425-25194486 8.60 K alternative_first_exon CUFF.949,CUFF.984 chr3 - chr3:45721564-45730511 chr3:45721564-45729867 chr3:45730512-45730643 chr3:45729868-45730374 99.63 N jcn_only_AD CUFF.593 chr17 + chr17:61904884-61907492 chr17:61907310-61907492 chr17:61907493-61907549 88.27 N jcn_only_AD chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 57.24 N alternative_acceptor CUFF.1241 chr7 + chr7:107236448-107240841 chr7:107236448-107240676 chr7:107240677-107240841 chr7:107240841-107240842 2.80 N jcn_only_AA CUFF.1275 chr8 + chr8:106370866-106431371 chr8:106370866-106427102 chr8:106427103-106431371 chr8:106431371-106431372 56.25 N jcn_only_AA CUFF.758,CUFF.805 chr2 + chr2:153497429-153504309 chr2:153497429-153499932 chr2:153499933-153504309 chr2:153504309-153504310 66.67 K alternative_acceptor CUFF.1364 chr9 - chr9:131483760-131483929;chr9:131483782-131483929 chr9:131483810-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 15.24 K alternative_acceptor CUFF.565 chr17 + chr17:33640726-33648755 chr17:33640726-33648753 chr17:33648754-33648755 chr17:33648755-33648756 33.33 N cassette CUFF.1238 chr7 - chr7:102462651-102495223 chr7:102462651-102462829;chr7:102462888-102495223 chr7:102462830-102462887 84.27 N alternative_donor CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20574884-20591266 chr4:20570628-20574883 chr4:20570627-20570628 3.03 N alternative_donor CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 0.00 N jcn_only_AD CUFF.382 chr15 + chr15:24793618-24811235 chr15:24803469-24811235 chr15:24793618-24803468 chr15:24793617-24793618 40.00 N intron_retention chr17 - chr17:79478605-79478952 chr17:79478604-79478605;chr17:79478952-79478953 83.68 N alternative_donor CUFF.991 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 0.00 N jcn_only_AA chr2 + chr2:101609990-101612257 chr2:101609990-101611861 chr2:101611862-101612257 chr2:101612257-101612258 75.24 N jcn_only_AA CUFF.1062 chr4 - chr4:152096827-152097685 chr4:152096848-152097685 chr4:152096827-152096847 chr4:152096826-152096827 15.38 N cassette CUFF.603 chr17 - chr17:79891253-79892528;chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528,chr17:79892366-79892801 chr17:79892202-79892365 42.77 N alternative_donor chr14 + chr14:23390330-23393509 chr14:23392414-23393509 chr14:23390330-23392413 chr14:23390329-23390330 83.78 N alternative_acceptor CUFF.674 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 0.81 K cassette CUFF.1086 chr5 - chr5:54442685-54468765 chr5:54442685-54468415;chr5:54468479-54468765 chr5:54468416-54468478 51.05 K cassette CUFF.731 chr19 + chr19:55085380-55085767 chr19:55085380-55085542;chr19:55085579-55085767 chr19:55085543-55085578 91.59 K alternative_last_exon CUFF.607 chr17 + chr17:80430575-80436675 chr17:80430575-80436446 chr17:80436676-80436794 chr17:80436447-80436447 5.95 K alternative_first_exon CUFF.336 chr14 + chr14:24439542-24459390 chr14:24458285-24459390 chr14:24439148-24439541 chr14:24457976-24458284 69.06 K intron_retention CUFF.397 chr15 + chr15:41222315-41222822 chr15:41222314-41222315;chr15:41222822-41222823 29.55 N jcn_only_AA CUFF.1304,CUFF.1322 chr8 + chr8:144373938-144375141 chr8:144373938-144374312 chr8:144374313-144375141 chr8:144375141-144375142 15.00 N jcn_only_AD CUFF.1175 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 52.59 N cassette CUFF.736 chr2 - chr2:262787-264781;chr2:253116-264083;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263373-264781,chr2:263373-264083 chr2:263211-263372 69.71 K intron_retention chr16 - chr16:23505700-23507014 chr16:23505699-23505700;chr16:23507014-23507015 1.46 K intron_retention CUFF.530 chr17 + chr17:1943669-1943798 chr17:1943668-1943669;chr17:1943798-1943799 23.66 N alternative_last_exon CUFF.1402 chrX - chrX:85219058-85302487 chrX:85282562-85302487 chrX:85218670-85219057 chrX:85281953-85282561 82.31 K alternative_first_exon CUFF.197,CUFF.206 chr11 - chr11:62366112-62367637 chr11:62366112-62366689 chr11:62367638-62367731 chr11:62366690-62366751 9.09 K jcn_only_AD CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 82.25 K intron_retention CUFF.176 chr11 - chr11:1775132-1775223 chr11:1775131-1775132;chr11:1775223-1775224 2.68 K jcn_only_AD CUFF.923 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 34.27 N intron_retention chr2 + chr2:219461022-219461057 chr2:219461021-219461022;chr2:219461057-219461058 17.24 N mutually_exclusive CUFF.235 chr11 + chr11:118401950-118403631,chr11:118403923-118404571 chr11:118401950-118402492,chr11:118403177-118404571 chr11:118403632-118403922 chr11:118402493-118403176 71.43 N cassette CUFF.198 chr11 + chr11:36459027-36472758 chr11:36459027-36467849;chr11:36467991-36472758 chr11:36467850-36467990 47.37 N intron_retention chr12 + chr12:58018390-58018648 chr12:58018389-58018390;chr12:58018648-58018649 15.03 N alternative_donor CUFF.1262 chr7 - chr7:156526952-156529186;chr7:156526952-156549086 chr7:156526952-156540617 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 2.12 N alternative_acceptor CUFF.214 chr11 + chr11:67790230-67793476 chr11:67790230-67791675 chr11:67791676-67793476 chr11:67793476-67793477 1.78 N cassette CUFF.1232 chr7 + chr7:91609648-91622198 chr7:91609648-91621471;chr7:91621526-91622198 chr7:91621472-91621525 24.14 K intron_retention chr20 + chr20:30137925-30142548 chr20:30137924-30137925;chr20:30142548-30142549 4.96 K jcn_only_AA CUFF.584 chr17 - chr17:57756906-57784731;chr17:57777551-57784731 chr17:57777238-57784731 59.38 N jcn_only_AA CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 30.00 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73605850;chr3:73453547-73618301 chr3:73453547-73523605 chr3:73610602-73610793;chr3:73605851-73606140;chr3:73618302-73618634 chr3:73523606-73523825 12.80 N jcn_only_AD chr11 + chr11:36476997-36483891;chr11:36476369-36483891 chr11:36475657-36483891 6.10 K intron_retention CUFF.702 chr19 - chr19:42734544-42734830 chr19:42734543-42734544;chr19:42734830-42734831 91.49 N intron_retention chr17 + chr17:1945526-1945898 chr17:1945525-1945526;chr17:1945898-1945899 84.78 N coord_cassette CUFF.171 chr11 - chr11:408894-414822 chr11:408894-409216;chr11:409309-409867;chr11:410028-414822 chr11:409217-409308;chr11:409868-410027 51.92 N intron_retention chr12 + chr12:53846760-53848509 chr12:53846759-53846760;chr12:53848509-53848510 54.78 N cassette CUFF.753 chr2 - chr2:27668317-27668795 chr2:27668317-27668611;chr2:27668711-27668795 chr2:27668612-27668710 91.81 K alternative_first_exon CUFF.232 chr11 + chr11:117072658-117073717,chr11:117070546-117073717;chr11:117070149-117073717 chr11:117071059-117073717 chr11:117070037-117070148 chr11:117070935-117071058 36.11 K alternative_donor CUFF.280 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 75.61 N alternative_acceptor CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37073018-37136223 chr7:37053041-37073017 chr7:37053040-37053041 0.00 N jcn_only_AA CUFF.287 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 2.17 N jcn_only_AD CUFF.674 chr19 - chr19:14885119-14887537 chr19:14885119-14887215 chr19:14887216-14887537 chr19:14887537-14887538 4.87 K alternative_first_exon CUFF.497 chr16 - chr16:23507100-23530907 chr16:23507100-23521641 chr16:23530908-23530960 chr16:23521642-23521815 23.45 N alternative_acceptor CUFF.294 chr12 - chr12:56706670-56708634;chr12:56705238-56708634;chr12:56705199-56708634 chr12:56705180-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 38.24 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 54.84 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 25.00 N jcn_only_AA CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569735-57570110 chr3:57569788-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 55.47 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178047675-178050256;chr5:178049461-178050256 chr5:178045780-178050256 76.90 K intron_retention CUFF.659 chr19 - chr19:6375628-6375712 chr19:6375627-6375628;chr19:6375712-6375713 47.62 N cassette CUFF.478 chr16 - chr16:4466963-4475478 chr16:4466963-4470359;chr16:4470555-4475478 chr16:4470360-4470554 85.57 N alternative_acceptor CUFF.798 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 29.17 K alternative_last_exon CUFF.35 chr1 - chr1:53883339-53905447 chr1:53904722-53905447 chr1:53883200-53883338 chr1:53903930-53904721 90.29 N intron_retention chr3 + chr3:28360371-28360999 chr3:28360370-28360371;chr3:28360999-28361000 12.35 K jcn_only_AD CUFF.453 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 86.67 K intron_retention CUFF.231 chr11 + chr11:115268247-115268300 chr11:115268246-115268247;chr11:115268300-115268301 72.62 K intron_retention CUFF.925 chr22 - chr22:51015067-51015285 chr22:51015066-51015067;chr22:51015285-51015286 54.84 K alternative_first_exon CUFF.363 chr14 - chr14:81864925-81893445 chr14:81864925-81884506 chr14:81893446-81893556 chr14:81884507-81884595 chr14:81864639-81864924 8.70 N alternative_donor chr12 - chr12:22666314-22672048 chr12:22666314-22670919 chr12:22670920-22672048 chr12:22672048-22672049 25.00 K alternative_donor CUFF.777 chr2 - chr2:69870407-69870923 chr2:69870407-69870706 chr2:69870707-69870923 chr2:69870923-69870924 73.11 N jcn_only_AA CUFF.517 chr16 - chr16:70267574-70268076 chr16:70267606-70268076 chr16:70267574-70267605 chr16:70267573-70267574 4.35 N cassette CUFF.518 chr16 + chr16:70390151-70398919 chr16:70390151-70398445;chr16:70398549-70398919 chr16:70398446-70398548 87.50 N cassette CUFF.235 chr11 + chr11:118401950-118403631 chr11:118401950-118402492;chr11:118402587-118403631 chr11:118402493-118402586 64.29 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122182-32122363 chr6:32121973-32122181 74.71 N alternative_donor CUFF.198 chr11 + chr11:36371616-36422546;chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36420378-36422546 chr11:36398255-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 0.37 N alternative_donor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 5.41 K jcn_only_AD CUFF.1142 chr6 + chr6:31937094-31937291 chr6:31937198-31937291 chr6:31937094-31937197 chr6:31937093-31937094 24.86 N alternative_donor CUFF.676 chr19 + chr19:16178549-16186856;chr19:16178773-16186856 chr19:16186520-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 0.00 N jcn_only_AD CUFF.385 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 66.92 N intron_retention chr19 + chr19:11474512-11474836 chr19:11474511-11474512;chr19:11474836-11474837 92.47 K intron_retention CUFF.1034 chr4 + chr4:57302142-57302427 chr4:57302141-57302142;chr4:57302427-57302428 90.91 N jcn_only_AA chr4 + chr4:645878-647640 chr4:645878-646284 chr4:646285-647640 chr4:647640-647641 9.52 N jcn_only_AD CUFF.736,CUFF.762 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 7.36 K jcn_only_AA CUFF.1139 chr6 - chr6:31509926-31513885 chr6:31512536-31513885 62.22 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73298732;chr2:73285726-73302708 chr2:73285726-73286222,chr2:73285726-73286136 chr2:73298169-73298261;chr2:73298733-73298955;chr2:73302709-73302841 chr2:73286223-73286301 6.79 N cassette CUFF.987 chr3 - chr3:127294109-127294782;chr3:127294109-127294591 chr3:127294109-127294245;chr3:127294349-127294782,chr3:127294349-127294591 chr3:127294246-127294348 41.33 K jcn_only_AA CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860531-200867434 chr1:200867435-200867519 chr1:200867519-200867520 47.83 N jcn_only_AD CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120772979-120773847 chr8:120773848-120774654 chr8:120774654-120774655 25.00 K alternative_last_exon CUFF.1039 chr4 - chr4:74464436-74477447 chr4:74470305-74477447 chr4:74464357-74464435 chr4:74469801-74470304 87.23 K cassette CUFF.579 chr17 + chr17:46988243-46993437 chr17:46988243-46990195;chr17:46990328-46993437 chr17:46990196-46990327 50.68 N intron_retention CUFF.249 chr12 - chr12:335681-335818 chr12:335680-335681;chr12:335818-335819 56.52 N alternative_acceptor chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 60.49 K intron_retention CUFF.555 chr17 + chr17:26554520-26554633 chr17:26554519-26554520;chr17:26554633-26554634 72.73 N alternative_acceptor CUFF.639 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 71.21 K cassette CUFF.1136 chr6 + chr6:28109808-28116093 chr6:28109808-28112108;chr6:28112203-28116093 chr6:28112109-28112202 63.16 N cassette CUFF.336 chr14 + chr14:24459569-24473545 chr14:24459569-24470592;chr14:24470727-24473545 chr14:24470593-24470726 94.86 N jcn_only_AA chr14 - chr14:104225643-104245081;chr14:104230817-104245081 chr14:104224089-104245081 34.38 N intron_retention chr16 + chr16:89789592-89789686 chr16:89789591-89789592;chr16:89789686-89789687 86.30 N alternative_acceptor CUFF.349 chr14 - chr14:60010173-60018072 chr14:60012018-60018072 chr14:60010173-60012017 chr14:60010172-60010173 0.00 K cassette CUFF.847 chr2 + chr2:228172636-228173919 chr2:228172636-228173614;chr2:228173793-228173919 chr2:228173615-228173792 7.14 N alternative_donor chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 0.00 K cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4007153;chr2:4007227-4007505 chr2:4007154-4007226 89.21 K alternative_last_exon CUFF.493 chr16 + chr16:21756358-21763255 chr16:21756358-21758618 chr16:21763256-21763398 chr16:21758619-21758619 66.67 N mutually_exclusive CUFF.1222 chr7 + chr7:73101231-73105245,chr7:73105343-73106925 chr7:73101231-73101328,chr7:73101426-73106925 chr7:73105246-73105342 chr7:73101329-73101425 81.82 N cassette CUFF.1048 chr4 - chr4:83816001-83821229 chr4:83816001-83816844;chr4:83816928-83821229 chr4:83816845-83816927 66.67 N jcn_only_AD CUFF.724 chr19 - chr19:51537897-51538061 chr19:51537897-51538050 chr19:51538051-51538061 chr19:51538061-51538062 6.92 K alternative_donor CUFF.517 chr16 - chr16:70255305-70256273 chr16:70255305-70256269 chr16:70256270-70256273 chr16:70256273-70256274 75.95 K intron_retention CUFF.206 chr11 - chr11:62364888-62365081 chr11:62364887-62364888;chr11:62365081-62365082 28.57 N intron_retention chr17 - chr17:79479387-79479640 chr17:79479386-79479387;chr17:79479640-79479641 17.65 N alternative_acceptor CUFF.607 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 7.60 K alternative_first_exon CUFF.834 chr2 + chr2:200496619-200512396 chr2:200511903-200512396 chr2:200494969-200496618 chr2:200511816-200511902 8.11 N alternative_donor CUFF.354 chr14 - chr14:71227900-71232158;chr14:71227900-71267383 chr14:71227900-71249939 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 0.00 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 19.14 K alternative_last_exon CUFF.1132 chr6 - chr6:5216972-5260880;chr6:5109726-5260880 chr6:5240957-5260880 chr6:5216851-5216971;chr6:5102827-5109725 chr6:5240759-5240956 48.39 K alternative_first_exon CUFF.108 chr1 + chr1:245165535-245180543;chr1:245133101-245180543 chr1:245133746-245180543 chr1:245133007-245133100 chr1:245133631-245133745 65.55 N jcn_only_AD CUFF.578 chr17 - chr17:79994185-79994289 chr17:79994185-79994259 chr17:79994260-79994289 chr17:79994289-79994290 93.05 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 7.01 K alternative_donor CUFF.1100,CUFF.1117 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 88.37 N alternative_acceptor CUFF.294 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 5.15 N intron_retention chr11 + chr11:118402915-118403049 chr11:118402914-118402915;chr11:118403049-118403050 87.47 K intron_retention CUFF.593 chr17 + chr17:61904567-61904777 chr17:61904566-61904567;chr17:61904777-61904778 chr17:61904497-61904566;chr17:61904778-61904874 60.00 K intron_retention chr10 - chr10:35500327-35501113 chr10:35500326-35500327;chr10:35501113-35501114 99.49 N alternative_acceptor CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 0.00 N jcn_only_AD CUFF.1378,CUFF.1402 chrX - chrX:9130946-9132573;chrX:9130946-9132333 chrX:9130946-9131117 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 16.28 N jcn_only_AD CUFF.603 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 4.88 N intron_retention chr16 + chr16:106421-106538 chr16:106420-106421;chr16:106538-106539 chr16:106539-106613 73.33 K intron_retention CUFF.700 chr19 - chr19:41938314-41939441 chr19:41938313-41938314;chr19:41939441-41939442 12.05 K jcn_only_AD CUFF.307 chr12 - chr12:113599803-113600736 chr12:113599803-113600700 chr12:113600701-113600736 chr12:113600736-113600737 47.22 K alternative_acceptor CUFF.1330,CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 18.45 N alternative_acceptor CUFF.1391 chrX - chrX:46360768-46387784;chrX:46384874-46387784 chrX:46382561-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 0.00 N alternative_acceptor CUFF.650,CUFF.705 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 68.75 K intron_retention CUFF.171 chr11 - chr11:406539-406842 chr11:406538-406539;chr11:406842-406843 22.75 K cassette CUFF.1091 chr5 + chr5:56510021-56526672 chr5:56510021-56517202;chr5:56517224-56526672 chr5:56517203-56517223 62.86 N cassette CUFF.835 chr2 - chr2:204326649-204341798;chr2:204326649-204354306 chr2:204326649-204334961;chr2:204335037-204354306,chr2:204335037-204341798 chr2:204334962-204335036 26.83 N alternative_first_exon CUFF.276 chr12 - chr12:48276558-48298346;chr12:48276558-48298737;chr12:48276558-48336645 chr12:48276558-48293619 chr12:48298738-48298880;chr12:48336646-48336831 chr12:48293620-48293692 50.00 N alternative_first_exon CUFF.315 chr13 + chr13:21141396-21148518 chr13:21142137-21148518 chr13:21140585-21141395 chr13:21141809-21142136 77.27 K cassette CUFF.745 chr2 - chr2:4006532-4007153 chr2:4006532-4006841;chr2:4006986-4007153 chr2:4006842-4006985 12.27 N cassette CUFF.142 chr10 - chr10:73892940-73921295 chr10:73892940-73912626;chr10:73912747-73921295 chr10:73912627-73912746 92.03 N cassette CUFF.385 chr15 + chr15:29385424-29390692 chr15:29385424-29386480;chr15:29386517-29390692 chr15:29386481-29386516 30.19 K intron_retention CUFF.1163 chr6 + chr6:90327751-90331640 chr6:90327750-90327751;chr6:90331640-90331641 5.41 N jcn_only_AA CUFF.1025 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 31.25 K alternative_acceptor CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 88.26 K jcn_only_AA CUFF.1362 chr9 - chr9:130943079-130947825 chr9:130943094-130947825 chr9:130943079-130943093 chr9:130943078-130943079 70.33 K intron_retention CUFF.75 chr1 - chr1:158590257-158592772 chr1:158590256-158590257;chr1:158592772-158592773 84.13 K coord_cassette CUFF.1050 chr4 - chr4:99428880-99578690 chr4:99428880-99495607;chr4:99495734-99495894;chr4:99496057-99578690 chr4:99495608-99495733;chr4:99495895-99496056 41.81 N intron_retention chr3 - chr3:38049655-38049725 chr3:38049654-38049655;chr3:38049725-38049726 10.34 N jcn_only_AD chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 52.50 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13472212;chr6:13470863-13486869 chr6:13470863-13486242 chr6:13472213-13472329;chr6:13486870-13486935 chr6:13486243-13486486 48.48 K jcn_only_AA CUFF.273 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 48.78 N jcn_only_AA CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 27.37 N intron_retention chrX - chrX:152988744-152989409 chrX:152988743-152988744;chrX:152989409-152989410 28.57 K intron_retention CUFF.336 chr14 + chr14:24470143-24470241 chr14:24470142-24470143;chr14:24470241-24470242 76.43 N alternative_donor CUFF.980 chr3 + chr3:122863677-122864368;chr3:122843191-122864368 chr3:122849464-122864368 chr3:122843191-122849463;chr3:122849464-122863676 chr3:122843190-122843191;chr3:122849463-122849464 10.00 N coord_cassette CUFF.1222 chr7 + chr7:73101231-73106925 chr7:73101231-73101328;chr7:73101426-73105245;chr7:73105343-73106925 chr7:73101329-73101425;chr7:73105246-73105342 80.11 K cassette CUFF.419 chr15 + chr15:64444050-64444836 chr15:64444050-64444441;chr15:64444526-64444836 chr15:64444442-64444525 89.29 N alternative_donor chr6 - chr6:128327201-128330274 chr6:128327201-128329190 chr6:128329191-128330274 chr6:128330274-128330275 5.56 N cassette CUFF.1170 chr6 + chr6:112558118-112668493 chr6:112558118-112664599;chr6:112664981-112668493 chr6:112664600-112664980 chr6:112557980-112558117;chr6:112668494-112668609 87.50 N alternative_acceptor CUFF.1175 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 0.00 N alternative_acceptor chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 82.00 K alternative_last_exon CUFF.902 chr22 + chr22:20755049-20759666 chr22:20755049-20755566 chr22:20759667-20762749 chr22:20755567-20755662 chr22:20754922-20755048 74.36 N intron_retention chr16 - chr16:23505700-23507034 chr16:23505699-23505700;chr16:23507034-23507035 29.41 N alternative_donor CUFF.409 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 0.00 K jcn_only_AA CUFF.1232 chr7 + chr7:91730371-91732000 chr7:91730371-91731907 chr7:91731908-91732000 chr7:91732000-91732001 64.82 N cassette CUFF.710 chr19 - chr19:49310332-49314065;chr19:49310332-49314240 chr19:49310332-49311012;chr19:49311494-49314065,chr19:49311494-49314240 chr19:49311013-49311493 40.87 N coord_cassette CUFF.599 chr17 - chr17:76993727-77005745 chr17:76993727-76993921;chr17:76994046-76994229;chr17:76994369-77005745 chr17:76993922-76994045;chr17:76994230-76994368 25.00 K intron_retention CUFF.192 chr11 - chr11:8949230-8950923 chr11:8949229-8949230;chr11:8950923-8950924 9.84 N jcn_only_AA CUFF.742 chr2 + chr2:38177739-38201182 chr2:38177739-38178375 chr2:38178376-38201182 chr2:38201182-38201183 37.11 N alternative_donor CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 0.00 N jcn_only_AD CUFF.995 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 3.70 K jcn_only_AA CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 73.88 K alternative_donor CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384058 chr2:68374700-68384505 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 8.23 N intron_retention chr17 - chr17:1615694-1617149 chr17:1615693-1615694;chr17:1617149-1617150 45.99 K alternative_last_exon CUFF.754 chr2 + chr2:27724097-27726380 chr2:27724097-27724556 chr2:27726381-27726486 chr2:27724557-27724676 29.79 N alternative_acceptor CUFF.522 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 82.05 K alternative_last_exon CUFF.1292,CUFF.1321 chr8 + chr8:74891097-74893389 chr8:74891097-74891313 chr8:74893390-74893966 chr8:74891314-74891369 94.83 N coord_cassette CUFF.188 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623495-6624633 chr11:6622156-6622832;chr11:6623082-6623494 89.39 N alternative_acceptor CUFF.1262 chr7 - chr7:156556490-156589082 chr7:156572427-156589082 chr7:156556490-156572426 chr7:156556489-156556490 0.00 N alternative_donor CUFF.243 chr11 - chr11:119291640-119292320;chr11:119291640-119293822 chr11:119291640-119295607 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 37.04 N jcn_only_AA CUFF.239 chr11 + chr11:119056220-119056557;chr11:119056220-119056630 chr11:119056220-119056633 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 90.58 K cassette CUFF.1237 chr7 - chr7:102240836-102246304 chr7:102240836-102242770;chr7:102242853-102246304 chr7:102242771-102242852 86.67 K intron_retention CUFF.273 chr12 + chr12:26221857-26224588 chr12:26221856-26221857;chr12:26224588-26224589 81.63 K jcn_only_AA CUFF.328 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 80.51 N alternative_donor CUFF.255 chr12 + chr12:4653071-4654384 chr12:4653078-4654384 chr12:4653071-4653077 chr12:4653070-4653071 6.98 N alternative_donor CUFF.988 chr3 + chr3:132948196-133109023 chr3:133100006-133109023 chr3:132948196-133100005 chr3:132948195-132948196 0.00 N intron_retention chr10 - chr10:73973110-73975964 chr10:73973109-73973110;chr10:73975964-73975965 27.14 K coord_cassette CUFF.977 chr3 - chr3:120360541-120365819 chr3:120360541-120363165;chr3:120363291-120365113;chr3:120365214-120365819 chr3:120363166-120363290;chr3:120365114-120365213 53.12 K alternative_acceptor CUFF.249 chr12 - chr12:333283-333566 chr12:333296-333566 chr12:333283-333295 chr12:333282-333283 58.67 K alternative_first_exon CUFF.168 chr10 - chr10:127541212-127548171 chr10:127541212-127542529 chr10:127548172-127548544 chr10:127542530-127543428 59.72 K intron_retention CUFF.649 chr19 + chr19:1440253-1440347 chr19:1440252-1440253;chr19:1440347-1440348 2.78 N intron_retention CUFF.1362 chr9 - chr9:130929444-130929817 chr9:130929443-130929444;chr9:130929817-130929818 43.75 K alternative_donor CUFF.27 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 58.11 N jcn_only_AD CUFF.1062,CUFF.1065 chr4 - chr4:152147239-152246392;chr4:152147239-152187237 chr4:152147239-152147319 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 34.92 N jcn_only_AA CUFF.821 chr2 - chr2:174057785-174072274 chr2:174063553-174072274 chr2:174057785-174063552 chr2:174057784-174057785 16.09 K alternative_first_exon CUFF.273 chr12 + chr12:26112082-26147969 chr12:26126821-26147969 chr12:26111962-26112081 chr12:26126724-26126820 9.30 N coord_cassette CUFF.86 chr1 - chr1:169696667-169698326 chr1:169696667-169696879;chr1:169697069-169697198;chr1:169697388-169698326 chr1:169696880-169697068;chr1:169697199-169697387 11.73 N alternative_acceptor CUFF.1173 chr6 - chr6:116988076-116989728 chr6:116988371-116989728 chr6:116988076-116988370 chr6:116988075-116988076 89.74 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 5.90 K alternative_last_exon CUFF.742,CUFF.743 chr2 + chr2:1133496-1161233 chr2:1133496-1156117 chr2:1161234-1161321 chr2:1156118-1157357 20.59 K cassette CUFF.1174 chr6 + chr6:126320760-126329537 chr6:126320760-126327987;chr6:126328101-126329537 chr6:126327988-126328100 11.11 N intron_retention chr19 + chr19:52918293-52918376 chr19:52918292-52918293;chr19:52918376-52918377 9.52 N jcn_only_AA chr11 - chr11:8496614-8498796 chr11:8498299-8498796 chr11:8496614-8498298 chr11:8496613-8496614 75.00 N jcn_only_AD CUFF.1183 chr6 + chr6:145119127-145124171 chr6:145120610-145124171 chr6:145119127-145120609 chr6:145119126-145119127 53.18 N cassette CUFF.1206 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818106;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818107-34818177 52.54 K alternative_last_exon CUFF.446 chr15 - chr15:83357251-83357487;chr15:83355772-83357487 chr15:83350333-83357487 chr15:83357210-83357250;chr15:83355213-83355771 chr15:83350172-83350332 46.62 N jcn_only_AA CUFF.497 chr16 - chr16:23504780-23505623;chr16:23504909-23505623 chr16:23504843-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 6.73 N jcn_only_AD CUFF.226 chr11 - chr11:102960048-102962515 chr11:102960048-102962412 chr11:102962413-102962515 chr11:102962515-102962516 57.95 K cassette CUFF.727 chr19 + chr19:52264484-52271897 chr19:52264484-52266614;chr19:52266771-52271897 chr19:52266615-52266770 9.74 N intron_retention chr2 + chr2:220094703-220094949 chr2:220094702-220094703;chr2:220094949-220094950 53.33 N alternative_donor CUFF.603 chr17 - chr17:79894070-79900171;chr17:79894070-79894623 chr17:79894070-79898625 chr17:79894624-79898625;chr17:79898626-79900171 chr17:79898625-79898626;chr17:79900171-79900172 4.00 K jcn_only_AA CUFF.584 chr17 - chr17:57756906-57784731;chr17:57777238-57784731 chr17:57777551-57784731 27.60 N intron_retention chr14 - chr14:52481981-52485962 chr14:52481980-52481981;chr14:52485962-52485963 22.22 N alternative_donor CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586167 chr17:15584268-15586174 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 13.48 N jcn_only_AD CUFF.180 chr11 - chr11:8496364-8588797 chr11:8496364-8502080 chr11:8502081-8588797 chr11:8588797-8588798 84.09 N jcn_only_AA CUFF.249 chr12 - chr12:332401-333157 chr12:333012-333157 chr12:332401-333011 chr12:332400-332401 71.15 K intron_retention CUFF.1402 chrX - chrX:85236814-85282494 chrX:85236813-85236814;chrX:85282494-85282495 63.33 N alternative_acceptor CUFF.796 chr2 + chr2:109068923-109085435 chr2:109068923-109079043 chr2:109079044-109085435 chr2:109085435-109085436 0.00 K jcn_only_AD CUFF.982 chr3 + chr3:125639749-125643808 chr3:125642984-125643808 96.06 N jcn_only_AA CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 16.95 N cassette CUFF.1226 chr7 + chr7:75042211-75044162 chr7:75042211-75043917;chr7:75044077-75044162 chr7:75043918-75044076 67.95 N alternative_donor CUFF.1278,CUFF.1282 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 9.24 N cassette CUFF.1241 chr7 + chr7:107224428-107236311 chr7:107224428-107234399;chr7:107234551-107236311 chr7:107234400-107234550 92.20 K intron_retention CUFF.530 chr17 + chr17:1944476-1944774 chr17:1944475-1944476;chr17:1944774-1944775 21.43 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 93.03 N jcn_only_AA chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 24.29 N alternative_acceptor CUFF.1024,CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 12.07 N alternative_acceptor CUFF.723 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 89.78 K alternative_first_exon CUFF.381 chr15 + chr15:24758885-24778841 chr15:24766978-24778841 chr15:24758770-24758884 chr15:24766832-24766977 25.00 N alternative_acceptor CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616190-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 30.96 K jcn_only_AD CUFF.1253 chr7 + chr7:134249522-134252909 chr7:134250299-134252909 chr7:134249522-134250298 chr7:134249521-134249522 86.79 K jcn_only_AA CUFF.1393,CUFF.1420 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 66.67 K cassette CUFF.453 chr15 + chr15:91298169-91303823 chr15:91298169-91303376;chr15:91303510-91303823 chr15:91303377-91303509 12.82 N coord_cassette CUFF.490 chr16 + chr16:19621738-19637498 chr16:19621738-19627435;chr16:19627514-19628007;chr16:19628131-19637498 chr16:19627436-19627513;chr16:19628008-19628130 82.66 K intron_retention CUFF.754 chr2 + chr2:27729447-27729654 chr2:27729446-27729447;chr2:27729654-27729655 21.43 K alternative_first_exon CUFF.339 chr14 - chr14:31353881-31354618 chr14:31353881-31354173 chr14:31354619-31355532 chr14:31354174-31354481 90.91 K alternative_first_exon CUFF.349 chr14 - chr14:60010173-60018072 chr14:60010173-60011880 chr14:60018073-60018154 chr14:60011881-60011909 12.24 N cassette CUFF.299 chr12 + chr12:69207409-69233053;chr12:69214155-69233053;chr12:69207409-69229608;chr12:69218432-69233053;chr12:69218432-69229608 chr12:69207409-69222550,chr12:69218432-69222550,chr12:69214155-69222550;chr12:69222712-69233053,chr12:69222712-69229608 chr12:69222551-69222711 15.57 K jcn_only_AA CUFF.175 chr11 + chr11:826267-828259 chr11:826267-828229 chr11:828230-828259 chr11:828259-828260 40.50 N jcn_only_AD CUFF.334 chr14 + chr14:23389408-23392180 chr14:23390330-23392180 chr14:23389408-23390329 chr14:23389407-23389408 12.83 K intron_retention CUFF.1279 chr8 - chr8:30648832-30651432 chr8:30648831-30648832;chr8:30651432-30651433 22.60 N jcn_only_AA CUFF.896 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 5.50 K alternative_acceptor CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 57.89 K intron_retention CUFF.700 chr19 - chr19:41938314-41939176 chr19:41938313-41938314;chr19:41939176-41939177 33.54 N alternative_acceptor CUFF.148 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 0.00 N jcn_only_AA chr17 + chr17:29677337-29683477 chr17:29677337-29679274 63.64 K intron_retention CUFF.92 chr1 + chr1:200860531-200867519 chr1:200860530-200860531;chr1:200867519-200867520 34.55 K intron_retention CUFF.125 chr10 - chr10:30301980-30302411 chr10:30301979-30301980;chr10:30302411-30302412 17.65 K intron_retention CUFF.301 chr12 + chr12:72094806-72097756 chr12:72094805-72094806;chr12:72097756-72097757 15.15 N jcn_only_AD chr22 + chr22:45148508-45173041 chr22:45148621-45173041 chr22:45148508-45148620 chr22:45148507-45148508 23.81 N intron_retention chr5 - chr5:178049461-178050256 chr5:178049460-178049461;chr5:178050256-178050257 37.97 N jcn_only_AD CUFF.988 chr3 + chr3:132757280-132764745 chr3:132760700-132764745 chr3:132757280-132760699 chr3:132757279-132757280 8.38 N jcn_only_AD CUFF.294 chr12 - chr12:56709027-56709690;chr12:56709027-56709500 chr12:56709027-56709604 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 60.95 N jcn_only_AA CUFF.1050 chr4 - chr4:99399898-99403155 chr4:99399962-99403155 chr4:99399898-99399961 chr4:99399897-99399898 95.83 N cassette CUFF.653 chr19 - chr19:6010263-6016100 chr19:6010263-6012996;chr19:6013117-6016100 chr19:6012997-6013116 73.88 N jcn_only_AA CUFF.503 chr16 + chr16:31368423-31368654 chr16:31368423-31368573 chr16:31368574-31368654 chr16:31368654-31368655 14.29 K alternative_last_exon CUFF.676 chr19 + chr19:16204564-16212073 chr19:16204564-16206073 chr19:16212074-16212600 chr19:16206074-16206221 12.40 K jcn_only_AA CUFF.892 chr21 - chr21:43319457-43321730 chr21:43319472-43321730 chr21:43319457-43319471 chr21:43319456-43319457 chr21:43321731-43321761;chr21:43319162-43319456 66.67 K coord_cassette CUFF.857 chr2 + chr2:242590751-242592926 chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242591299-242591389;chr2:242592722-242592784 11.32 N alternative_acceptor chr1 + chr1:78546545-78560635 chr1:78546545-78558440 chr1:78558441-78560635 chr1:78560635-78560636 0.00 N alternative_acceptor CUFF.980 chr3 + chr3:122864440-122864964 chr3:122864440-122864945 chr3:122864946-122864964 chr3:122864964-122864965 54.72 K jcn_only_AD CUFF.276,CUFF.307 chr12 - chr12:48258961-48272750 chr12:48258961-48272598 chr12:48272599-48272750 chr12:48272750-48272751 81.31 K intron_retention CUFF.739 chr2 - chr2:286204-286289 chr2:286203-286204;chr2:286289-286290 4.75 K jcn_only_AD CUFF.280 chr12 - chr12:50232799-50236636 chr12:50232799-50236168 chr12:50236169-50236636 chr12:50236636-50236637 chr12:50231573-50232798;chr12:50236637-50236912 68.75 K alternative_donor CUFF.794 chr2 + chr2:101541757-101549371 chr2:101541763-101549371 chr2:101541757-101541762 chr2:101541756-101541757 11.54 N jcn_only_AA CUFF.148 chr10 - chr10:78799396-78832854;chr10:78823902-78832854 chr10:78831404-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 8.88 K cassette CUFF.977 chr3 - chr3:120394711-120400943 chr3:120394711-120396750;chr3:120396839-120400943 chr3:120396751-120396838 31.50 N jcn_only_AD chr4 - chr4:83816928-83821229 chr4:83816928-83819141 68.97 N jcn_only_AA CUFF.273 chr12 + chr12:26205930-26208211 chr12:26205930-26208168 chr12:26208169-26208211 chr12:26208211-26208212 51.67 K alternative_first_exon CUFF.635 chr18 - chr18:61071060-61074664;chr18:61071060-61077522 chr18:61071060-61071741 chr18:61074665-61074732;chr18:61077523-61077679 chr18:61071742-61072022 46.94 N jcn_only_AD CUFF.591,CUFF.600 chr17 - chr17:79220862-79225292 chr17:79220862-79223869 chr17:79223870-79225292 chr17:79225292-79225293 2.89 N alternative_acceptor CUFF.646 chr18 + chr18:77441518-77455224 chr18:77441518-77443042 chr18:77443043-77455224 chr18:77455224-77455225 chr18:77455225-77455308 0.00 K intron_retention CUFF.27 chr1 + chr1:28661598-28662304 chr1:28661597-28661598;chr1:28662304-28662305 41.18 N alternative_donor CUFF.382 chr15 + chr15:24813330-24814929;chr15:24811948-24814929 chr15:24813711-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 5.26 K alternative_acceptor CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 33.72 N intron_retention CUFF.1333 chr9 + chr9:43907538-43908111 chr9:43907537-43907538;chr9:43908111-43908112 23.53 N cassette CUFF.237 chr11 - chr11:118926284-118926781 chr11:118926284-118926461;chr11:118926556-118926781 chr11:118926462-118926555 71.32 N intron_retention chr17 - chr17:79994758-79994964 chr17:79994757-79994758;chr17:79994964-79994965 81.16 K cassette CUFF.1075 chr5 - chr5:37309370-37314299 chr5:37309370-37310653;chr5:37310846-37314299 chr5:37310654-37310845 30.95 N jcn_only_AD chr17 + chr17:29626625-29652837;chr17:29645583-29652837 chr17:29592358-29652837 27.03 N alternative_donor chr8 - chr8:99057628-99057942 chr8:99057628-99057735 chr8:99057736-99057942 chr8:99057942-99057943 85.19 N alternative_donor CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 0.00 N jcn_only_AD CUFF.1199,CUFF.1208 chr7 - chr7:37053041-37136223 chr7:37053041-37072951 chr7:37072952-37136223 chr7:37136223-37136224 8.33 N alternative_donor CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692517 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 96.00 K jcn_only_AA CUFF.911 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 88.43 N alternative_acceptor CUFF.509 chr16 - chr16:57509870-57513353 chr16:57512575-57513353 chr16:57509870-57512574 chr16:57509869-57509870 0.89 N alternative_donor CUFF.824 chr2 - chr2:175677211-175689161 chr2:175677211-175686456 chr2:175686457-175689161 chr2:175689161-175689162 0.24 N alternative_acceptor chr3 + chr3:126139073-126142167 chr3:126139073-126139472 chr3:126139473-126142167 chr3:126142167-126142168 7.87 K intron_retention CUFF.262 chr12 + chr12:11709019-11709869 chr12:11709018-11709019;chr12:11709869-11709870 41.67 N alternative_last_exon CUFF.1142 chr6 + chr6:32125498-32130344 chr6:32125498-32125616 chr6:32130345-32130399 chr6:32125617-32125710 98.05 N jcn_only_AD CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246905-34252681 chr20:34252682-34252800 chr20:34252800-34252801 5.88 N alternative_acceptor CUFF.904 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 52.94 K alternative_first_exon CUFF.1270,CUFF.1279 chr8 - chr8:10584177-10683661 chr8:10584177-10587705 chr8:10683662-10683754 chr8:10587706-10588022 66.67 K cassette CUFF.700 chr19 - chr19:41939579-41944122 chr19:41939579-41942296;chr19:41942378-41944122 chr19:41942297-41942377 20.05 N alternative_donor CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 1.22 N intron_retention chr15 + chr15:64445586-64445850 chr15:64445585-64445586;chr15:64445850-64445851 78.79 N cassette CUFF.490 chr16 + chr16:19621738-19627435 chr16:19621738-19623049;chr16:19623121-19627435 chr16:19623050-19623120 28.66 K intron_retention chr2 - chr2:676239-676573 chr2:676238-676239;chr2:676573-676574 65.38 N alternative_acceptor CUFF.126 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 10.26 N cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137866 chr20:30136832-30136917 91.25 N cassette CUFF.107 chr1 + chr1:230203154-230338882 chr1:230203154-230313963;chr1:230314058-230338882 chr1:230313964-230314057 42.11 N coord_cassette CUFF.736 chr2 - chr2:253116-264083 chr2:253116-260084;chr2:260703-262630;chr2:262787-263210;chr2:263373-264083 chr2:260085-260702;chr2:262631-262786;chr2:263211-263372 63.89 K intron_retention CUFF.1016 chr4 - chr4:3949735-3949816 chr4:3949734-3949735;chr4:3949816-3949817 22.40 N jcn_only_AD CUFF.959 chr3 - chr3:73450161-73453298 chr3:73450161-73450919 chr3:73450920-73453298 chr3:73453298-73453299 10.53 K cassette CUFF.1332 chr9 + chr9:35396935-35397631 chr9:35396935-35397163;chr9:35397308-35397631 chr9:35397164-35397307 76.36 N jcn_only_AD chr6 + chr6:90272618-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90218969-90276552 6.40 N jcn_only_AD CUFF.1411 chrX + chrX:107369418-107372010 chrX:107370325-107372010 chrX:107369418-107370324 chrX:107369417-107369418 30.00 K intron_retention CUFF.458 chr15 + chr15:97326975-97327382 chr15:97326974-97326975;chr15:97327382-97327383 61.19 N mutually_exclusive CUFF.421 chr15 - chr15:64658275-64673156,chr15:64673238-64673524 chr15:64658275-64668941,chr15:64669105-64673524 chr15:64673157-64673237 chr15:64668942-64669104 94.80 N alternative_donor CUFF.385 chr15 + chr15:29213953-29287955;chr15:29253788-29287955 chr15:29283000-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 0.38 K jcn_only_AD CUFF.497,CUFF.517 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 81.38 N alternative_donor CUFF.239 chr11 + chr11:119058368-119058648 chr11:119058410-119058648 chr11:119058368-119058409 chr11:119058367-119058368 chr11:119058649-119058853;chr11:119058273-119058367 89.66 N alternative_acceptor CUFF.133 chr10 - chr10:46143983-46147413 chr10:46147074-46147413 chr10:46143983-46147073 chr10:46143982-46143983 chr10:46147414-46147481;chr10:46143742-46143982 21.43 N cassette CUFF.116 chr10 + chr10:6263491-6265920 chr10:6263491-6264817;chr10:6264948-6265920 chr10:6264818-6264947 98.68 N jcn_only_AD CUFF.490 chr16 + chr16:19566643-19576172 chr16:19567069-19576172 chr16:19566643-19567068 chr16:19566642-19566643 47.84 N intron_retention chr16 + chr16:70389439-70390031 chr16:70389438-70389439;chr16:70390031-70390032 92.54 N jcn_only_AD CUFF.287 chr12 + chr12:53846161-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 11.56 N jcn_only_AD chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 57.10 K intron_retention CUFF.1281 chr8 - chr8:38001905-38002739 chr8:38001904-38001905;chr8:38002739-38002740 42.11 N intron_retention chr2 + chr2:241405787-241405862 chr2:241405786-241405787;chr2:241405862-241405863 46.34 K intron_retention CUFF.753 chr2 - chr2:27668856-27669126 chr2:27668855-27668856;chr2:27669126-27669127 16.11 N cassette CUFF.1012 chr4 - chr4:1701798-1713600 chr4:1701798-1705322;chr4:1705428-1713600 chr4:1705323-1705427 66.12 N jcn_only_AD CUFF.1146 chr6 + chr6:32125498-32130344 chr6:32125702-32130344 97.71 K cassette CUFF.868 chr20 - chr20:29966195-29978225 chr20:29966195-29976125;chr20:29976163-29978225 chr20:29976126-29976162 19.61 K cassette CUFF.754 chr2 + chr2:27721665-27722263 chr2:27721665-27722008;chr2:27722076-27722263 chr2:27722009-27722075 41.67 K alternative_first_exon CUFF.369 chr14 + chr14:92958585-92959819 chr14:92959269-92959819 chr14:92958519-92958584 chr14:92959259-92959268 4.60 K mutually_exclusive CUFF.1238 chr7 - chr7:102669866-102695534,chr7:102695626-102696090 chr7:102669866-102687255,chr7:102687468-102696090 chr7:102695535-102695625 chr7:102687256-102687467 10.49 N intron_retention chr6 - chr6:31939503-31939705 chr6:31939502-31939503;chr6:31939705-31939706 41.67 K alternative_acceptor CUFF.699 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 29.03 K jcn_only_AA CUFF.180 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 44.80 N alternative_acceptor chr12 - chr12:22610096-22612425;chr12:22611490-22612425 chr12:22611520-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 20.69 N alternative_last_exon chr21 + chr21:15646479-15659870 chr21:15646479-15651916 chr21:15659871-15660018 chr21:15651917-15651978 92.68 N intron_retention CUFF.191 chr11 - chr11:8496614-8502080 chr11:8496613-8496614;chr11:8502080-8502081 33.93 K intron_retention chr8 - chr8:80965666-80976712 chr8:80965665-80965666;chr8:80976712-80976713 1.11 K intron_retention CUFF.925 chr22 - chr22:51019090-51020677 chr22:51019089-51019090;chr22:51020677-51020678 41.38 K alternative_first_exon CUFF.1018,CUFF.1065 chr4 - chr4:162577647-162680562 chr4:162577647-162585967 chr4:162680563-162680683 chr4:162585968-162586084 58.54 N jcn_only_AD chr11 + chr11:36383732-36415395;chr11:36322621-36415395 chr11:36398255-36415395 72.86 N cassette CUFF.171 chr11 - chr11:408207-414822;chr11:408207-409867 chr11:408207-408694;chr11:408894-409867,chr11:408894-414822 chr11:408695-408893 66.67 K mutually_exclusive CUFF.1012 chr4 - chr4:1701798-1713600,chr4:1713718-1713856 chr4:1701798-1705322,chr4:1705428-1713856 chr4:1713601-1713717 chr4:1705323-1705427 53.70 K intron_retention CUFF.606 chr17 - chr17:79994325-79994419 chr17:79994324-79994325;chr17:79994419-79994420 23.68 K cassette CUFF.712 chr19 - chr19:49318399-49335922 chr19:49318399-49334924;chr19:49335017-49335922 chr19:49334925-49335016 79.55 N cassette CUFF.133 chr10 - chr10:46147482-46158989 chr10:46147482-46148431;chr10:46148508-46158989 chr10:46148432-46148507 chr10:46147414-46147481;chr10:46158990-46159290 81.54 K coord_cassette CUFF.967 chr3 - chr3:107586273-107594976 chr3:107586273-107591814;chr3:107591874-107594305;chr3:107594422-107594976 chr3:107591815-107591873;chr3:107594306-107594421 54.12 N cassette CUFF.674 chr19 - chr19:14876617-14883153 chr19:14876617-14877789;chr19:14877922-14883153 chr19:14877790-14877921 91.43 K cassette CUFF.142 chr10 - chr10:73956748-73963184 chr10:73956748-73958206;chr10:73958424-73963184 chr10:73958207-73958423 34.01 N alternative_donor CUFF.5 chr1 + chr1:2076024-2077465;chr1:2075781-2077465 chr1:2076951-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 8.63 K intron_retention CUFF.243 chr11 - chr11:119290231-119290760 chr11:119290230-119290231;chr11:119290760-119290761 10.98 N cassette CUFF.870 chr20 + chr20:30149540-30156922 chr20:30149540-30154012;chr20:30154099-30156922 chr20:30154013-30154098 71.57 N cassette CUFF.1257 chr7 + chr7:150815720-150819811 chr7:150815720-150817073;chr7:150817233-150819811 chr7:150817074-150817232 77.55 N jcn_only_AD CUFF.769 chr2 - chr2:61749819-61753554 chr2:61749819-61752404 chr2:61752405-61753554 chr2:61753554-61753555 9.77 N jcn_only_AD CUFF.277 chr12 - chr12:113617811-113618785 chr12:113617811-113618733 chr12:113618734-113618785 chr12:113618785-113618786 34.18 K alternative_last_exon CUFF.606 chr17 - chr17:79993122-79994066 chr17:79993940-79994066 chr17:79993012-79993121 chr17:79993746-79993939 97.44 N jcn_only_AA CUFF.1326 chr9 - chr9:15250009-15267911;chr9:15226011-15267911 chr9:15211396-15267911 3.57 N jcn_only_AA CUFF.729 chr19 + chr19:10381903-10394804 chr19:10381903-10385440 chr19:10385441-10394804 chr19:10394804-10394805 75.56 N cassette CUFF.674 chr19 - chr19:14865940-14867049;chr19:14863339-14867049 chr19:14865940-14866465,chr19:14863339-14866465;chr19:14866690-14867049 chr19:14866466-14866689 41.31 N alternative_acceptor CUFF.91 chr1 + chr1:196913069-196918584;chr1:196913069-196918746 chr1:196913069-196918565 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 25.58 N alternative_first_exon CUFF.700,CUFF.723 chr19 - chr19:41944320-41945786;chr19:41944320-41945378 chr19:41944320-41946385 chr19:41945787-41945815;chr19:41945379-41945489 chr19:41946386-41946714 6.56 N intron_retention chr17 + chr17:66509120-66511127 chr17:66509119-66509120;chr17:66511127-66511128 chr17:66511128-66511260 54.17 N jcn_only_AD chr4 - chr4:152147239-152246392;chr4:152147239-152147319 chr4:152147239-152187237 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 61.90 N intron_retention chr11 - chr11:5686626-5686885 chr11:5686625-5686626;chr11:5686885-5686886 17.33 N alternative_acceptor CUFF.490 chr16 + chr16:19659205-19663297 chr16:19659205-19661703 chr16:19661704-19663297 chr16:19663297-19663298 11.27 N jcn_only_AA CUFF.76 chr1 + chr1:160137220-160141040 chr1:160137220-160139462 chr1:160139463-160141040 chr1:160141040-160141041 11.11 N jcn_only_AD CUFF.1154 chr6 - chr6:39859156-39864972 chr6:39859156-39859398 chr6:39859399-39864972 chr6:39864972-39864973 78.57 N jcn_only_AA CUFF.935 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 14.01 N jcn_only_AD CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 26.26 K jcn_only_AA CUFF.1368 chr9 - chr9:135730313-135739051 chr9:135736985-135739051 63.46 N cassette CUFF.5 chr1 + chr1:1987002-1990979 chr1:1987002-1987922;chr1:1988013-1990979 chr1:1987923-1988012 50.00 N jcn_only_AD CUFF.1278,CUFF.1282 chr8 - chr8:56676540-56685785;chr8:56676540-56685827 chr8:56676540-56685534 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 11.76 N alternative_donor CUFF.1230 chr7 - chr7:86539318-86541387 chr7:86539318-86540937 chr7:86540938-86541387 chr7:86541387-86541388 chr7:86539128-86539317;chr7:86541388-86541561 15.87 K intron_retention chr22 + chr22:29684776-29687550 chr22:29684775-29684776;chr22:29687550-29687551 14.63 N intron_retention chr16 - chr16:67223671-67223873 chr16:67223670-67223671;chr16:67223873-67223874 27.27 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:466642-472793;chr5:471939-472793 chr5:472709-472793 chr5:466239-466641;chr5:471071-471938 chr5:472218-472708 11.73 K cassette CUFF.1368 chr9 - chr9:135742341-135753558 chr9:135742341-135750501;chr9:135750587-135753558 chr9:135750502-135750586 88.57 K intron_retention CUFF.593 chr17 + chr17:61908977-61909083 chr17:61908976-61908977;chr17:61909083-61909084 chr17:61908866-61908976;chr17:61909084-61909170 5.84 K alternative_last_exon CUFF.98 chr1 + chr1:211570174-211599552 chr1:211570174-211570197 chr1:211599553-211599625 chr1:211570198-211570206 38.10 N jcn_only_AA CUFF.1170 chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 chr6:112604378-112604394;chr6:112627531-112627885 52.46 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 37.37 K jcn_only_AA CUFF.221 chr11 - chr11:75522582-75524647 chr11:75522615-75524647 chr11:75522582-75522614 chr11:75522581-75522582 33.85 N jcn_only_AD CUFF.369 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 82.02 N jcn_only_AA CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 24.44 N alternative_acceptor CUFF.1326 chr9 - chr9:15214248-15225914 chr9:15224504-15225914 chr9:15214248-15224503 chr9:15214247-15214248 7.41 N coord_cassette CUFF.336 chr14 + chr14:24459569-24470592 chr14:24459569-24470071;chr14:24470143-24470241;chr14:24470294-24470592 chr14:24470072-24470142;chr14:24470242-24470293 86.28 N jcn_only_AD CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115496-3115784 chr16:3115657-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 44.33 N coord_cassette CUFF.983 chr3 - chr3:125769894-125820271 chr3:125769894-125786328;chr3:125786430-125786789;chr3:125787090-125820271 chr3:125786329-125786429;chr3:125786790-125787089 48.68 K alternative_acceptor CUFF.326 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 28.28 N cassette CUFF.857 chr2 + chr2:242590751-242592926;chr2:242590751-242592721 chr2:242590751-242591298;chr2:242591390-242592926,chr2:242591390-242592721 chr2:242591299-242591389 25.90 N jcn_only_AA chr3 + chr3:133100006-133109023 chr3:133100006-133105267 chr3:133105268-133109023 chr3:133109023-133109024 3.12 N cassette CUFF.99 chr1 - chr1:213181809-213188954 chr1:213181809-213184549;chr1:213184801-213188954 chr1:213184550-213184800 88.33 K intron_retention CUFF.935 chr3 + chr3:28357915-28360999 chr3:28357914-28357915;chr3:28360999-28361000 3.57 K cassette CUFF.870 chr20 + chr20:30136918-30137866 chr20:30136918-30137009;chr20:30137136-30137866 chr20:30137010-30137135 45.76 N alternative_acceptor CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 58.33 K intron_retention CUFF.583 chr17 - chr17:56081363-56082283 chr17:56081362-56081363;chr17:56082283-56082284 90.38 N cassette CUFF.337 chr14 + chr14:24564055-24567411 chr14:24564055-24566100;chr14:24566347-24567411 chr14:24566101-24566346 86.28 N alternative_donor CUFF.932 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 79.07 N coord_cassette CUFF.299 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 22.60 N intron_retention CUFF.1222 chr7 + chr7:73108381-73110735 chr7:73108380-73108381;chr7:73110735-73110736 46.15 K alternative_last_exon CUFF.652 chr19 - chr19:5893302-5896463 chr19:5894866-5896463 chr19:5891287-5893301 chr19:5894682-5894865 84.71 N jcn_only_AD CUFF.1339 chr9 - chr9:15188131-15189701 chr9:15188131-15189571 chr9:15189572-15189701 chr9:15189701-15189702 93.10 K cassette CUFF.1215 chr7 + chr7:44247798-44250621 chr7:44247798-44250440;chr7:44250531-44250621 chr7:44250441-44250530 66.67 N alternative_donor CUFF.369 chr14 + chr14:92915504-92920243;chr14:92918991-92920243 chr14:92915561-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 75.86 K alternative_first_exon CUFF.21 chr1 - chr1:26231230-26231539,chr1:26231230-26232879,chr1:26231230-26233278;chr1:26231230-26232342 chr1:26231230-26231634 chr1:26232343-26232733 chr1:26231635-26232033 26.98 N jcn_only_AA CUFF.1157 chr6 - chr6:43481372-43483332 chr6:43483045-43483332 chr6:43481372-43483044 chr6:43481371-43481372 9.22 N intron_retention chr3 + chr3:49460959-49461733 chr3:49460958-49460959;chr3:49461733-49461734 92.31 N coord_cassette CUFF.857 chr2 + chr2:242590527-242592926 chr2:242590527-242590678;chr2:242590751-242591298;chr2:242591390-242592721;chr2:242592785-242592926 chr2:242590679-242590750;chr2:242591299-242591389;chr2:242592722-242592784 84.93 N coord_cassette CUFF.1158 chr6 + chr6:46636531-46644383 chr6:46636531-46637871;chr6:46637965-46638862;chr6:46638966-46644383 chr6:46637872-46637964;chr6:46638863-46638965 85.90 N alternative_donor CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 5.88 N alternative_acceptor CUFF.1235 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 25.00 N jcn_only_AA CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60189471-60194102 chr5:60186914-60189470 chr5:60186913-60186914 2.70 N jcn_only_AD CUFF.883 chr21 + chr21:15664069-15678016 chr21:15676682-15678016 chr21:15664069-15676681 chr21:15664068-15664069 14.29 K cassette CUFF.1016 chr4 - chr4:3949948-3952865 chr4:3949948-3951174;chr4:3951277-3952865 chr4:3951175-3951276 18.89 K alternative_donor CUFF.399 chr15 - chr15:44907765-44912387 chr15:44907765-44912322 chr15:44912323-44912387 chr15:44912387-44912388 79.57 N cassette CUFF.983 chr3 - chr3:125752522-125786789 chr3:125752522-125769785;chr3:125769894-125786789 chr3:125769786-125769893 71.80 K intron_retention CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440240-1440241;chr19:1440347-1440348 17.65 N intron_retention CUFF.503 chr16 + chr16:31368423-31368573 chr16:31368422-31368423;chr16:31368573-31368574 60.00 N alternative_donor CUFF.460 chr15 - chr15:102226266-102241288 chr15:102226266-102239533 chr15:102239534-102241288 chr15:102241288-102241289 13.33 N alternative_donor CUFF.1167 chr6 + chr6:111303333-111306208 chr6:111303707-111306208 chr6:111303333-111303706 chr6:111303332-111303333 8.82 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77750627-77750745 chr15:77713437-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 15.56 N coord_cassette CUFF.127 chr10 + chr10:35437420-35495822 chr10:35437420-35467816;chr10:35467915-35468061;chr10:35468205-35495822 chr10:35467817-35467914;chr10:35468062-35468204 68.48 N alternative_acceptor chr17 - chr17:79995418-79995506;chr17:79994890-79995506 chr17:79995424-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 56.69 K alternative_first_exon CUFF.1216 chr7 + chr7:54614433-54614639;chr7:54612482-54614639 chr7:54613910-54614639 chr7:54612315-54612481 chr7:54613801-54613909 58.50 N alternative_donor CUFF.342 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 17.39 N alternative_donor CUFF.583 chr17 - chr17:56082403-56083870;chr17:56082403-56082774 chr17:56082403-56082758 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 8.18 K intron_retention CUFF.1239 chr7 + chr7:107214267-107215632 chr7:107214266-107214267;chr7:107215632-107215633 41.79 N alternative_acceptor CUFF.1408 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 0.00 N cassette CUFF.84 chr1 + chr1:167190196-167301706;chr1:167210848-167301706 chr1:167190196-167272710,chr1:167210848-167272710;chr1:167272812-167301706 chr1:167272711-167272811 73.46 N jcn_only_AA CUFF.533 chr17 - chr17:5409298-5421065;chr17:5418838-5421065 chr17:5405193-5421065 10.14 N alternative_first_exon chr3 - chr3:27257372-27297786 chr3:27257372-27257860 chr3:27297787-27297862 chr3:27257861-27257966 55.30 K intron_retention CUFF.446 chr15 - chr15:83357584-83357909 chr15:83357583-83357584;chr15:83357909-83357910 34.73 N jcn_only_AA chr11 + chr11:67820553-67820828 chr11:67820553-67820825 chr11:67820826-67820828 chr11:67820828-67820829 76.47 N alternative_donor CUFF.1208 chr7 - chr7:102228218-102232731 chr7:102228218-102228680 chr7:102228681-102232731 chr7:102232731-102232732 0.00 N intron_retention chr16 + chr16:3115496-3115642 chr16:3115495-3115496;chr16:3115642-3115643 chr16:3115230-3115495 90.38 K intron_retention CUFF.297 chr12 + chr12:58018577-58018648 chr12:58018576-58018577;chr12:58018648-58018649 61.36 K cassette CUFF.786 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397968-86398330 chr2:86397872-86397967 94.20 K alternative_first_exon CUFF.1248 chr7 - chr7:117501371-117512157;chr7:117501371-117514054 chr7:117501371-117511643 chr7:117512158-117512306;chr7:117514055-117514277 chr7:117511644-117511775 50.00 N alternative_donor CUFF.350 chr14 + chr14:61518854-61545527 chr14:61519704-61545527 chr14:61518854-61519703 chr14:61518853-61518854 30.29 K alternative_first_exon CUFF.1193 chr7 + chr7:193805-195553 chr7:195328-195553 chr7:192969-193804 chr7:195186-195327 57.78 N jcn_only_AD CUFF.84 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 5.21 N alternative_acceptor CUFF.157 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 0.00 N cassette CUFF.624 chr18 - chr18:44272219-44336340 chr18:44272219-44284534;chr18:44284628-44336340 chr18:44284535-44284627 61.29 N intron_retention chr17 - chr17:79479387-79479631 chr17:79479386-79479387;chr17:79479631-79479632 25.00 K intron_retention chr17 - chr17:40738156-40739851 chr17:40738155-40738156;chr17:40739851-40739852 33.33 N mutually_exclusive CUFF.342 chr14 + chr14:50247494-50249259,chr14:50249313-50249547 chr14:50247494-50249087,chr14:50249176-50249547 chr14:50249260-50249312 chr14:50249088-50249175 80.00 K intron_retention CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438427-1438428;chr19:1438809-1438810 84.78 N jcn_only_AA CUFF.1326 chr9 - chr9:15250009-15267911;chr9:15211396-15267911 chr9:15226011-15267911 37.14 N alternative_acceptor CUFF.870 chr20 + chr20:16730120-16744966 chr20:16730120-16730411 chr20:16730412-16744966 chr20:16744966-16744967 chr20:16729908-16730119 58.18 K jcn_only_AD CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 25.64 N alternative_acceptor CUFF.600 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 86.00 N jcn_only_AA CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483926-43484464;chr6:43483785-43484464 chr6:43483852-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 3.18 N coord_cassette CUFF.626 chr18 - chr18:44471018-44497284 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44497284 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 41.28 N alternative_donor CUFF.883 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 25.00 N alternative_donor CUFF.736,CUFF.762 chr2 - chr2:263373-264083;chr2:263373-264781 chr2:263373-263563 chr2:263564-264083;chr2:264084-264781 chr2:264083-264084;chr2:264781-264782 11.81 K jcn_only_AA CUFF.977 chr3 - chr3:120371494-120389273 chr3:120371499-120389273 chr3:120371494-120371498 chr3:120371493-120371494 92.11 K jcn_only_AA CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586686-15587509 chr17:15586472-15586685 chr17:15586471-15586472 24.22 K intron_retention CUFF.221 chr11 - chr11:75522615-75524647 chr11:75522614-75522615;chr11:75524647-75524648 47.62 N alternative_donor CUFF.265 chr12 + chr12:13349807-13364402 chr12:13352468-13364402 chr12:13349807-13352467 chr12:13349806-13349807 0.63 N intron_retention chr16 + chr16:3117417-3118180 chr16:3117416-3117417;chr16:3118180-3118181 chr16:3117378-3117416 83.46 N jcn_only_AA CUFF.309 chr12 - chr12:120128257-120135463 chr12:120128260-120135463 chr12:120128257-120128259 chr12:120128256-120128257 94.44 N alternative_donor CUFF.636 chr18 + chr18:61323211-61377412 chr18:61370241-61377412 chr18:61323211-61370240 chr18:61323210-61323211 0.00 K alternative_donor CUFF.1067 chr4 + chr4:186253868-186260532 chr4:186253914-186260532 chr4:186253868-186253913 chr4:186253867-186253868 68.29 N alternative_donor CUFF.631 chr18 + chr18:55895140-55912658;chr18:55865102-55912658 chr18:55895121-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 4.35 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53837558-53848509 chr12:53847068-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 18.73 K intron_retention CUFF.715 chr19 + chr19:50306447-50306543 chr19:50306446-50306447;chr19:50306543-50306544 8.33 N alternative_donor CUFF.110 chr1 - chr1:247287174-247322307 chr1:247287174-247302017 chr1:247302018-247322307 chr1:247322307-247322308 4.00 N alternative_donor CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616199-1616996 chr17:1616997-1617149 chr17:1617149-1617150 44.28 K intron_retention chr2 - chr2:242440212-242440892 chr2:242440211-242440212;chr2:242440892-242440893 12.77 N alternative_donor CUFF.1362 chr9 - chr9:130929444-130929817;chr9:130929444-130931354 chr9:130929444-130931330 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 81.36 N jcn_only_AA CUFF.490 chr16 + chr16:3115689-3115784 chr16:3115689-3115781 chr16:3115782-3115784 chr16:3115784-3115785 chr16:3115785-3115827 1.45 N jcn_only_AA CUFF.798 chr2 - chr2:110881641-110883213 chr2:110882901-110883213 chr2:110881641-110882900 chr2:110881640-110881641 11.69 N jcn_only_AD CUFF.251 chr12 + chr12:1742072-1754959;chr12:1749143-1754959 chr12:1754228-1754959 17.95 K cassette CUFF.1262 chr7 - chr7:156626487-156629506 chr7:156626487-156627171;chr7:156627270-156629506 chr7:156627172-156627269 28.12 N jcn_only_AA CUFF.231 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 20.37 K alternative_first_exon CUFF.750 chr2 + chr2:16535569-16573520 chr2:16536536-16573520 chr2:16535524-16535568 chr2:16536421-16536535 76.92 N intron_retention chrX - chrX:46382561-46387784 chrX:46382560-46382561;chrX:46387784-46387785 54.55 N jcn_only_AA CUFF.1171 chr6 - chr6:114281183-114289797 chr6:114283559-114289797 chr6:114281183-114283558 chr6:114281182-114281183 20.00 K intron_retention CUFF.1282 chr8 - chr8:56657681-56663522 chr8:56657680-56657681;chr8:56663522-56663523 20.77 N alternative_acceptor CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616199-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 22.99 N intron_retention chr19 + chr19:17448079-17448816 chr19:17448078-17448079;chr19:17448816-17448817 82.11 N coord_cassette CUFF.122 chr10 - chr10:27040713-27054146 chr10:27040713-27044583;chr10:27044671-27047990;chr10:27048165-27054146 chr10:27044584-27044670;chr10:27047991-27048164 56.99 N jcn_only_AD chr17 + chr17:29667602-29670026 chr17:29667664-29670026 77.61 N jcn_only_AD CUFF.794 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 51.27 N jcn_only_AD CUFF.1175 chr6 - chr6:128540242-128561179;chr6:128540242-128551876 chr6:128540242-128643183 14.61 N jcn_only_AA CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915659-104916017 chr11:104915386-104915658 chr11:104915385-104915386 51.35 N alternative_donor chr10 - chr10:78637652-78647048 chr10:78637652-78644746 chr10:78644747-78647048 chr10:78647048-78647049 60.43 N jcn_only_AD CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 45.45 N jcn_only_AA CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3951277-3952865 chr4:3948667-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 14.58 N jcn_only_AD chr3 - chr3:27394411-27410715;chr3:27394411-27409013;chr3:27394411-27410521 chr3:27394411-27405177 23.08 K cassette CUFF.431 chr15 - chr15:77578847-77712347 chr15:77578847-77657504;chr15:77657568-77712347 chr15:77657505-77657567 44.60 K intron_retention CUFF.715 chr19 + chr19:50308834-50308917 chr19:50308833-50308834;chr19:50308917-50308918 40.00 N alternative_acceptor CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905210 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 13.67 K alternative_first_exon CUFF.1019 chr4 + chr4:6911233-6925099 chr4:6912329-6925099 chr4:6910969-6911232 chr4:6911959-6912328 36.36 N jcn_only_AA chr21 + chr21:15660868-15663890 chr21:15660868-15663606 chr21:15663607-15663890 chr21:15663890-15663891 28.89 N jcn_only_AA CUFF.583 chr17 - chr17:56081080-56082283 chr17:56081363-56082283 chr17:56081080-56081362 chr17:56081079-56081080 41.79 K cassette CUFF.512 chr16 - chr16:67220561-67220923 chr16:67220561-67220661;chr16:67220788-67220923 chr16:67220662-67220787 23.33 N cassette CUFF.1127 chr6 + chr6:292561-311879 chr6:292561-304627;chr6:304662-311879 chr6:304628-304661 97.94 K intron_retention CUFF.31 chr1 - chr1:32827653-32829675 chr1:32827652-32827653;chr1:32829675-32829676 22.38 N jcn_only_AA CUFF.1157 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 91.89 K cassette CUFF.1188 chr6 + chr6:161529892-161530786 chr6:161529892-161529982;chr6:161530074-161530786 chr6:161529983-161530073 65.80 K intron_retention CUFF.1150 chr6 + chr6:33243661-33243741 chr6:33243660-33243661;chr6:33243741-33243742 28.53 N cassette CUFF.345 chr14 + chr14:58925264-58927703 chr14:58925264-58926560;chr14:58926789-58927703 chr14:58926561-58926788 91.18 N intron_retention chr2 + chr2:220094681-220094949 chr2:220094680-220094681;chr2:220094949-220094950 92.31 K intron_retention CUFF.626 chr18 - chr18:44424803-44426669 chr18:44424802-44424803;chr18:44426669-44426670 4.35 K cassette CUFF.1254 chr7 + chr7:136554166-136676933 chr7:136554166-136635749;chr7:136635828-136676933 chr7:136635750-136635827 27.59 N intron_retention CUFF.856 chr2 - chr2:242447551-242447732 chr2:242447550-242447551;chr2:242447732-242447733 58.33 N cassette CUFF.607 chr17 + chr17:80426773-80436675;chr17:80426773-80436446 chr17:80426773-80430439;chr17:80430575-80436446,chr17:80430575-80436675 chr17:80430440-80430574 74.69 N coord_cassette CUFF.299 chr12 + chr12:69203073-69229608 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69229608 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 41.18 K intron_retention CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917621-52917622;chr19:52918376-52918377 50.00 N alternative_donor CUFF.1123 chr5 + chr5:177636434-177637132 chr5:177636449-177637132 chr5:177636434-177636448 chr5:177636433-177636434 73.91 N jcn_only_AA chr2 - chr2:110920710-110922264 chr2:110920713-110922264 chr2:110920710-110920712 chr2:110920709-110920710 16.13 N cassette CUFF.631 chr18 + chr18:56001125-56016768 chr18:56001125-56010137;chr18:56010336-56016768 chr18:56010138-56010335 83.58 K intron_retention CUFF.189 chr11 - chr11:6640499-6640614 chr11:6640498-6640499;chr11:6640614-6640615 8.15 N cassette CUFF.1163 chr6 + chr6:90312847-90321990 chr6:90312847-90315725;chr6:90315825-90321990 chr6:90315726-90315824 94.70 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128330414-128385902 chr6:128384671-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 4.10 N alternative_donor CUFF.728 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 10.61 N jcn_only_AA CUFF.361 chr14 + chr14:23392414-23395669 chr14:23392414-23393509 49.28 K jcn_only_AA CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212194-110213908 chr1:110213909-110213935 chr1:110213935-110213936 42.15 K intron_retention chr2 + chr2:3469467-3481465 chr2:3469466-3469467;chr2:3481465-3481466 23.74 N jcn_only_AA CUFF.339 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 48.19 N alternative_donor CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107726214-107749747 chr8:107738486-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 3.33 N jcn_only_AD CUFF.428 chr15 + chr15:74771620-74773391 chr15:74773256-74773391 chr15:74771620-74773255 chr15:74771619-74771620 60.00 K alternative_first_exon CUFF.92 chr1 + chr1:200877016-200877857 chr1:200877678-200877857 chr1:200876962-200877015 chr1:200877570-200877677 54.72 K alternative_first_exon CUFF.902 chr22 + chr22:20748953-20759666;chr22:20755663-20759666 chr22:20755049-20759666 chr22:20748389-20748952;chr22:20755530-20755662 chr22:20754922-20755048 chr22:20759667-20761968 8.70 N jcn_only_AD CUFF.490 chr16 + chr16:19659205-19663297 chr16:19661782-19663297 chr16:19659205-19661781 chr16:19659204-19659205 58.55 N jcn_only_AD CUFF.583 chr17 - chr17:56082403-56082774;chr17:56082403-56082758 chr17:56082403-56083870 chr17:56082759-56082774;chr17:56082775-56083870 chr17:56082774-56082775;chr17:56083870-56083871 16.32 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 34.69 K mutually_exclusive CUFF.367 chr14 - chr14:92195824-92245318,chr14:92245415-92246919 chr14:92195824-92203037,chr14:92203194-92246919 chr14:92245319-92245414 chr14:92203038-92203193 72.92 K jcn_only_AD CUFF.528 chr17 - chr17:1616190-1617149 chr17:1616190-1616996 chr17:1616997-1617149 chr17:1617149-1617150 21.40 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821 chr5:149782189-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 31.18 K intron_retention chr16 - chr16:75589872-75589968 chr16:75589871-75589872;chr16:75589968-75589969 78.56 K alternative_first_exon CUFF.5 chr1 + chr1:2066526-2066700,chr1:2006573-2066700,chr1:2043257-2066700,chr1:2005369-2066700,chr1:2013900-2066700,chr1:2029995-2066700,chr1:2065440-2066700,chr1:2005715-2066700,chr1:2047750-2066700;chr1:1991031-2066700;chr1:2006819-2066700;chr1:2006207-2066700 chr1:2036335-2066700 chr1:1990980-1991030;chr1:2006629-2006818;chr1:2006089-2006206 chr1:2036131-2036334 42.23 K intron_retention CUFF.373 chr14 - chr14:104201417-104204030 chr14:104201416-104201417;chr14:104204030-104204031 90.10 N alternative_acceptor CUFF.152 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 33.33 N alternative_donor CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71802613 chr3:71777775-71803365 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 26.47 N alternative_acceptor CUFF.575 chr17 - chr17:42113669-42114779 chr17:42114471-42114779 chr17:42113669-42114470 chr17:42113668-42113669 4.88 N alternative_donor CUFF.960 chr3 + chr3:75492798-75500360 chr3:75496448-75500360 chr3:75492798-75496447 chr3:75492797-75492798 37.50 K alternative_last_exon CUFF.977 chr3 - chr3:120352176-120357301 chr3:120352438-120357301 chr3:120351994-120352175 chr3:120352185-120352437 45.24 N intron_retention chr4 - chr4:83821377-83821524 chr4:83821376-83821377;chr4:83821524-83821525 17.96 N coord_cassette CUFF.1411 chrX + chrX:107377389-107381033 chrX:107377389-107377568;chrX:107377642-107380320;chrX:107380401-107381033 chrX:107377569-107377641;chrX:107380321-107380400 74.04 K alternative_first_exon CUFF.969 chr3 - chr3:108475436-108475905 chr3:108475436-108475666 chr3:108475906-108476284 chr3:108475667-108475862 34.09 K intron_retention CUFF.261 chr12 - chr12:11461376-11461582 chr12:11461375-11461376;chr12:11461582-11461583 65.79 N jcn_only_AD CUFF.1090,CUFF.1093 chr5 - chr5:60186914-60194102 chr5:60186914-60187863 chr5:60187864-60194102 chr5:60194102-60194103 2.70 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44483490-44483596;chr18:44484065-44484169;chr18:44486190-44486278 88.61 N jcn_only_AA CUFF.126 chr10 - chr10:35351991-35360126 chr10:35353045-35360126 chr10:35351991-35353044 chr10:35351990-35351991 23.91 K intron_retention CUFF.1188 chr6 + chr6:161529892-161529982 chr6:161529891-161529892;chr6:161529982-161529983 17.54 N alternative_donor CUFF.402 chr15 + chr15:45742489-45768276 chr15:45752768-45768276 chr15:45742489-45752767 chr15:45742488-45742489 0.00 K intron_retention CUFF.1115 chr5 + chr5:140041799-140041886 chr5:140041798-140041799;chr5:140041886-140041887 12.50 K intron_retention CUFF.723 chr19 - chr19:51526485-51527300 chr19:51526484-51526485;chr19:51527300-51527301 5.01 N intron_retention chr11 + chr11:118402587-118403124 chr11:118402586-118402587;chr11:118403124-118403125 87.20 K jcn_only_AD CUFF.1233 chr7 + chr7:92158239-92158789 chr7:92158498-92158789 chr7:92158239-92158497 chr7:92158238-92158239 74.36 N cassette CUFF.198 chr11 + chr11:36467991-36483891 chr11:36467991-36472758;chr11:36472886-36483891 chr11:36472759-36472885 83.33 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45479651;chr15:45470505-45492924 chr15:45470505-45473304 chr15:45479652-45480154;chr15:45492925-45493460 chr15:45473305-45473384 4.19 N jcn_only_AD CUFF.991 chr3 - chr3:141820684-141868024 chr3:141820684-141844990 chr3:141844991-141868024 chr3:141868024-141868025 3.38 N jcn_only_AA CUFF.106 chr1 + chr1:167382352-167385285 chr1:167382352-167384736 chr1:167384737-167385285 chr1:167385285-167385286 54.10 K jcn_only_AA CUFF.896 chr21 - chr21:47556968-47557152 chr21:47556988-47557152 chr21:47556968-47556987 chr21:47556967-47556968 31.44 N alternative_donor CUFF.5 chr1 + chr1:1982141-1986879 chr1:1982452-1986879 chr1:1982141-1982451 chr1:1982140-1982141 14.56 K intron_retention CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181417-133181418;chr12:133182732-133182733 25.06 K intron_retention chr11 - chr11:8496364-8502080 chr11:8496363-8496364;chr11:8502080-8502081 69.92 N alternative_acceptor CUFF.152 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 0.00 N alternative_donor CUFF.631 chr18 + chr18:55895121-55912658;chr18:55895140-55912658 chr18:55865102-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 26.09 N jcn_only_AD CUFF.925 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 65.52 K intron_retention CUFF.796 chr2 + chr2:109111942-109113425 chr2:109111941-109111942;chr2:109113425-109113426 71.74 N jcn_only_AD chr9 - chr9:130941184-130941267;chr9:130941184-130941351 chr9:130941184-130941522 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 37.66 N jcn_only_AA CUFF.587 chr17 + chr17:60783831-60803388;chr17:60783831-60813446 chr17:60783831-60784792 chr17:60784793-60803388;chr17:60803389-60813446 chr17:60803388-60803389;chr17:60813446-60813447 40.97 N jcn_only_AD CUFF.951,CUFF.983 chr3 - chr3:125752522-125769785 chr3:125752522-125769740 chr3:125769741-125769785 chr3:125769785-125769786 5.49 K alternative_last_exon CUFF.1294 chr8 + chr8:75275289-75400912 chr8:75275289-75276219 chr8:75400913-75401106 chr8:75276220-75276957 79.37 N alternative_donor chr3 - chr3:33614847-33614931;chr3:33614847-33615964 chr3:33614847-33617660 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 98.21 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66508690-66511127;chr17:66508284-66511127 chr17:66509120-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 13.04 N jcn_only_AD CUFF.84 chr1 + chr1:167301773-167334703 chr1:167326759-167334703 chr1:167301773-167326758 chr1:167301772-167301773 1.25 N intron_retention chr17 - chr17:79894738-79895133 chr17:79894737-79894738;chr17:79895133-79895134 79.63 N coord_cassette CUFF.1177 chr6 - chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879;chr6:133050073-133055391 chr6:133047861-133047977;chr6:133049880-133050072 76.39 N alternative_acceptor CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116981533-116981898 chr6:116980088-116981532 chr6:116980087-116980088 3.45 K intron_retention CUFF.1169 chr6 + chr6:112382498-112385966 chr6:112382497-112382498;chr6:112385966-112385967 73.58 K intron_retention CUFF.666 chr19 + chr19:10394171-10394233 chr19:10394170-10394171;chr19:10394233-10394234 44.07 N alternative_donor CUFF.798 chr2 - chr2:110959072-110962476 chr2:110959072-110959949 chr2:110959950-110962476 chr2:110962476-110962477 0.28 K cassette CUFF.983 chr3 - chr3:125769894-125786789 chr3:125769894-125786328;chr3:125786430-125786789 chr3:125786329-125786429 7.76 K alternative_acceptor CUFF.95,ENSG00000137960.5 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 41.24 N intron_retention CUFF.1215 chr7 + chr7:44247798-44248005 chr7:44247797-44247798;chr7:44248005-44248006 77.78 K intron_retention CUFF.342 chr14 + chr14:50241397-50244556 chr14:50241396-50241397;chr14:50244556-50244557 50.31 K intron_retention ENSG00000260669.2 chr14 - chr14:24683358-24683515 chr14:24683357-24683358;chr14:24683515-24683516 17.65 K alternative_last_exon CUFF.15 chr1 + chr1:16382254-16383732 chr1:16382254-16382916 chr1:16383733-16383803 chr1:16382917-16383003 25.53 N alternative_donor CUFF.1362,CUFF.1368 chr9 - chr9:130953142-130966464;chr9:130953142-130954010;chr9:130953142-130953710;chr9:130953142-130954133 chr9:130953142-130953558 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 11.76 N jcn_only_AD CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46168126 chr10:46159291-46167719 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 11.76 K intron_retention CUFF.983 chr3 - chr3:125743749-125745177 chr3:125743748-125743749;chr3:125745177-125745178 14.89 K alternative_first_exon CUFF.227 chr11 - chr11:104915386-104972134 chr11:104915386-104916017,chr11:104915386-104915917 chr11:104972135-104972256 chr11:104916018-104916071 79.63 N jcn_only_AD CUFF.490 chr16 + chr16:19613046-19619499 chr16:19619184-19619499 chr16:19613046-19619183 chr16:19613045-19613046 19.42 N alternative_donor chr20 - chr20:31115717-31172371;chr20:31115717-31123243 chr20:31115717-31120119 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 0.00 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107630412-107691437;chr8:107670414-107691437 chr8:107531368-107691437 chr8:107630321-107630411;chr8:107670118-107670413 chr8:107531171-107531367 27.38 N jcn_only_AD CUFF.409 chr15 + chr15:57535749-57543547 chr15:57540280-57543547 chr15:57535749-57540279 chr15:57535748-57535749 33.12 K intron_retention CUFF.1144 chr6 - chr6:31939359-31939705 chr6:31939358-31939359;chr6:31939705-31939706 83.17 N jcn_only_AD CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447919 chr2:242447551-242447732 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 8.70 N intron_retention chr16 + chr16:31382819-31382950 chr16:31382818-31382819;chr16:31382950-31382951 90.15 N jcn_only_AD CUFF.336 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 4.64 N intron_retention chr16 - chr16:57513601-57513756 chr16:57513600-57513601;chr16:57513756-57513757 85.71 N jcn_only_AA CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149784744-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 43.82 N jcn_only_AD CUFF.1237 chr7 - chr7:102251590-102252518;chr7:102251590-102257071 chr7:102251590-102256969 chr7:102252519-102256969;chr7:102256970-102257071 chr7:102256969-102256970;chr7:102257071-102257072 30.65 N intron_retention chr19 + chr19:1438892-1439604 chr19:1438891-1438892;chr19:1439604-1439605 68.89 N jcn_only_AD CUFF.177 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 3.70 N jcn_only_AD CUFF.431,CUFF.452 chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90414706 chr15:90380955-90381260 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 5.89 N intron_retention CUFF.530 chr17 + chr17:1939386-1939722 chr17:1939385-1939386;chr17:1939722-1939723 83.33 N alternative_acceptor CUFF.1111 chr5 + chr5:139876864-139884405 chr5:139876864-139877622 chr5:139877623-139884405 chr5:139884405-139884406 chr5:139876105-139876863;chr5:139884406-139884551 33.33 N intron_retention CUFF.935 chr3 + chr3:28357915-28358243 chr3:28357914-28357915;chr3:28358243-28358244 8.33 K alternative_last_exon CUFF.700 chr19 - chr19:41938968-41939441;chr19:41938314-41939441 chr19:41939340-41939441 chr19:41937223-41938313 chr19:41938751-41939339 57.23 K alternative_last_exon CUFF.626 chr18 - chr18:44395313-44400895 chr18:44398411-44400895 chr18:44395275-44395312 chr18:44398154-44398410 46.35 N alternative_donor CUFF.1333 chr9 + chr9:43907538-43908435 chr9:43908211-43908435 chr9:43907538-43908210 chr9:43907537-43907538 63.64 N mutually_exclusive CUFF.1296 chr8 - chr8:80954904-80962679,chr8:80962707-80963761 chr8:80954904-80956401,chr8:80956444-80963761 chr8:80962680-80962706 chr8:80956402-80956443 60.00 N alternative_donor CUFF.1262 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 0.00 N jcn_only_AA CUFF.148 chr10 - chr10:78669855-78674693 chr10:78673896-78674693 chr10:78669855-78673895 chr10:78669854-78669855 1.83 N coord_cassette CUFF.494 chr16 + chr16:21983444-21991867 chr16:21983444-21985216;chr16:21985298-21987487;chr16:21987565-21991867 chr16:21985217-21985297;chr16:21987488-21987564 54.35 N alternative_donor CUFF.385 chr15 + chr15:29347039-29367123 chr15:29363303-29367123 chr15:29347039-29363302 chr15:29347038-29347039 3.03 K cassette CUFF.323 chr13 + chr13:31192194-31195900 chr13:31192194-31195209;chr13:31195377-31195900 chr13:31195210-31195376 33.33 K jcn_only_AA CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 92.95 K intron_retention CUFF.930 chr3 + chr3:19992554-20017092 chr3:19992553-19992554;chr3:20017092-20017093 21.09 N coord_cassette CUFF.84 chr1 + chr1:167210848-167301706 chr1:167210848-167272710;chr1:167272812-167288250;chr1:167288294-167301706 chr1:167272711-167272811;chr1:167288251-167288293 86.23 N cassette CUFF.191 chr11 - chr11:8414258-8457040 chr11:8414258-8435041;chr11:8435240-8457040 chr11:8435042-8435239 83.05 N jcn_only_AD CUFF.988 chr3 + chr3:133097401-133098595;chr3:133022182-133098595 chr3:132948196-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 74.45 N jcn_only_AD CUFF.958 chr3 - chr3:71777775-71778224;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71803794 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 13.25 N intron_retention chr18 + chr18:44336588-44336745 chr18:44336587-44336588;chr18:44336745-44336746 94.92 N mutually_exclusive CUFF.825 chr2 - chr2:177041421-177042438,chr2:177042550-177042742 chr2:177041421-177042059,chr2:177042223-177042742 chr2:177042439-177042549 chr2:177042060-177042222 78.67 N jcn_only_AA CUFF.1198 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 19.01 N alternative_donor CUFF.941 chr3 - chr3:33614847-33617660;chr3:33614847-33614931 chr3:33614847-33615964 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 1.79 N alternative_acceptor CUFF.270 chr12 - chr12:22671072-22676359;chr12:22672174-22676359 chr12:22666325-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 93.28 N jcn_only_AA chr1 - chr1:161970129-161976086 chr1:161970132-161976086 50.00 N alternative_donor CUFF.237 chr11 - chr11:118926880-118927730;chr11:118926880-118927863;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118926990 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 5.88 K cassette CUFF.921 chr22 + chr22:45204319-45210551 chr22:45204319-45204885;chr22:45204979-45210551 chr22:45204886-45204978 25.21 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470146;chr19:11468416-11470282 chr19:11468416-11470207 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 39.29 N cassette CUFF.626 chr18 - chr18:44483597-44500021 chr18:44483597-44486189;chr18:44486279-44500021 chr18:44486190-44486278 13.75 N intron_retention chr16 + chr16:19592976-19612985 chr16:19592975-19592976;chr16:19612985-19612986 88.98 N coord_cassette CUFF.1313 chr8 + chr8:107726214-107752570 chr8:107726214-107749747;chr8:107749829-107751685;chr8:107751812-107752570 chr8:107749748-107749828;chr8:107751686-107751811 89.13 N cassette CUFF.291 chr12 - chr12:56566489-56567479 chr12:56566489-56566720;chr12:56566814-56567479 chr12:56566721-56566813 chr12:56566369-56566488;chr12:56567480-56567633 25.43 N jcn_only_AA CUFF.681 chr19 + chr19:17611442-17615263 chr19:17611442-17611520 chr19:17611521-17615263 chr19:17615263-17615264 61.99 N cassette CUFF.740 chr2 - chr2:675631-677288;chr2:675631-676573 chr2:675631-675757;chr2:676239-677288,chr2:676239-676573 chr2:675758-676238 79.73 K alternative_last_exon CUFF.1333,CUFF.1360 chr9 + chr9:43853617-43861005;chr9:43853617-43861002 chr9:43853617-43854068 chr9:43861003-43861206 chr9:43854069-43854398 79.50 K intron_retention CUFF.1008 chr4 + chr4:657660-657902 chr4:657659-657660;chr4:657902-657903 15.38 N alternative_donor CUFF.902 chr22 + chr22:20748625-20749622 chr22:20748953-20749622 chr22:20748625-20748952 chr22:20748624-20748625 chr22:20749623-20749708;chr22:20748405-20748624 85.71 K cassette CUFF.1222 chr7 + chr7:73108381-73111934 chr7:73108381-73111795;chr7:73111847-73111934 chr7:73111796-73111846 1.40 K alternative_last_exon CUFF.844 chr2 + chr2:219457431-219458891;chr2:219457431-219458830 chr2:219457431-219458250 chr2:219458831-219461803 chr2:219458251-219458574 22.22 N alternative_donor CUFF.1316 chr8 - chr8:120774849-120790258 chr8:120774849-120779242 chr8:120779243-120790258 chr8:120790258-120790259 0.00 K alternative_acceptor CUFF.255,CUFF.287 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 56.21 K alternative_first_exon CUFF.269 chr12 + chr12:21011506-21174394 chr12:21172315-21174394 chr12:21011373-21011505 chr12:21172291-21172314 28.12 K alternative_acceptor CUFF.490 chr16 + chr16:19580914-19584445 chr16:19580914-19584440 chr16:19584441-19584445 chr16:19584445-19584446 34.73 N jcn_only_AA chr7 - chr7:156516873-156526870 chr7:156521415-156526870 91.95 N alternative_acceptor CUFF.1360 chr9 + chr9:125027218-125033142;chr9:125027218-125033231 chr9:125027218-125027740 chr9:125027741-125033142;chr9:125033143-125033231 chr9:125033142-125033143;chr9:125033231-125033232 2.43 N alternative_donor CUFF.1208 chr7 - chr7:37272800-37298785 chr7:37272800-37283960 chr7:37283961-37298785 chr7:37298785-37298786 0.00 N alternative_acceptor CUFF.1003 chr3 + chr3:186769135-186790636 chr3:186769135-186782307 chr3:186782308-186790636 chr3:186790636-186790637 1.20 N jcn_only_AD CUFF.108 chr1 + chr1:245222761-245245384 chr1:245238914-245245384 chr1:245222761-245238913 chr1:245222760-245222761 8.24 N alternative_acceptor CUFF.1197,CUFF.1226 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 35.29 N intron_retention chr17 + chr17:25965381-25967668 chr17:25965380-25965381;chr17:25967668-25967669 55.56 N jcn_only_AD CUFF.1110 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 14.52 N jcn_only_AD CUFF.497 chr16 - chr16:23505700-23507034;chr16:23505700-23507014 chr16:23505700-23507009 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 14.81 K intron_retention CUFF.693 chr19 + chr19:36139796-36142134 chr19:36139795-36139796;chr19:36142134-36142135 63.89 N intron_retention chr11 + chr11:119056662-119057324 chr11:119056661-119056662;chr11:119057324-119057325 chr11:119056634-119056661;chr11:119057325-119057399 91.15 N intron_retention chr10 - chr10:78644776-78647048 chr10:78644775-78644776;chr10:78647048-78647049 42.71 K alternative_last_exon CUFF.1023 chr4 + chr4:13831472-13961612 chr4:13831472-13930973 chr4:13961613-13961710 chr4:13930974-13932852 83.24 N intron_retention chr18 - chr18:44268831-44272131 chr18:44268830-44268831;chr18:44272131-44272132 94.37 N jcn_only_AA chr14 + chr14:61519704-61545527 chr14:61519704-61540565 chr14:61540566-61545527 chr14:61545527-61545528 71.23 N alternative_acceptor CUFF.1146,CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33240504-33243276 chr6:33243277-33243573 chr6:33243573-33243574 19.50 K intron_retention CUFF.294 chr12 - chr12:56705180-56708634 chr12:56705179-56705180;chr12:56708634-56708635 61.76 K alternative_acceptor CUFF.287 chr12 + chr12:53854928-53856276 chr12:53854928-53856264 chr12:53856265-53856276 chr12:53856276-53856277 57.85 N alternative_donor CUFF.758 chr2 + chr2:38156080-38156404;chr2:38150511-38156404 chr2:38152569-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 10.00 N intron_retention chr6 + chr6:112375374-112375537 chr6:112375373-112375374;chr6:112375537-112375538 86.67 K intron_retention CUFF.1088 chr5 + chr5:54460008-54460427 chr5:54460007-54460008;chr5:54460427-54460428 78.85 K intron_retention CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083386-11083387;chr1:11084358-11084359 86.67 K intron_retention CUFF.175 chr11 + chr11:830714-831223 chr11:830713-830714;chr11:831223-831224 59.09 N alternative_acceptor CUFF.847 chr2 + chr2:228158034-228159205 chr2:228158034-228158458 chr2:228158459-228159205 chr2:228159205-228159206 90.91 N jcn_only_AD CUFF.1100,CUFF.1122 chr5 - chr5:127338515-127359826 chr5:127338515-127339335 chr5:127339336-127359826 chr5:127359826-127359827 68.66 N alternative_acceptor CUFF.401 chr15 - chr15:45470505-45492924;chr15:45491319-45492924 chr15:45491299-45492924 chr15:45470505-45491298;chr15:45491299-45491318 chr15:45470504-45470505;chr15:45491298-45491299 0.00 N intron_retention chr5 + chr5:139851881-139862164 chr5:139851880-139851881;chr5:139862164-139862165 chr5:139862165-139862252 51.72 K intron_retention CUFF.1121 chr5 - chr5:149781814-149782125 chr5:149781813-149781814;chr5:149782125-149782126 3.33 N mutually_exclusive CUFF.237 chr11 - chr11:118926284-118926781,chr11:118926880-118927785 chr11:118926284-118926461,chr11:118926556-118927785 chr11:118926782-118926879 chr11:118926462-118926555 44.00 K intron_retention chr11 - chr11:5701469-5706245 chr11:5701468-5701469;chr11:5706245-5706246 98.36 N intron_retention CUFF.175 chr11 + chr11:829541-829967 chr11:829540-829541;chr11:829967-829968 53.33 N alternative_donor CUFF.585 chr17 + chr17:60784969-60813446;chr17:60777141-60813446 chr17:60783831-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 21.74 K jcn_only_AA CUFF.291 chr12 - chr12:56578877-56579938 chr12:56578896-56579938 chr12:56578877-56578895 chr12:56578876-56578877 chr12:56579939-56580024;chr12:56578814-56578876 21.69 N jcn_only_AA CUFF.322 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 56.25 K cassette CUFF.391 chr15 + chr15:40545491-40556981 chr15:40545491-40555999;chr15:40556121-40556981 chr15:40556000-40556120 31.45 N jcn_only_AD CUFF.401,CUFF.406 chr15 - chr15:55483246-55484917 chr15:55483246-55484600 chr15:55484601-55484917 chr15:55484917-55484918 18.75 K jcn_only_AA CUFF.1177 chr6 - chr6:133047978-133049879 chr6:133048152-133049879 chr6:133047978-133048151 chr6:133047977-133047978 68.75 K intron_retention CUFF.239 chr11 + chr11:119059577-119059713 chr11:119059576-119059577;chr11:119059713-119059714 chr11:119059349-119059576;chr11:119059714-119059914 9.09 N alternative_acceptor CUFF.528 chr17 - chr17:1616220-1616996;chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616199-1616996 chr17:1616350-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 31.47 N jcn_only_AA CUFF.1177 chr6 - chr6:133055523-133055618 chr6:133055526-133055618 chr6:133055523-133055525 chr6:133055522-133055523 6.23 N alternative_acceptor CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 23.53 N jcn_only_AA CUFF.1206 chr7 + chr7:34724297-34725362;chr7:34724297-34818106 chr7:34724297-34818073 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 59.62 N jcn_only_AD CUFF.71 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 3.55 K jcn_only_AA CUFF.911 chr22 + chr22:29668242-29668374 chr22:29668242-29668368 chr22:29668369-29668374 chr22:29668374-29668375 95.55 K alternative_last_exon CUFF.879 chr20 + chr20:61569606-61572842 chr20:61569606-61569951 chr20:61572843-61572972 chr20:61569952-61570177 84.85 N jcn_only_AD CUFF.742 chr2 + chr2:1320148-1371114 chr2:1357637-1371114 chr2:1320148-1357636 chr2:1320147-1320148 5.10 N jcn_only_AD chr7 + chr7:129017465-129019481;chr7:129008393-129019481 chr7:129015768-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 29.41 N cassette CUFF.743 chr2 + chr2:3469467-3482616 chr2:3469467-3481465;chr2:3481567-3482616 chr2:3481466-3481566 84.50 N cassette CUFF.279 chr12 - chr12:49333563-49334730 chr12:49333563-49333779;chr12:49333891-49334730 chr12:49333780-49333890 86.52 K cassette CUFF.33 chr1 - chr1:41481901-41483306 chr1:41481901-41482905;chr1:41483050-41483306 chr1:41482906-41483049 61.02 N alternative_donor CUFF.840 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 98.86 K alternative_donor CUFF.424,CUFF.460 chr15 - chr15:66783056-66786752 chr15:66783056-66786614 chr15:66786615-66786752 chr15:66786752-66786753 77.24 N alternative_acceptor CUFF.935 chr3 + chr3:28357915-28360222;chr3:28357915-28360999 chr3:28357915-28358243 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 6.32 N jcn_only_AD CUFF.1088 chr5 + chr5:54456072-54456821 chr5:54456225-54456821 chr5:54456072-54456224 chr5:54456071-54456072 31.84 N jcn_only_AA CUFF.712 chr19 - chr19:49335990-49337532 chr19:49336010-49337532 chr19:49335990-49336009 chr19:49335989-49335990 30.00 N jcn_only_AA chr17 + chr17:29576138-29584704;chr17:29576138-29579955 chr17:29576138-29585361 21.74 K jcn_only_AD CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 88.45 K jcn_only_AA CUFF.699 chr19 - chr19:41533165-41533447 chr19:41533170-41533447 chr19:41533165-41533169 chr19:41533164-41533165 46.34 N jcn_only_AA CUFF.743 chr2 + chr2:3464108-3464417;chr2:3464108-3469367 chr2:3464108-3466628 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 1.66 K intron_retention CUFF.58 chr1 + chr1:145580611-145581181 chr1:145580610-145580611;chr1:145581181-145581182 54.17 N alternative_acceptor CUFF.509 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 25.84 N alternative_acceptor CUFF.1202 chr7 - chr7:22357657-22396448 chr7:22396231-22396448 chr7:22357657-22396230 chr7:22357656-22357657 15.00 K mutually_exclusive CUFF.1378 chrX - chrX:8997460-8998301,chrX:8998402-9000170 chrX:8997460-8998162,chrX:8998248-9000170 chrX:8998302-8998401 chrX:8998163-8998247 8.41 N alternative_acceptor CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23393509;chr14:23390330-23392287 chr14:23390330-23392180 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 16.33 N jcn_only_AD CUFF.349,CUFF.355 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 65.79 K jcn_only_AD CUFF.1104 chr5 + chr5:128862150-128863440 chr5:128862209-128863440 chr5:128862150-128862208 chr5:128862149-128862150 92.31 N jcn_only_AD CUFF.932 chr3 - chr3:49338125-49339870 chr3:49338125-49339816 chr3:49339817-49339870 chr3:49339870-49339871 81.63 K alternative_first_exon CUFF.896 chr21 - chr21:47566242-47570032 chr21:47566242-47566704 chr21:47570033-47570164 chr21:47566705-47566886 25.78 N alternative_donor CUFF.981,CUFF.987 chr3 - chr3:125007073-125032151 chr3:125007073-125011308 chr3:125011309-125032151 chr3:125032151-125032152 0.00 N alternative_last_exon chr14 + chr14:77928586-77934425 chr14:77928586-77928984 chr14:77934426-77934661 chr14:77928985-77929102 93.43 N cassette CUFF.421 chr15 - chr15:64669105-64673524 chr15:64669105-64673156;chr15:64673238-64673524 chr15:64673157-64673237 11.97 K alternative_last_exon CUFF.1345 chr9 - chr9:99973770-100000704 chr9:100000368-100000704 chr9:99973655-99973769 chr9:100000102-100000367 32.65 N alternative_acceptor CUFF.1367 chr9 + chr9:133320383-133325658;chr9:133320383-133327610 chr9:133320383-133326988 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 42.86 N alternative_acceptor CUFF.736 chr2 - chr2:263763-264781;chr2:263373-264781 chr2:263369-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 39.23 N intron_retention chr2 + chr2:219457431-219458891 chr2:219457430-219457431;chr2:219458891-219458892 62.50 N intron_retention chr2 + chr2:242594759-242606059 chr2:242594758-242594759;chr2:242606059-242606060 81.54 N mutually_exclusive CUFF.164 chr10 - chr10:123629554-123661905,chr10:123662136-123670420 chr10:123629554-123659380,chr10:123659510-123670420 chr10:123661906-123662135 chr10:123659381-123659509 18.39 K jcn_only_AA CUFF.32 chr1 - chr1:33647023-33647594 chr1:33647096-33647594 chr1:33647023-33647095 chr1:33647022-33647023 32.29 N alternative_acceptor CUFF.932 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 7.32 K alternative_acceptor CUFF.1077,CUFF.1115 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 39.29 N cassette CUFF.207 chr11 + chr11:63656437-63662630 chr11:63656437-63657693;chr11:63657768-63662630 chr11:63657694-63657767 chr11:63662631-63662810 90.48 N alternative_donor CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307837-126314902 chr6:126307769-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 51.09 N jcn_only_AA CUFF.1188 chr6 + chr6:161471012-161491639 chr6:161471012-161488230 chr6:161488231-161491639 chr6:161491639-161491640 3.70 K intron_retention CUFF.63 chr1 - chr1:151158097-151158273 chr1:151158096-151158097;chr1:151158273-151158274 6.67 N jcn_only_AD CUFF.1062 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 3.97 K jcn_only_AD CUFF.1423 chrX - chrX:152988744-152989788 chrX:152988744-152989655 chrX:152989656-152989788 chrX:152989788-152989789 9.77 K alternative_acceptor CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 61.67 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990344;chr9:34990609-34993196 chr9:34990345-34990608 78.43 K mutually_exclusive CUFF.1383 chrX - chrX:15343275-15349711,chrX:15350115-15353622 chrX:15343275-15344035,chrX:15344169-15353622 chrX:15349712-15350114 chrX:15344036-15344168 4.07 N jcn_only_AD CUFF.133 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 35.48 K cassette CUFF.1335 chr9 - chr9:46661549-46662447 chr9:46661549-46661770;chr9:46661861-46662447 chr9:46661771-46661860 41.67 N jcn_only_AD CUFF.124 chr10 + chr10:28033878-28056286 chr10:28053703-28056286 chr10:28033878-28053702 chr10:28033877-28033878 17.76 N alternative_donor CUFF.254 chr12 + chr12:4440484-4446204 chr12:4444818-4446204 chr12:4440484-4444817 chr12:4440483-4440484 3.03 K intron_retention CUFF.1032 chr4 + chr4:37848733-37848822 chr4:37848732-37848733;chr4:37848822-37848823 13.38 N cassette CUFF.352 chr14 - chr14:69585948-69619660 chr14:69585948-69588933;chr14:69589078-69619660 chr14:69588934-69589077 89.95 N jcn_only_AD CUFF.1043,CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 6.95 K alternative_first_exon CUFF.693 chr19 + chr19:36139811-36142134;chr19:36139306-36142134 chr19:36139796-36142134 chr19:36139125-36139305 chr19:36139674-36139795 12.66 N alternative_donor CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 12.28 N alternative_acceptor CUFF.991 chr3 - chr3:141697525-141712379 chr3:141708357-141712379 chr3:141697525-141708356 chr3:141697524-141697525 0.14 N jcn_only_AA CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 5.37 K intron_retention CUFF.1333 chr9 + chr9:43876146-43884944 chr9:43876145-43876146;chr9:43884944-43884945 76.47 K cassette CUFF.279 chr12 - chr12:49334972-49349880 chr12:49334972-49346895;chr12:49347058-49349880 chr12:49346896-49347057 70.70 K jcn_only_AA CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865318-139866542 chr5:139866543-139866590 chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 70.37 K cassette CUFF.786 chr2 - chr2:86393768-86398330 chr2:86393768-86397871;chr2:86397965-86398330 chr2:86397872-86397964 94.03 N alternative_donor CUFF.541 chr17 - chr17:15584268-15586174;chr17:15584268-15586167 chr17:15584268-15584364 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 2.84 K intron_retention CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999436-63999437;chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 88.69 N cassette CUFF.243 chr11 - chr11:119291097-119293822 chr11:119291097-119291578;chr11:119291640-119293822 chr11:119291579-119291639 72.14 N alternative_acceptor CUFF.307 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 39.47 N alternative_donor CUFF.177 chr11 - chr11:118927130-118927785 chr11:118927130-118927730 chr11:118927731-118927785 chr11:118927785-118927786 58.40 N alternative_acceptor CUFF.428 chr15 + chr15:57574797-57583026;chr15:57574797-57591423 chr15:57574797-57578354 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 91.84 N alternative_donor chr1 - chr1:27436269-27480473 chr1:27436269-27440316 chr1:27440317-27480473 chr1:27480473-27480474 1.41 N cassette CUFF.522 chr16 + chr16:77756515-77775478 chr16:77756515-77759327;chr16:77759482-77775478 chr16:77759328-77759481 77.01 N jcn_only_AD CUFF.631 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 6.74 K intron_retention CUFF.53 chr1 - chr1:113464756-113471713 chr1:113464755-113464756;chr1:113471713-113471714 17.19 N alternative_acceptor CUFF.1037 chr4 - chr4:69057243-69078079 chr4:69071816-69078079 chr4:69057243-69071815 chr4:69057242-69057243 14.29 N cassette CUFF.237 chr11 - chr11:118926556-118927785 chr11:118926556-118926781;chr11:118926880-118927785 chr11:118926782-118926879 91.28 K alternative_first_exon CUFF.721 chr19 - chr19:50548045-50554138 chr19:50548045-50551215 chr19:50554139-50554319 chr19:50551216-50551306 10.13 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 68.79 K cassette CUFF.1093 chr5 - chr5:60224787-60240758 chr5:60224787-60227933;chr5:60227976-60240758 chr5:60227934-60227975 26.19 N coord_cassette CUFF.494 chr16 + chr16:21964778-21974081 chr16:21964778-21968737;chr16:21968888-21969855;chr16:21969921-21973780;chr16:21973838-21974081 chr16:21968738-21968887;chr16:21969856-21969920;chr16:21973781-21973837 70.00 K alternative_acceptor CUFF.446 chr15 - chr15:83331986-83332311 chr15:83332048-83332311 chr15:83331986-83332047 chr15:83331985-83331986 30.88 N jcn_only_AA CUFF.148 chr10 - chr10:78799396-78832854;chr10:78831404-78832854 chr10:78823902-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 3.87 N alternative_acceptor CUFF.357,CUFF.369 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 0.00 K jcn_only_AD CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323235-4323344 chr19:4323211-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 9.80 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54657680;chr19:54657578-54658995 chr19:54657578-54659046 chr19:54657681-54658984;chr19:54658996-54658999 chr19:54659047-54659419 66.53 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 37.37 N jcn_only_AD CUFF.830 chr2 + chr2:191362446-191364740 chr2:191364583-191364740 chr2:191362446-191364582 chr2:191362445-191362446 2.53 K intron_retention chr2 + chr2:220095128-220096649 chr2:220095127-220095128;chr2:220096649-220096650 49.78 N jcn_only_AD CUFF.270 chr12 - chr12:22627826-22631246 chr12:22627826-22630195 chr12:22630196-22631246 chr12:22631246-22631247 38.69 N alternative_donor chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 2.44 K cassette CUFF.834 chr2 + chr2:200472851-200493786 chr2:200472851-200489254;chr2:200489320-200493786 chr2:200489255-200489319 52.75 N alternative_donor chr10 + chr10:35437420-35464780 chr10:35464634-35464780 chr10:35437420-35464633 chr10:35437419-35437420 2.01 K intron_retention CUFF.171 chr11 - chr11:406060-406348 chr11:406059-406060;chr11:406348-406349 14.65 N jcn_only_AD CUFF.497 chr16 - chr16:23505700-23507009;chr16:23505700-23507014 chr16:23505700-23507034 chr16:23507010-23507014;chr16:23507015-23507034 chr16:23507014-23507015;chr16:23507034-23507035 2.45 N jcn_only_AD chr15 + chr15:63128273-63131054 chr15:63128318-63131054 3.26 N cassette CUFF.1177 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133047978-133049879,chr6:133047978-133055391 chr6:133047861-133047977 72.59 K alternative_donor CUFF.649 chr19 + chr19:1440241-1440347 chr19:1440253-1440347 chr19:1440241-1440252 chr19:1440240-1440241 70.48 N jcn_only_AA CUFF.220 chr11 + chr11:118402587-118403124;chr11:118402587-118403004 chr11:118402587-118402811 70.98 N jcn_only_AD CUFF.1330 chr9 + chr9:34991414-34993196 chr9:34992984-34993196 chr9:34991414-34992983 chr9:34991413-34991414 29.58 K jcn_only_AD CUFF.1041 chr4 + chr4:77189922-77192720 chr4:77189967-77192720 chr4:77189922-77189966 chr4:77189921-77189922 64.00 K alternative_first_exon CUFF.1149 chr6 + chr6:32812648-32823914;chr6:32812052-32823914 chr6:32822067-32823914 chr6:32812549-32812647;chr6:32811870-32812051 chr6:32821895-32822066 57.95 K intron_retention CUFF.856 chr2 - chr2:242435950-242437030 chr2:242435949-242435950;chr2:242437030-242437031 9.23 N cassette CUFF.1003 chr3 + chr3:186681715-186769036 chr3:186681715-186756529;chr3:186756662-186769036 chr3:186756530-186756661 68.70 N alternative_acceptor CUFF.547,CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560051-61560389 chr17:61560390-61560820 chr17:61560820-61560821 25.00 K cassette CUFF.471 chr16 + chr16:2200053-2201569 chr16:2200053-2201130;chr16:2201317-2201569 chr16:2201131-2201316 12.04 N alternative_donor CUFF.930 chr3 + chr3:19992554-20017092 chr3:20012210-20017092 chr3:19992554-20012209 chr3:19992553-19992554 0.00 K intron_retention CUFF.517 chr16 - chr16:70253699-70253814 chr16:70253698-70253699;chr16:70253814-70253815 55.36 K intron_retention CUFF.193 chr11 - chr11:10825598-10825683 chr11:10825597-10825598;chr11:10825683-10825684 19.01 K cassette CUFF.690 chr19 - chr19:33882386-33892626 chr19:33882386-33886995;chr19:33887062-33892626 chr19:33886996-33887061 17.31 K intron_retention CUFF.1121 chr5 - chr5:149786524-149786714 chr5:149786523-149786524;chr5:149786714-149786715 17.95 K cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49349981-49351092 chr12:49349881-49349980 82.05 N jcn_only_AD CUFF.847 chr2 + chr2:228160033-228162389 chr2:228161243-228162389 chr2:228160033-228161242 chr2:228160032-228160033 87.50 N alternative_acceptor CUFF.941 chr3 - chr3:33614847-33617660 chr3:33615989-33617660 chr3:33614847-33615988 chr3:33614846-33614847 2.65 N jcn_only_AA CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20490606-20492425 chr4:20492426-20493383 chr4:20493383-20493384 30.77 K jcn_only_AA CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694886-29695184 chr22:29695185-29695223 chr22:29695223-29695224 46.98 N alternative_donor chr7 - chr7:86594341-86595129 chr7:86594341-86595124 chr7:86595125-86595129 chr7:86595129-86595130 73.67 N alternative_donor CUFF.1183 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 0.00 N jcn_only_AA chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 22.56 N jcn_only_AD CUFF.373 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 11.11 K intron_retention CUFF.593 chr17 + chr17:61908296-61908395 chr17:61908295-61908296;chr17:61908395-61908396 chr17:61908169-61908295;chr17:61908396-61908586 5.19 K alternative_donor CUFF.200 chr11 + chr11:57310815-57311096 chr11:57310848-57311096 chr11:57310815-57310847 chr11:57310814-57310815 46.43 N alternative_donor CUFF.857 chr2 + chr2:242577786-242590424;chr2:242577140-242590424 chr2:242577176-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 1.44 N intron_retention chr19 + chr19:17597767-17597908 chr19:17597766-17597767;chr19:17597908-17597909 66.67 N alternative_first_exon CUFF.191 chr11 - chr11:8502162-8587256;chr11:8502162-8615629 chr11:8502162-8615290 chr11:8587257-8587483;chr11:8615630-8615931 chr11:8615291-8615577 17.39 N intron_retention CUFF.1296 chr8 - chr8:80954904-80962679 chr8:80954903-80954904;chr8:80962679-80962680 72.50 K cassette CUFF.977 chr3 - chr3:120352438-120360435;chr3:120352176-120360435 chr3:120352438-120357301,chr3:120352176-120357301;chr3:120357429-120360435 chr3:120357302-120357428 50.00 K intron_retention CUFF.528 chr17 - chr17:1616199-1617149 chr17:1616198-1616199;chr17:1617149-1617150 44.83 K alternative_first_exon CUFF.932,CUFF.950 chr3 - chr3:25657078-25659908;chr3:25657078-25660144 chr3:25657078-25657271 chr3:25660145-25660340 chr3:25657272-25657457 34.88 N alternative_acceptor CUFF.967 chr3 - chr3:107568819-107572719;chr3:107567966-107572719 chr3:107569199-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 2.44 K alternative_first_exon CUFF.102 chr1 + chr1:222806592-222818895 chr1:222817929-222818895 chr1:222806446-222806591 chr1:222817879-222817928 19.35 N alternative_donor CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 83.19 N alternative_last_exon chr5 + chr5:134181903-134190587 chr5:134181903-134182352 chr5:134190588-134195422 chr5:134182353-134182553 98.33 N jcn_only_AD CUFF.1237,CUFF.1262 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 17.26 N intron_retention chr2 + chr2:242610857-242611605 chr2:242610856-242610857;chr2:242611605-242611606 55.88 N alternative_acceptor CUFF.473,CUFF.511 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 22.22 N cassette CUFF.896 chr21 - chr21:47558561-47562022;chr21:47558561-47565330 chr21:47558561-47558793;chr21:47558838-47565330,chr21:47558838-47562022 chr21:47558794-47558837 84.47 K alternative_first_exon CUFF.241 chr11 - chr11:119230945-119234558;chr11:119230945-119252182 chr11:119230945-119243416 chr11:119234559-119234915;chr11:119252183-119252421 chr11:119243417-119243478 8.89 N alternative_acceptor CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925127-153925280 chr1:153925112-153925126 chr1:153925111-153925112 87.83 N coord_cassette CUFF.299 chr12 + chr12:69218432-69233053 chr12:69218432-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 71.88 K alternative_last_exon CUFF.1320 chr8 + chr8:143922642-143995378 chr8:143922642-143927810 chr8:143995379-143995461 chr8:143927811-143928261 89.71 N alternative_donor CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 0.36 K jcn_only_AA CUFF.95,ENSG00000137960.5 chr1 + chr1:207277776-207286345 chr1:207277776-207286243 chr1:207286244-207286345 chr1:207286345-207286346 43.00 N jcn_only_AA chr15 + chr15:29131425-29213842;chr15:29131425-29139019 chr15:29131425-29140665 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 17.65 N cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47189397 chr22:47188417-47188473 90.73 K alternative_first_exon CUFF.1279 chr8 - chr8:30657272-30669835;chr8:30657272-30671402 chr8:30657272-30667505 chr8:30671403-30671835 chr8:30667506-30667840 35.29 K alternative_first_exon CUFF.272 chr12 - chr12:25702481-25705804,chr12:25702481-25706002,chr12:25702481-25710172,chr12:25702481-25801427;chr12:25702481-25783528 chr12:25702481-25706098 chr12:25783529-25783770 chr12:25706099-25706204 8.65 N jcn_only_AD chr22 - chr22:21846384-21868418;chr22:21846384-21871613 chr22:21846384-21868422 28.95 N alternative_donor CUFF.1121,CUFF.1125 chr5 - chr5:149782189-149784242;chr5:149782189-149785821 chr5:149782189-149782683 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 7.84 K jcn_only_AD CUFF.930 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 46.67 K intron_retention CUFF.241 chr11 - chr11:119229845-119229940 chr11:119229844-119229845;chr11:119229940-119229941 36.14 K cassette CUFF.1040 chr4 - chr4:77102255-77116859 chr4:77102255-77105809;chr4:77105934-77116859 chr4:77105810-77105933 36.73 K intron_retention CUFF.680 chr19 + chr19:17447537-17447628 chr19:17447536-17447537;chr19:17447628-17447629 78.31 N intron_retention chr19 + chr19:17447967-17448682 chr19:17447966-17447967;chr19:17448682-17448683 66.28 N jcn_only_AD chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 48.19 K coord_cassette CUFF.165 chr10 + chr10:124157491-124172435 chr10:124157491-124159858;chr10:124159905-124166091;chr10:124166190-124172435 chr10:124159859-124159904;chr10:124166092-124166189 41.40 N jcn_only_AA chr12 - chr12:22610096-22612425;chr12:22611490-22612425 chr12:22611520-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 35.14 N jcn_only_AD CUFF.127 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 33.96 N jcn_only_AD CUFF.350 chr14 + chr14:61448962-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448410-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 11.50 K cassette CUFF.890 chr21 + chr21:40178045-40181958 chr21:40178045-40178374;chr21:40178733-40181958 chr21:40178375-40178732 78.26 N mutually_exclusive CUFF.824 chr2 - chr2:175711686-175779785,chr2:175779900-175816891 chr2:175711686-175742567,chr2:175742857-175816891 chr2:175779786-175779899 chr2:175742568-175742856 37.29 K jcn_only_AD CUFF.957 chr3 + chr3:68055888-68466429 chr3:68300062-68466429 87.12 K intron_retention CUFF.846 chr2 + chr2:220098156-220098436 chr2:220098155-220098156;chr2:220098436-220098437 5.20 N cassette CUFF.756 chr2 + chr2:33540337-33572433 chr2:33540337-33567904;chr2:33568031-33572433 chr2:33567905-33568030 77.39 K alternative_donor CUFF.29 chr1 + chr1:31769923-31782890 chr1:31769944-31782890 chr1:31769923-31769943 chr1:31769922-31769923 18.18 K cassette CUFF.634 chr18 - chr18:57106811-57115214 chr18:57106811-57106908;chr18:57107049-57115214 chr18:57106909-57107048 4.55 N alternative_donor CUFF.911 chr22 + chr22:29664339-29668204 chr22:29665652-29668204 chr22:29664339-29665651 chr22:29664338-29664339 0.58 N alternative_donor CUFF.437 chr15 + chr15:77750839-77756581 chr15:77750901-77756581 chr15:77750839-77750900 chr15:77750838-77750839 12.00 K intron_retention chr19 + chr19:1438892-1440017 chr19:1438891-1438892;chr19:1440017-1440018 7.16 K jcn_only_AD CUFF.500,CUFF.509 chr16 - chr16:30005130-30005968 chr16:30005130-30005226 chr16:30005227-30005968 chr16:30005968-30005969 34.48 K intron_retention CUFF.419 chr15 + chr15:64445884-64446133 chr15:64445883-64445884;chr15:64446133-64446134 28.28 N alternative_donor CUFF.382 chr15 + chr15:24793618-24811235 chr15:24803469-24811235 chr15:24793618-24803468 chr15:24793617-24793618 14.29 K alternative_first_exon CUFF.1208 chr7 - chr7:36934623-37024519;chr7:36934623-37052903 chr7:36934623-37025527 chr7:37052904-37053040 chr7:37025528-37025826 84.82 N jcn_only_AD CUFF.14 chr1 + chr1:15753781-15755088 chr1:15754506-15755088 chr1:15753781-15754505 chr1:15753780-15753781 22.22 K alternative_last_exon CUFF.52,CUFF.76 chr1 + chr1:160151822-160156065 chr1:160151822-160152481 chr1:160156066-160156157 chr1:160152482-160152603 28.12 N jcn_only_AA CUFF.452 chr15 - chr15:90378746-90380846 chr15:90378876-90380846 chr15:90378746-90378875 chr15:90378745-90378746 97.41 K alternative_first_exon CUFF.104 chr1 + chr1:224371534-224377278;chr1:224363650-224377278 chr1:224371121-224377278 chr1:224363458-224363649 chr1:224371022-224371120 7.87 K alternative_acceptor CUFF.1146 chr6 + chr6:32122961-32123544 chr6:32122961-32123464 chr6:32123465-32123544 chr6:32123544-32123545 85.88 N cassette CUFF.399 chr15 - chr15:44859791-44864880 chr15:44859791-44862722;chr15:44862857-44864880 chr15:44862723-44862856 40.44 K jcn_only_AA CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203224-2203319 chr16:2203320-2203578 chr16:2203578-2203579 93.57 K intron_retention CUFF.1072 chr5 - chr5:2746901-2747654 chr5:2746900-2746901;chr5:2747654-2747655 56.41 N jcn_only_AA CUFF.1201 chr7 - chr7:19153547-19156293 chr7:19155755-19156293 chr7:19153547-19155754 chr7:19153546-19153547 5.43 N jcn_only_AA chr2 - chr2:61761039-61765626 chr2:61764723-61765626 chr2:61761039-61764722 chr2:61761038-61761039 13.04 N alternative_acceptor CUFF.631 chr18 + chr18:55713021-55833023 chr18:55713021-55833019 chr18:55833020-55833023 chr18:55833023-55833024 8.04 N intron_retention chr19 + chr19:17448474-17448682 chr19:17448473-17448474;chr19:17448682-17448683 61.11 K coord_cassette CUFF.269 chr12 + chr12:21229504-21294447 chr12:21229504-21279051;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279052-21279191;chr12:21284057-21284170 82.19 N jcn_only_AD CUFF.883 chr21 + chr21:15646479-15659870 chr21:15651979-15659870 chr21:15646479-15651978 chr21:15646478-15646479 93.62 N alternative_donor CUFF.794 chr2 + chr2:101549464-101554214 chr2:101550623-101554214 chr2:101549464-101550622 chr2:101549463-101549464 12.63 N cassette CUFF.518 chr16 + chr16:70390151-70398445 chr16:70390151-70395320;chr16:70395414-70398445 chr16:70395321-70395413 78.79 N jcn_only_AD CUFF.883 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 11.76 N jcn_only_AA chr14 - chr14:104261001-104263707;chr14:104251252-104263707 chr14:104245159-104263707 10.20 N coord_cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136831;chr20:30136918-30137009;chr20:30137136-30137866 chr20:30136832-30136917;chr20:30137010-30137135 89.52 K jcn_only_AA CUFF.733 chr19 - chr19:56321705-56343328 chr19:56329603-56343328 19.44 K intron_retention CUFF.1282 chr8 - chr8:56668971-56685827 chr8:56668970-56668971;chr8:56685827-56685828 70.11 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447732;chr2:242447551-242447919 chr2:242447551-242447857 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 25.11 K alternative_first_exon CUFF.667 chr19 + chr19:11041001-11044036 chr19:11042937-11044036 chr19:11039690-11041000 chr19:11042709-11042936 26.15 K cassette CUFF.1302 chr8 + chr8:92086140-92090583 chr8:92086140-92088819;chr8:92088960-92090583 chr8:92088820-92088959 86.84 K intron_retention chr17 + chr17:80441656-80442688 chr17:80441655-80441656;chr17:80442688-80442689 29.25 K intron_retention CUFF.1037 chr4 - chr4:69054335-69056965 chr4:69054334-69054335;chr4:69056965-69056966 92.92 N jcn_only_AA CUFF.152 chr10 - chr10:80810175-80825503 chr10:80814486-80825503 chr10:80810175-80814485 chr10:80810174-80810175 88.57 N alternative_donor CUFF.1018 chr4 - chr4:83821377-83821524 chr4:83821377-83821486 chr4:83821487-83821524 chr4:83821524-83821525 42.24 N cassette CUFF.343 chr14 - chr14:52486897-52495439 chr14:52486897-52493918;chr14:52494063-52495439 chr14:52493919-52494062 14.29 K alternative_first_exon CUFF.756 chr2 + chr2:33505226-33518226 chr2:33516855-33518226 chr2:33505106-33505225 chr2:33516688-33516854 46.77 K cassette CUFF.1032 chr4 + chr4:37841882-37847253 chr4:37841882-37845984;chr4:37846175-37847253 chr4:37845985-37846174 87.39 N alternative_donor CUFF.1110 chr5 + chr5:137514540-137515348;chr5:137515023-137515348 chr5:137514892-137515348 chr5:137514540-137514891;chr5:137514892-137515022 chr5:137514539-137514540;chr5:137514891-137514892 7.11 N alternative_donor CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 93.46 N intron_retention chr15 + chr15:40545216-40545378 chr15:40545215-40545216;chr15:40545378-40545379 68.42 N cassette CUFF.340 chr14 + chr14:39954462-39982820 chr14:39954462-39961458;chr14:39961761-39982820 chr14:39961459-39961760 24.19 N alternative_donor CUFF.32 chr1 - chr1:33631168-33646625 chr1:33631168-33642008 chr1:33642009-33646625 chr1:33646625-33646626 1.79 N alternative_donor CUFF.148,CUFF.168 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 1.53 N alternative_first_exon chr17 - chr17:15492542-15499827 chr17:15492542-15496650 chr17:15499828-15499987 chr17:15496651-15496809 86.59 K alternative_last_exon CUFF.44 chr1 - chr1:85718386-85724206 chr1:85723155-85724206 chr1:85715639-85718385 chr1:85723120-85723154 23.68 N coord_cassette CUFF.1226 chr7 + chr7:75040010-75044162 chr7:75040010-75040937;chr7:75041043-75042066;chr7:75042211-75044162 chr7:75040938-75041042;chr7:75042067-75042210 30.16 K cassette CUFF.1016 chr4 - chr4:3945100-3949816 chr4:3945100-3948870;chr4:3949735-3949816 chr4:3948871-3949734 42.06 K intron_retention CUFF.715 chr19 + chr19:50306634-50308709 chr19:50306633-50306634;chr19:50308709-50308710 22.39 N alternative_donor CUFF.401 chr15 - chr15:45464517-45467416 chr15:45464517-45465773 chr15:45465774-45467416 chr15:45467416-45467417 22.40 N cassette CUFF.991 chr3 - chr3:141712428-141724282;chr3:141697525-141747420;chr3:141697525-141724282 chr3:141697525-141713861,chr3:141712428-141713861;chr3:141713984-141724282,chr3:141713984-141747420 chr3:141713862-141713983 54.33 N coord_cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11598406;chr2:11598478-11605897 chr2:11597305-11597359;chr2:11598407-11598477 57.72 N jcn_only_AD CUFF.964 chr3 + chr3:97652352-97652537;chr3:97643256-97652537 chr3:97634581-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 5.71 N jcn_only_AD chr9 - chr9:15214248-15224337;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15225914 26.88 N cassette CUFF.991 chr3 - chr3:141724387-141820576 chr3:141724387-141811902;chr3:141811970-141820576 chr3:141811903-141811969 91.12 N alternative_acceptor chr15 + chr15:24811948-24813043;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24814929 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 65.38 N cassette CUFF.923 chr22 + chr22:47158746-47188416 chr22:47158746-47185208;chr22:47185369-47188416 chr22:47185209-47185368 16.07 K cassette CUFF.1037 chr4 - chr4:69071816-69083623 chr4:69071816-69078079;chr4:69078196-69083623 chr4:69078080-69078195 71.84 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115689-3115784;chr16:3115657-3115784 chr16:3115496-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 13.00 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 76.83 N jcn_only_AA CUFF.5 chr1 + chr1:2101044-2103493 chr1:2101044-2102991 chr1:2102992-2103493 chr1:2103493-2103494 24.21 K cassette CUFF.1067 chr4 + chr4:186267805-186274638 chr4:186267805-186272598;chr4:186272764-186274638 chr4:186272599-186272763 59.09 N alternative_acceptor CUFF.925 chr22 - chr22:51012145-51012763 chr22:51012351-51012763 chr22:51012145-51012350 chr22:51012144-51012145 17.50 K intron_retention CUFF.327 chr13 - chr13:78492760-78493531 chr13:78492759-78492760;chr13:78493531-78493532 75.00 K intron_retention CUFF.911 chr22 + chr22:29695322-29695588 chr22:29695321-29695322;chr22:29695588-29695589 15.00 N intron_retention chr15 - chr15:84869629-84871621 chr15:84869628-84869629;chr15:84871621-84871622 60.00 K alternative_donor CUFF.497,CUFF.517 chr16 - chr16:70254784-70255156 chr16:70254784-70255152 chr16:70255153-70255156 chr16:70255156-70255157 68.47 N jcn_only_AA CUFF.528 chr17 - chr17:1616220-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1615694-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 11.05 N intron_retention chr22 - chr22:30741057-30742372 chr22:30741056-30741057;chr22:30742372-30742373 89.52 K alternative_last_exon CUFF.808 chr2 - chr2:166732743-166737188 chr2:166736478-166737188 chr2:166732675-166732742 chr2:166736150-166736477 29.49 K intron_retention chr11 + chr11:3405515-3418346 chr11:3405514-3405515;chr11:3418346-3418347 chr11:3405397-3405514;chr11:3418347-3419322 23.75 N jcn_only_AD chr2 + chr2:48898820-49003418;chr2:48996261-49003418 chr2:48996214-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 27.50 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15224337;chr9:15214248-15225914;chr9:15214248-15224357 chr9:15214248-15249915 3.23 N jcn_only_AD CUFF.478 chr16 - chr16:4411471-4411985 chr16:4411471-4411749 chr16:4411750-4411985 chr16:4411985-4411986 18.69 K alternative_acceptor CUFF.328 chr13 - chr13:97640030-97642011 chr13:97640088-97642011 chr13:97640030-97640087 chr13:97640029-97640030 78.16 K intron_retention CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184862-106184863;chrX:106185205-106185206 28.57 K jcn_only_AD CUFF.458 chr15 + chr15:97326820-97327382;chr15:97326975-97327382 chr15:97327061-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 25.49 N alternative_first_exon CUFF.700 chr19 - chr19:41944320-41946385;chr19:41944320-41945786 chr19:41944320-41945378 chr19:41946386-41946714;chr19:41945787-41945815 chr19:41945379-41945489 14.69 K alternative_first_exon CUFF.1016,CUFF.1039 chr4 - chr4:3954901-3957050 chr4:3954901-3956686 chr4:3957051-3957218 chr4:3956687-3956789 39.55 K jcn_only_AA CUFF.248 chr11 - chr11:133710705-133711924 chr11:133710819-133711924 chr11:133710705-133710818 chr11:133710704-133710705 37.84 K intron_retention CUFF.786 chr2 - chr2:86398505-86400772 chr2:86398504-86398505;chr2:86400772-86400773 65.00 K coord_cassette CUFF.911 chr22 + chr22:29683124-29688125 chr22:29683124-29684594;chr22:29684776-29687550;chr22:29687589-29688125 chr22:29684595-29684775;chr22:29687551-29687588 90.77 K alternative_last_exon CUFF.388 chr15 + chr15:30771397-30776704 chr15:30771397-30772944 chr15:30776705-30776892 chr15:30772945-30773274 60.98 K intron_retention CUFF.950 chr3 - chr3:46964854-46965096 chr3:46964853-46964854;chr3:46965096-46965097 22.71 N jcn_only_AD chr6 + chr6:112375365-112375537 chr6:112375374-112375537 11.76 N cassette CUFF.553 chr17 + chr17:25958331-25967597 chr17:25958331-25965288;chr17:25965381-25967597 chr17:25965289-25965380 61.38 K alternative_acceptor CUFF.705,CUFF.729 chr19 + chr19:44768529-44770350 chr19:44768529-44770307 chr19:44770308-44770350 chr19:44770350-44770351 8.57 K cassette CUFF.406 chr15 - chr15:55485032-55488550 chr15:55485032-55486493;chr15:55486558-55488550 chr15:55486494-55486557 36.60 K cassette CUFF.1383 chrX - chrX:15339895-15343141 chrX:15339895-15342786;chrX:15342994-15343141 chrX:15342787-15342993 96.59 N alternative_donor chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 89.06 K intron_retention CUFF.953 chr3 - chr3:49462580-49462799 chr3:49462579-49462580;chr3:49462799-49462800 87.14 K jcn_only_AA CUFF.860 chr20 + chr20:2842351-2843710 chr20:2842351-2842450 69.05 N alternative_acceptor CUFF.1198 chr7 + chr7:7222452-7273933 chr7:7222452-7249057 chr7:7249058-7273933 chr7:7273933-7273934 0.00 N jcn_only_AA chr7 - chr7:156476858-156516805 chr7:156480886-156516805 82.33 N alternative_acceptor chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122880727-122928045 chr3:122928045-122928046 8.33 N alternative_acceptor CUFF.897 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 0.68 N cassette CUFF.207 chr11 + chr11:63672516-63676348;chr11:63673587-63676348 chr11:63672516-63675731,chr11:63673587-63675731;chr11:63675777-63676348 chr11:63675732-63675776 chr11:63672258-63672515;chr11:63676349-63678492 78.97 N jcn_only_AA CUFF.142 chr10 - chr10:73973036-73975964;chr10:73973090-73975964;chr10:73975868-73975964;chr10:73973110-73975964 chr10:73975613-73975964 27.47 K cassette CUFF.1223 chr7 + chr7:73275597-73279322 chr7:73275597-73275798;chr7:73275922-73279322 chr7:73275799-73275921 72.86 K intron_retention chr17 + chr17:35378314-35388910 chr17:35378313-35378314;chr17:35388910-35388911 93.47 N alternative_acceptor CUFF.668 chr19 + chr19:17611686-17615263 chr19:17611686-17612081 chr19:17612082-17615263 chr19:17615263-17615264 9.09 K alternative_first_exon CUFF.780 chr2 - chr2:73285726-73297588;chr2:73285726-73298168;chr2:73285726-73298732;chr2:73285726-73286222,chr2:73285726-73286136 chr2:73285726-73302708 chr2:73298169-73298261;chr2:73298733-73298955;chr2:73286223-73286301 chr2:73302709-73302841 23.25 N cassette CUFF.883 chr21 + chr21:15695909-15709500 chr21:15695909-15708400;chr21:15708579-15709500 chr21:15708401-15708578 71.43 K intron_retention CUFF.705 chr19 + chr19:44764092-44768466 chr19:44764091-44764092;chr19:44768466-44768467 56.41 N jcn_only_AA CUFF.528 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 12.17 N alternative_first_exon CUFF.1146 chr6 + chr6:32122555-32123544 chr6:32122961-32123544 chr6:32122364-32122554 chr6:32122784-32122960 47.62 N jcn_only_AA chr12 + chr12:53853188-53854114;chr12:53853188-53853583 chr12:53853188-53854798 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 97.27 N alternative_donor CUFF.883 chr21 + chr21:15680941-15685264 chr21:15681420-15685264 chr21:15680941-15681419 chr21:15680940-15680941 0.00 N jcn_only_AD chr11 - chr11:2190926-2192926 chr11:2190926-2192914 chr11:2192915-2192926 chr11:2192926-2192927 80.00 N jcn_only_AD CUFF.794 chr2 + chr2:101565943-101580519 chr2:101579296-101580519 chr2:101565943-101579295 chr2:101565942-101565943 8.97 N alternative_donor CUFF.862,CUFF.878 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 7.14 K alternative_first_exon CUFF.1115 chr5 + chr5:140027748-140028055,chr5:140027593-140028055;chr5:140026895-140028055 chr5:140027510-140028055 chr5:140026643-140026894 chr5:140027286-140027509 54.13 N alternative_donor CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178549-16186856 chr19:16178773-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 16.81 N jcn_only_AA CUFF.1256 chr7 + chr7:65579958-65610429 chr7:65579958-65592690 66.67 K intron_retention CUFF.940 chr3 - chr3:33434107-33434803 chr3:33434106-33434107;chr3:33434803-33434804 2.60 K intron_retention CUFF.857 chr2 + chr2:242591390-242592926 chr2:242591389-242591390;chr2:242592926-242592927 7.91 K cassette CUFF.1353 chr9 + chr9:116795009-116798579 chr9:116795009-116797470;chr9:116797516-116798579 chr9:116797471-116797515 33.33 N alternative_donor CUFF.354 chr14 - chr14:60030578-60031764 chr14:60030578-60031075 chr14:60031076-60031764 chr14:60031764-60031765 73.68 N cassette CUFF.1425 chrX + chrX:153607927-153608301 chrX:153607927-153608049;chrX:153608155-153608301 chrX:153608050-153608154 95.81 N intron_retention chr7 + chr7:75040010-75040937 chr7:75040009-75040010;chr7:75040937-75040938 14.81 N jcn_only_AA CUFF.967 chr3 - chr3:107568819-107572719;chr3:107569199-107572719 chr3:107567966-107572719 chr3:107567966-107568818;chr3:107568819-107569198 chr3:107567965-107567966;chr3:107568818-107568819 55.38 N jcn_only_AD chr11 - chr11:6632684-6633294 chr11:6632684-6632894 75.76 N intron_retention chr3 - chr3:124951499-124953143 chr3:124951498-124951499;chr3:124953143-124953144 64.94 N alternative_acceptor CUFF.1025 chr4 - chr4:36059766-36075310 chr4:36069901-36075310 chr4:36059766-36069900 chr4:36059765-36059766 26.67 N jcn_only_AD CUFF.840 chr2 - chr2:175816931-175869933 chr2:175816931-175869621 chr2:175869622-175869933 chr2:175869933-175869934 99.32 N intron_retention chr11 + chr11:3427946-3428851 chr11:3427945-3427946;chr11:3428851-3428852 50.00 K intron_retention CUFF.1149 chr6 + chr6:32825172-32825781 chr6:32825171-32825172;chr6:32825781-32825782 4.63 N cassette CUFF.1100 chr5 - chr5:127396937-127418661;chr5:127396937-127418426 chr5:127396937-127398065;chr5:127398193-127418661,chr5:127398193-127418426 chr5:127398066-127398192 8.97 K cassette CUFF.350 chr14 + chr14:61451522-61482621 chr14:61451522-61453769;chr14:61453876-61482621 chr14:61453770-61453875 27.59 N jcn_only_AD CUFF.5 chr1 + chr1:2076024-2077465;chr1:2076951-2077465 chr1:2075781-2077465 chr1:2075781-2076023;chr1:2076024-2076950 chr1:2075780-2075781;chr1:2076023-2076024 66.04 N intron_retention chr17 + chr17:61905284-61905478 chr17:61905283-61905284;chr17:61905478-61905479 32.76 N alternative_acceptor chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 49.22 K cassette CUFF.224 chr11 + chr11:94707233-94730187 chr11:94707233-94708817;chr11:94708913-94730187 chr11:94708818-94708912 7.55 K alternative_donor CUFF.796 chr2 + chr2:109065737-109066088 chr2:109065746-109066088 chr2:109065737-109065745 chr2:109065736-109065737 15.49 K intron_retention CUFF.743 chr2 + chr2:3481567-3482616 chr2:3481566-3481567;chr2:3482616-3482617 13.18 N jcn_only_AA chr17 + chr17:25965381-25967668 chr17:25965381-25967597 chr17:25967598-25967668 chr17:25967668-25967669 53.85 N cassette CUFF.500 chr16 - chr16:30005130-30006423 chr16:30005130-30005226;chr16:30006165-30006423 chr16:30005227-30006164 37.86 N alternative_donor CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 35.29 K intron_retention CUFF.1281 chr8 - chr8:38005846-38006158 chr8:38005845-38005846;chr8:38006158-38006159 26.67 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121775;chr6:32122182-32122363 chr6:32121776-32122181 81.74 N mutually_exclusive CUFF.183 chr11 - chr11:5686913-5688918,chr11:5688942-5699433 chr11:5686913-5687210,chr11:5687312-5699433 chr11:5688919-5688941 chr11:5687211-5687311 87.27 N cassette CUFF.460 chr15 - chr15:102197240-102201914 chr15:102197240-102197987;chr15:102198061-102201914 chr15:102197988-102198060 40.00 N intron_retention chr7 - chr7:127251903-127251998 chr7:127251902-127251903;chr7:127251998-127251999 35.00 K jcn_only_AA CUFF.1353,CUFF.1374 chr9 + chr9:116779065-116791189 chr9:116779065-116791012 chr9:116791013-116791189 chr9:116791189-116791190 29.33 N alternative_acceptor CUFF.792 chr2 + chr2:99232997-99234630 chr2:99232997-99234608 chr2:99234609-99234630 chr2:99234630-99234631 9.48 N jcn_only_AD CUFF.631 chr18 + chr18:55895121-55912658;chr18:55895140-55912658 chr18:55865102-55912658 chr18:55865102-55895120;chr18:55895121-55895139 chr18:55865101-55865102;chr18:55895120-55895121 0.48 N alternative_donor CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891111-74893389 chr8:74891407-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 20.97 N coord_cassette CUFF.299 chr12 + chr12:69203073-69233053 chr12:69203073-69218142;chr12:69218211-69218334;chr12:69218432-69233053 chr12:69218143-69218210;chr12:69218335-69218431 30.77 N cassette CUFF.736 chr2 - chr2:260703-263210;chr2:253116-263210 chr2:260703-262630,chr2:253116-262630;chr2:262751-263210 chr2:262631-262750 57.71 N jcn_only_AA chr4 - chr4:152080505-152095821;chr4:152086849-152095821 chr4:152091944-152095821 27.27 N jcn_only_AD chr17 + chr17:29664899-29667522 chr17:29665824-29667522 71.53 K alternative_first_exon CUFF.690 chr19 - chr19:33968997-33977808;chr19:33968997-33978155 chr19:33968997-33980901 chr19:33977809-33977904;chr19:33978156-33978244 chr19:33980902-33980963 93.81 N alternative_donor CUFF.428 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 8.26 K intron_retention CUFF.725 chr19 + chr19:52076655-52084643 chr19:52076654-52076655;chr19:52084643-52084644 29.53 N jcn_only_AA CUFF.270 chr12 - chr12:22666325-22676359;chr12:22672174-22676359 chr12:22671072-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 18.53 K alternative_donor CUFF.647 chr18 + chr18:77875468-77890985 chr18:77875534-77890985 chr18:77875468-77875533 chr18:77875467-77875468 30.69 N alternative_donor CUFF.382 chr15 + chr15:24813330-24814929;chr15:24813711-24814929 chr15:24811948-24814929 chr15:24811948-24813329;chr15:24813330-24813710 chr15:24811947-24811948;chr15:24813329-24813330 89.47 K intron_retention CUFF.142 chr10 - chr10:73975868-73975964 chr10:73975867-73975868;chr10:73975964-73975965 26.97 K alternative_last_exon CUFF.835 chr2 - chr2:204306137-204309590;chr2:204306804-204309590 chr2:204259813-204309590 chr2:204306092-204306136;chr2:204306192-204306803 chr2:204259068-204259812 10.84 K intron_retention CUFF.1117 chr5 - chr5:141041357-141041609 chr5:141041356-141041357;chr5:141041609-141041610 3.06 K cassette CUFF.626 chr18 - chr18:44471018-44483489 chr18:44471018-44473393;chr18:44473495-44483489 chr18:44473394-44473494 34.53 N jcn_only_AA CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 8.33 N jcn_only_AA CUFF.463 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 44.95 K coord_cassette CUFF.814 chr2 + chr2:169668163-169684667 chr2:169668163-169674681;chr2:169674807-169681143;chr2:169681228-169684667 chr2:169674682-169674806;chr2:169681144-169681227 91.30 K mutually_exclusive CUFF.1330 chr9 + chr9:34989829-34990664,chr9:34990810-34993196 chr9:34989829-34990344,chr9:34990609-34993196 chr9:34990665-34990809 chr9:34990345-34990608 35.91 N intron_retention chr11 + chr11:118402549-118403062 chr11:118402548-118402549;chr11:118403062-118403063 81.81 N jcn_only_AD CUFF.933,CUFF.958 chr3 - chr3:71777775-71803794;chr3:71777775-71802613;chr3:71777775-71803365 chr3:71777775-71778224 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 9.64 K alternative_last_exon CUFF.796 chr2 + chr2:109089356-109091990 chr2:109089356-109091244 chr2:109091991-109092091 chr2:109091245-109091853 99.29 K cassette CUFF.171 chr11 - chr11:406539-407061 chr11:406539-406842;chr11:406994-407061 chr11:406843-406993 45.43 K intron_retention CUFF.763 chr2 - chr2:46839484-46842075 chr2:46839483-46839484;chr2:46842075-46842076 11.36 N cassette CUFF.825 chr2 - chr2:177042223-177053146 chr2:177042223-177043756;chr2:177043827-177053146 chr2:177043757-177043826 80.26 N cassette CUFF.1206 chr7 + chr7:34724297-34851381;chr7:34724297-34867012 chr7:34724297-34818073;chr7:34818178-34851381,chr7:34818178-34867012 chr7:34818074-34818177 62.67 N alternative_donor CUFF.1208 chr7 - chr7:37256301-37262219 chr7:37256301-37257316 chr7:37257317-37262219 chr7:37262219-37262220 0.00 N jcn_only_AD CUFF.1313 chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 7.35 N intron_retention chrX + chrX:103358265-103359942 chrX:103358264-103358265;chrX:103359942-103359943 30.77 N cassette CUFF.1362 chr9 - chr9:130948056-130952607;chr9:130948056-130952966 chr9:130948056-130950141;chr9:130950214-130952607,chr9:130950214-130952966 chr9:130950142-130950213 75.56 N jcn_only_AA CUFF.872 chr20 - chr20:31097744-31099149;chr20:31074605-31099149 chr20:31062546-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 53.25 K intron_retention CUFF.337 chr14 + chr14:24568930-24569203 chr14:24568929-24568930;chr14:24569203-24569204 10.81 K cassette CUFF.942 chr3 - chr3:33686396-33700998 chr3:33686396-33700465;chr3:33700502-33700998 chr3:33700466-33700501 50.00 K alternative_first_exon CUFF.158 chr10 + chr10:101492318-101496002;chr10:101482868-101496002 chr10:101492167-101496002 chr10:101482675-101482867 chr10:101491950-101492166 76.69 N coord_cassette CUFF.626 chr18 - chr18:44483597-44500021 chr18:44483597-44484064;chr18:44484170-44486189;chr18:44486279-44500021 chr18:44484065-44484169;chr18:44486190-44486278 33.01 K intron_retention CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215755-107215756;chr7:107216853-107216854 81.08 K jcn_only_AD CUFF.705 chr19 + chr19:44764362-44768466;chr19:44764092-44768466 chr19:44764156-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 43.27 N mutually_exclusive CUFF.171 chr11 - chr11:407958-408694,chr11:408894-409867 chr11:407958-408072,chr11:408207-409867 chr11:408695-408893 chr11:408073-408206 53.45 K intron_retention CUFF.291 chr12 - chr12:56558153-56558431 chr12:56558152-56558153;chr12:56558431-56558432 chr12:56558087-56558152;chr12:56558432-56558515 27.03 K cassette CUFF.574 chr17 - chr17:41719401-41738433 chr17:41719401-41720855;chr17:41721029-41738433 chr17:41720856-41721028 27.78 N jcn_only_AA CUFF.967 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 11.27 K cassette CUFF.923 chr22 + chr22:47158746-47188416 chr22:47158746-47184876;chr22:47184935-47188416 chr22:47184877-47184934 22.53 N alternative_donor CUFF.399 chr15 - chr15:44881613-44884528 chr15:44881613-44882618 chr15:44882619-44884528 chr15:44884528-44884529 23.38 N coord_cassette CUFF.923 chr22 + chr22:47158746-47189397 chr22:47158746-47188416;chr22:47188474-47188564;chr22:47188660-47189397 chr22:47188417-47188473;chr22:47188565-47188659 89.78 K alternative_first_exon CUFF.1045 chr4 + chr4:81105210-81112625 chr4:81106673-81112625 chr4:81105033-81105209 chr4:81106455-81106672 47.50 K alternative_first_exon CUFF.826 chr2 - chr2:177497854-177502189 chr2:177497854-177498092 chr2:177502190-177502659 chr2:177498093-177498367 42.31 N cassette CUFF.558 chr17 + chr17:29706042-29708890 chr17:29706042-29706123;chr17:29706376-29708890 chr17:29706124-29706375 55.83 K alternative_first_exon CUFF.867 chr20 + chr20:21284112-21306916 chr20:21284486-21306916 chr20:21283857-21284111 chr20:21284367-21284485 84.85 K alternative_first_exon CUFF.1363 chr9 + chr9:131002276-131004510 chr9:131003327-131004510 chr9:131002264-131002275 chr9:131003225-131003326 12.75 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15720904;chrX:15711182-15713793 chrX:15711182-15715362 chrX:15720905-15721844;chrX:15713794-15713856 chrX:15715363-15715874 63.85 N jcn_only_AD CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988944-2989761 chr6:2988266-2988943 chr6:2988265-2988266 55.17 N alternative_acceptor CUFF.269 chr12 + chr12:21220318-21229385 chr12:21220318-21228193 chr12:21228194-21229385 chr12:21229385-21229386 5.94 N alternative_acceptor CUFF.736 chr2 - chr2:242872-243502;chr2:242177-243502 chr2:234273-243502 chr2:234273-242176;chr2:242177-242871 chr2:234272-234273;chr2:242176-242177 77.19 N alternative_acceptor CUFF.243 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 10.00 K cassette CUFF.814 chr2 + chr2:169668163-169681143 chr2:169668163-169674681;chr2:169674807-169681143 chr2:169674682-169674806 85.17 K intron_retention CUFF.247 chr11 - chr11:124757396-124757628 chr11:124757395-124757396;chr11:124757628-124757629 34.38 N jcn_only_AD chr6 - chr6:133050119-133055391 chr6:133050119-133052513 chr6:133052514-133055391 chr6:133055391-133055392 22.88 N alternative_donor CUFF.676 chr19 + chr19:16199931-16204345 chr19:16203943-16204345 chr19:16199931-16203942 chr19:16199930-16199931 0.49 N jcn_only_AD chr14 - chr14:59946070-59950397;chr14:59946070-59950207 chr14:59946070-59950526 16.00 K alternative_donor CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 40.74 K intron_retention CUFF.928 chr3 + chr3:8787560-8787655 chr3:8787559-8787560;chr3:8787655-8787656 56.41 N jcn_only_AD CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144981412-144999541 chr6:144898425-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 7.32 N jcn_only_AD CUFF.1292 chr8 + chr8:74891097-74893389;chr8:74891407-74893389 chr8:74891111-74893389 chr8:74891097-74891110;chr8:74891111-74891406 chr8:74891096-74891097;chr8:74891110-74891111 70.64 N jcn_only_AD CUFF.728 chr19 + chr19:52901154-52901619;chr19:52901158-52901619 chr19:52901274-52901619 chr19:52901154-52901157;chr19:52901158-52901273 chr19:52901153-52901154;chr19:52901157-52901158 11.11 N alternative_donor CUFF.1230,CUFF.1243 chr7 - chr7:107576102-107577537 chr7:107576102-107576723 chr7:107576724-107577537 chr7:107577537-107577538 1.25 N alternative_acceptor CUFF.4 chr1 + chr1:1656203-1667255 chr1:1656203-1661684 chr1:1661685-1667255 chr1:1667255-1667256 41.67 N jcn_only_AD CUFF.954 chr3 + chr3:51741184-51742863 chr3:51741671-51742863 chr3:51741184-51741670 chr3:51741183-51741184 10.29 K intron_retention CUFF.1356 chr9 - chr9:123550465-123555426 chr9:123550464-123550465;chr9:123555426-123555427 63.38 N jcn_only_AD chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 87.14 N alternative_donor CUFF.71 chr1 - chr1:156453223-156470277 chr1:156453223-156469223 chr1:156469224-156470277 chr1:156470277-156470278 0.73 K alternative_first_exon CUFF.116 chr10 + chr10:6186977-6255585;chr10:6188460-6255585 chr10:6245300-6255585 chr10:6186814-6186976;chr10:6188258-6188459 chr10:6244810-6245299 90.38 N alternative_acceptor CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161455482-161469277 chr6:161469278-161469647 chr6:161469647-161469648 27.78 N alternative_donor CUFF.995 chr3 - chr3:156266793-156271443 chr3:156266793-156269186 chr3:156269187-156271443 chr3:156271443-156271444 0.60 K mutually_exclusive CUFF.513 chr16 + chr16:67233660-67234094,chr16:67234265-67234353 chr16:67233660-67233853,chr16:67233905-67234353 chr16:67234095-67234264 chr16:67233854-67233904 48.28 K jcn_only_AA CUFF.715 chr19 + chr19:50308834-50308981 chr19:50308834-50308917 chr19:50308918-50308981 chr19:50308981-50308982 81.25 N jcn_only_AD CUFF.1378 chrX - chrX:9130946-9131117;chrX:9130946-9132333 chrX:9130946-9132573 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 18.60 K intron_retention CUFF.199 chr11 - chr11:57001333-57003265 chr11:57001332-57001333;chr11:57003265-57003266 14.81 N alternative_acceptor CUFF.996 chr3 - chr3:165504100-165547304 chr3:165545858-165547304 chr3:165504100-165545857 chr3:165504099-165504100 0.00 K alternative_acceptor CUFF.127 chr10 + chr10:35495980-35500583 chr10:35495980-35500181 chr10:35500182-35500583 chr10:35500583-35500584 60.02 N jcn_only_AD CUFF.969 chr3 - chr3:124996654-125042231 chr3:124996654-124997967 chr3:124997968-125042231 chr3:125042231-125042232 62.07 K alternative_first_exon CUFF.658 chr19 - chr19:6216525-6217964 chr19:6216525-6216746 chr19:6217965-6218052 chr19:6216747-6217008 91.13 N jcn_only_AA chr3 + chr3:122880303-122928045 chr3:122880303-122880726 chr3:122880727-122928045 chr3:122928045-122928046 89.62 K alternative_first_exon CUFF.630 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47340051,chr18:47329224-47339838;chr18:47329224-47339094 chr18:47329224-47337765 chr18:47340052-47340330;chr18:47339095-47339377 chr18:47337766-47337801 6.37 N jcn_only_AA CUFF.753 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 5.79 N alternative_donor chr14 + chr14:61518854-61545547 chr14:61540660-61545547 chr14:61518854-61540659 chr14:61518853-61518854 25.00 N alternative_acceptor chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 17.65 N jcn_only_AA CUFF.723 chr19 - chr19:51525921-51526347 chr19:51525954-51526347 chr19:51525921-51525953 chr19:51525920-51525921 93.79 N jcn_only_AA CUFF.600 chr17 - chr17:79220041-79220684 chr17:79220474-79220684 chr17:79220041-79220473 chr17:79220040-79220041 94.85 N alternative_acceptor CUFF.198,CUFF.204 chr11 + chr11:61584169-61605249 chr11:61584169-61588852 chr11:61588853-61605249 chr11:61605249-61605250 0.00 K cassette CUFF.341 chr14 + chr14:50065922-50069087 chr14:50065922-50068259;chr14:50068368-50069087 chr14:50068260-50068367 83.78 N alternative_acceptor CUFF.743,CUFF.851 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 0.81 N jcn_only_AD CUFF.1104 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 87.50 N jcn_only_AA CUFF.650,CUFF.705 chr19 + chr19:4304759-4306020;chr19:4304759-4305981 chr19:4304759-4305942 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 85.99 K alternative_first_exon CUFF.838 chr2 + chr2:207630472-207631367,chr2:207630243-207631367;chr2:207630379-207631367 chr2:207630487-207631367 chr2:207630081-207630378 chr2:207630477-207630486 19.61 N alternative_acceptor CUFF.1391 chrX - chrX:46382561-46387784;chrX:46384874-46387784 chrX:46360768-46387784 chrX:46360768-46382560;chrX:46382561-46384873 chrX:46360767-46360768;chrX:46382560-46382561 57.14 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990664;chr9:34990810-34993196 chr9:34990665-34990809 86.50 K intron_retention CUFF.593 chr17 + chr17:61904875-61905497 chr17:61904874-61904875;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 31.52 K jcn_only_AD CUFF.870 chr20 + chr20:30132839-30136831 chr20:30136597-30136831 5.82 N alternative_acceptor chr1 + chr1:2005369-2066700 chr1:2005369-2029785 chr1:2029786-2066700 chr1:2066700-2066701 33.33 K cassette CUFF.994 chr3 - chr3:155485459-155520320 chr3:155485459-155493489;chr3:155493638-155520320 chr3:155493490-155493637 67.38 N jcn_only_AA CUFF.1157 chr6 - chr6:43483929-43484464;chr6:43483834-43484464;chr6:43483852-43484464;chr6:43483926-43484464 chr6:43483785-43484464 chr6:43483785-43483833;chr6:43483834-43483851;chr6:43483852-43483925;chr6:43483926-43483928 chr6:43483784-43483785;chr6:43483833-43483834;chr6:43483851-43483852;chr6:43483925-43483926 6.36 K cassette CUFF.1332 chr9 + chr9:35400441-35403163 chr9:35400441-35401947;chr9:35402005-35403163 chr9:35401948-35402004 92.86 K intron_retention CUFF.35 chr1 - chr1:53904722-53905099 chr1:53904721-53904722;chr1:53905099-53905100 25.35 K jcn_only_AA CUFF.1389 chrX + chrX:45184847-45192754 chrX:45184847-45192518 chrX:45192519-45192754 chrX:45192754-45192755 18.60 N jcn_only_AA chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478 chr17:61904875-61905497 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 35.00 N alternative_donor CUFF.5 chr1 + chr1:2101044-2103493 chr1:2103085-2103493 chr1:2101044-2103084 chr1:2101043-2101044 2.70 K alternative_first_exon CUFF.1418 chrX + chrX:134193765-134254454 chrX:134250853-134254454 chrX:134193715-134193764 chrX:134250790-134250852 42.11 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349477;chr12:49349544-49349880;chr12:49349981-49351092 chr12:49349478-49349543;chr12:49349881-49349980 67.44 K intron_retention CUFF.1385 chrX - chrX:19931598-19932269 chrX:19931597-19931598;chrX:19932269-19932270 8.87 N alternative_donor CUFF.133 chr10 - chr10:46135412-46143741 chr10:46135412-46135688 chr10:46135689-46143741 chr10:46143741-46143742 chr10:46135264-46135411;chr10:46143742-46143982 0.00 K alternative_donor CUFF.983 chr3 - chr3:125741776-125745235 chr3:125741776-125745177 chr3:125745178-125745235 chr3:125745235-125745236 85.19 N alternative_acceptor CUFF.269,CUFF.287 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 0.51 N alternative_donor CUFF.1043,CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152100550-152102840 chr4:152102841-152108574 chr4:152108574-152108575 0.00 N alternative_donor CUFF.1362 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 11.83 N jcn_only_AD chr17 - chr17:79894738-79895137;chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895055 11.30 N jcn_only_AA CUFF.512 chr16 - chr16:67223084-67223533 chr16:67223099-67223533 chr16:67223084-67223098 chr16:67223083-67223084 3.18 K jcn_only_AA CUFF.1204 chr7 + chr7:30791921-30793349 chr7:30791921-30793346 chr7:30793347-30793349 chr7:30793349-30793350 92.40 N jcn_only_AA CUFF.399 chr15 - chr15:44878049-44881449 chr15:44880837-44881449 chr15:44878049-44880836 chr15:44878048-44878049 37.61 K alternative_donor CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 66.12 K alternative_first_exon CUFF.273 chr12 + chr12:26205536-26208211;chr12:26148064-26208211 chr12:26205930-26208211 chr12:26147970-26148063 chr12:26205724-26205929 35.05 N intron_retention chr16 - chr16:23478152-23478309 chr16:23478151-23478152;chr16:23478309-23478310 35.29 N alternative_acceptor CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 66.67 K alternative_first_exon CUFF.1144 chr6 - chr6:31938925-31939705 chr6:31938925-31939096 chr6:31939706-31939872 chr6:31939097-31939462 74.45 N jcn_only_AA CUFF.902 chr22 + chr22:20749709-20754921 chr22:20749709-20753884 chr22:20753885-20754921 chr22:20754921-20754922 chr22:20749623-20749708;chr22:20754922-20755048 22.00 N jcn_only_AA CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 86.11 K intron_retention chr14 - chr14:59941245-59941445 chr14:59941244-59941245;chr14:59941445-59941446 23.81 K intron_retention CUFF.81 chr1 + chr1:166819661-166821821 chr1:166819660-166819661;chr1:166821821-166821822 6.82 N alternative_donor CUFF.964 chr3 + chr3:97652352-97652537;chr3:97643256-97652537 chr3:97634581-97652537 chr3:97634581-97643255;chr3:97643256-97652351 chr3:97634580-97634581;chr3:97643255-97643256 66.67 K alternative_acceptor CUFF.817 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 58.33 N jcn_only_AA CUFF.650 chr19 + chr19:4304759-4305981;chr19:4304759-4305942 chr19:4304759-4306020 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 9.34 N jcn_only_AD CUFF.896 chr21 - chr21:47558838-47565330 chr21:47558838-47562022 chr21:47562023-47565330 chr21:47565330-47565331 25.37 N coord_cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107585498;chr3:107585601-107586157;chr3:107586425-107591814 chr3:107585499-107585600;chr3:107586158-107586424 15.71 K jcn_only_AD CUFF.972 chr3 + chr3:119205780-119207775 chr3:119205884-119207775 chr3:119205780-119205883 chr3:119205779-119205780 76.09 N intron_retention CUFF.956 chr3 - chr3:57582951-57583058 chr3:57582950-57582951;chr3:57583058-57583059 89.31 K alternative_first_exon CUFF.630,CUFF.642 chr18 - chr18:47329224-47340101,chr18:47329224-47340186;chr18:47329224-47337765;chr18:47329224-47339094 chr18:47329224-47340051,chr18:47329224-47339838 chr18:47337766-47337801;chr18:47339095-47339377 chr18:47340052-47340330 54.14 K jcn_only_AA CUFF.1125 chr5 - chr5:178043950-178045556 chr5:178044436-178045556 chr5:178043950-178044435 chr5:178043949-178043950 86.28 K alternative_last_exon CUFF.221 chr11 - chr11:75520420-75522468;chr11:75514771-75522468 chr11:75514563-75522468 chr11:75520322-75520419;chr11:75514580-75514770 chr11:75514472-75514562 37.70 K intron_retention chr11 + chr11:118401950-118402492 chr11:118401949-118401950;chr11:118402492-118402493 26.04 K cassette CUFF.1038 chr4 - chr4:70460968-70464963 chr4:70460968-70461967;chr4:70462100-70464963 chr4:70461968-70462099 23.58 N alternative_donor CUFF.127 chr10 + chr10:35416122-35426709 chr10:35416496-35426709 chr10:35416122-35416495 chr10:35416121-35416122 26.32 N jcn_only_AD chr3 - chr3:27394411-27405177;chr3:27394411-27410715;chr3:27394411-27410521 chr3:27394411-27409013 40.38 N jcn_only_AA CUFF.183 chr11 - chr11:5685404-5686885 chr11:5686626-5686885 chr11:5685404-5686625 chr11:5685403-5685404 55.36 N alternative_donor CUFF.537 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 1.32 N cassette CUFF.856 chr2 - chr2:242439697-242447420 chr2:242439697-242440154;chr2:242440212-242447420 chr2:242440155-242440211 93.81 N alternative_acceptor CUFF.1249 chr7 - chr7:127251040-127251588 chr7:127251261-127251588 chr7:127251040-127251260 chr7:127251039-127251040 72.07 N alternative_donor chr2 + chr2:48898820-49003418;chr2:48996214-49003418 chr2:48996261-49003418 chr2:48898820-48996213;chr2:48996214-48996260 chr2:48898819-48898820;chr2:48996213-48996214 0.00 N cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49349880;chr12:49350134-49350767 chr12:49349881-49350133 49.52 K intron_retention CUFF.940 chr3 - chr3:33481418-33481825 chr3:33481417-33481418;chr3:33481825-33481826 10.53 N jcn_only_AD CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 42.65 N jcn_only_AD CUFF.237 chr11 - chr11:118926880-118926990;chr11:118926880-118927730;chr11:118926880-118927737;chr11:118926880-118927515;chr11:118926880-118927711 chr11:118926880-118927863 chr11:118926991-118927515;chr11:118927516-118927711;chr11:118927712-118927730;chr11:118927731-118927737;chr11:118927738-118927863 chr11:118927515-118927516;chr11:118927711-118927712;chr11:118927730-118927731;chr11:118927737-118927738;chr11:118927863-118927864 19.51 N alternative_acceptor CUFF.30 chr1 + chr1:32560573-32566042 chr1:32560573-32561260 chr1:32561261-32566042 chr1:32566042-32566043 0.26 N cassette CUFF.956 chr3 - chr3:57563115-57570110 chr3:57563115-57569624;chr3:57569788-57570110 chr3:57569625-57569787 80.39 N alternative_acceptor CUFF.352 chr14 - chr14:69542129-69558390 chr14:69557874-69558390 chr14:69542129-69557873 chr14:69542128-69542129 2.04 K cassette CUFF.941 chr3 - chr3:33617768-33623312 chr3:33617768-33618693;chr3:33618757-33623312 chr3:33618694-33618756 54.29 N alternative_donor CUFF.473 chr16 + chr16:3115712-3115784;chr16:3115496-3115784;chr16:3115657-3115784 chr16:3115689-3115784 chr16:3115496-3115656;chr16:3115657-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115656-3115657;chr16:3115688-3115689 chr16:3115785-3115827;chr16:3115230-3115495 37.37 K alternative_first_exon CUFF.1292 chr8 + chr8:74884857-74888064 chr8:74885229-74888064 chr8:74884606-74884856 chr8:74884974-74885228 30.56 K intron_retention CUFF.1362 chr9 - chr9:130929160-130929373 chr9:130929159-130929160;chr9:130929373-130929374 8.75 K alternative_acceptor CUFF.273 chr12 + chr12:26148064-26208211 chr12:26148064-26208168 chr12:26208169-26208211 chr12:26208211-26208212 66.40 N alternative_donor CUFF.933,CUFF.996 chr3 - chr3:165491295-165503932 chr3:165491295-165495504 chr3:165495505-165503932 chr3:165503932-165503933 2.59 N alternative_donor CUFF.981 chr3 - chr3:125050083-125076579;chr3:125050083-125075820;chr3:125050083-125093945 chr3:125050083-125057665 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 0.00 N intron_retention chr9 - chr9:130948014-130953002 chr9:130948013-130948014;chr9:130953002-130953003 87.88 N jcn_only_AD CUFF.1367 chr9 + chr9:133320586-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133325721-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 26.32 N intron_retention CUFF.303 chr12 - chr12:77254194-77256589 chr12:77254193-77254194;chr12:77256589-77256590 13.64 K cassette CUFF.1316 chr8 - chr8:120756634-120758944 chr8:120756634-120757120;chr8:120757277-120758944 chr8:120757121-120757276 74.19 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 34.21 N alternative_acceptor CUFF.84,CUFF.88 chr1 + chr1:171123354-171130296 chr1:171123354-171130202 chr1:171130203-171130296 chr1:171130296-171130297 2.74 N jcn_only_AD CUFF.1213 chr7 - chr7:38869929-38902144 chr7:38869929-38870815 chr7:38870816-38902144 chr7:38902144-38902145 8.88 N jcn_only_AA CUFF.31 chr1 - chr1:32827137-32827330 chr1:32827166-32827330 chr1:32827137-32827165 chr1:32827136-32827137 8.99 K alternative_last_exon CUFF.1078 chr5 + chr5:40980012-40981493 chr5:40980012-40980088 chr5:40981494-40983041 chr5:40980089-40980452 81.70 K cassette CUFF.345 chr14 + chr14:58899176-58907938 chr14:58899176-58899829;chr14:58900063-58907938 chr14:58899830-58900062 66.67 K intron_retention CUFF.530 chr17 + chr17:1944916-1945061 chr17:1944915-1944916;chr17:1945061-1945062 18.15 N jcn_only_AD CUFF.1356 chr9 - chr9:15211396-15267911 chr9:15211396-15214136 94.51 K intron_retention CUFF.1013 chr4 - chr4:2933664-2933771 chr4:2933663-2933664;chr4:2933771-2933772 9.13 K intron_retention CUFF.208 chr11 + chr11:63999437-63999901 chr11:63999436-63999437;chr11:63999901-63999902 chr11:63999343-63999436 19.96 K intron_retention CUFF.672 chr19 + chr19:12917615-12917821 chr19:12917614-12917615;chr19:12917821-12917822 38.56 K intron_retention CUFF.1325 chr9 + chr9:12192-12292 chr9:12191-12192;chr9:12292-12293 23.08 K jcn_only_AA CUFF.606 chr17 - chr17:79994185-79994259 chr17:79994199-79994259 chr17:79994185-79994198 chr17:79994184-79994185 7.78 N cassette CUFF.903 chr22 + chr22:21057981-21058255 chr22:21057981-21058106;chr22:21058172-21058255 chr22:21058107-21058171 56.38 K alternative_last_exon CUFF.372 chr14 - chr14:103236793-103240977 chr14:103237911-103240977 chr14:103236377-103236792 chr14:103237470-103237910 62.89 K intron_retention chr16 + chr16:70389439-70390014 chr16:70389438-70389439;chr16:70390014-70390015 80.08 K alternative_last_exon CUFF.835 chr2 - chr2:204306137-204309590;chr2:204259813-204309590 chr2:204306804-204309590 chr2:204306092-204306136;chr2:204259068-204259812 chr2:204306192-204306803 78.31 K alternative_first_exon CUFF.1305,CUFF.1319 chr8 - chr8:133851626-133856470 chr8:133851626-133854636 chr8:133856471-133856543 chr8:133854637-133854731 7.41 N alternative_acceptor CUFF.537 chr17 + chr17:6348725-6350782 chr17:6348725-6349414 chr17:6349415-6350782 chr17:6350782-6350783 2.29 N alternative_first_exon chr12 - chr12:25673010-25679702 chr12:25673010-25679032 chr12:25679703-25679889 chr12:25679033-25679152 84.65 N jcn_only_AA CUFF.208 chr11 + chr11:36397709-36440804 chr11:36397709-36398178 64.29 N jcn_only_AD CUFF.178 chr11 + chr11:2798263-2799205 chr11:2799044-2799205 chr11:2798263-2799043 chr11:2798262-2798263 42.06 N coord_cassette CUFF.399 chr15 - chr15:44859791-44864880 chr15:44859791-44861595;chr15:44861704-44862722;chr15:44862857-44864880 chr15:44861596-44861703;chr15:44862723-44862856 24.29 N jcn_only_AA CUFF.108 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 5.19 N jcn_only_AA CUFF.942 chr3 - chr3:33673864-33686248 chr3:33673867-33686248 chr3:33673864-33673866 chr3:33673863-33673864 10.77 K alternative_last_exon CUFF.1331 chr9 - chr9:35077397-35078601 chr9:35078341-35078601 chr9:35077261-35077396 chr9:35078022-35078340 98.04 N alternative_donor CUFF.34 chr1 + chr1:47139892-47152344 chr1:47147937-47152344 chr1:47139892-47147936 chr1:47139891-47139892 0.78 K intron_retention chr17 + chr17:25969375-25970550 chr17:25969374-25969375;chr17:25970550-25970551 1.87 N alternative_acceptor CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 48.33 K intron_retention CUFF.162 chr10 - chr10:119765350-119768592 chr10:119765349-119765350;chr10:119768592-119768593 14.86 K alternative_last_exon CUFF.1063 chr4 - chr4:153128821-153146395 chr4:153143912-153146395 chr4:153128573-153128820 chr4:153143651-153143911 18.49 K cassette CUFF.731 chr19 + chr19:55087577-55098667 chr19:55087577-55088931;chr19:55089191-55098667 chr19:55088932-55089190 23.81 N alternative_first_exon CUFF.983 chr3 - chr3:125787090-125789043,chr3:125787090-125791995,chr3:125787090-125802718,chr3:125787090-125802771;chr3:125787090-125802896;chr3:125787090-125797816;chr3:125787090-125802935 chr3:125787090-125820271 chr3:125802897-125802924;chr3:125797817-125797906;chr3:125802936-125803107 chr3:125820272-125820503 12.67 N jcn_only_AA CUFF.753 chr2 - chr2:27708371-27712481 chr2:27709110-27712481 chr2:27708371-27709109 chr2:27708370-27708371 32.43 N alternative_acceptor CUFF.553 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 0.27 K cassette CUFF.391 chr15 + chr15:40509869-40545378;chr15:40531337-40545378 chr15:40509869-40532799,chr15:40531337-40532799;chr15:40532883-40545378 chr15:40532800-40532882 92.86 N jcn_only_AA CUFF.774 chr2 - chr2:68358578-68361833 chr2:68359138-68361833 chr2:68358578-68359137 chr2:68358577-68358578 62.63 K alternative_first_exon CUFF.1311 chr8 + chr8:106456610-106573590 chr8:106541198-106573590 chr8:106456508-106456609 chr8:106541107-106541197 7.27 N jcn_only_AA CUFF.601 chr17 - chr17:79358833-79358928;chr17:79354385-79358928 chr17:79355741-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 7.63 K cassette CUFF.646 chr18 + chr18:77478017-77496354 chr18:77478017-77488906;chr18:77489070-77496354 chr18:77488907-77489069 chr18:77477810-77478016;chr18:77496355-77496521 49.00 N jcn_only_AA CUFF.522 chr16 + chr16:19710971-19716437 chr16:19710971-19711699 chr16:19711700-19716437 chr16:19716437-19716438 95.39 N alternative_donor CUFF.971 chr3 + chr3:112046542-112048192 chr3:112046554-112048192 chr3:112046542-112046553 chr3:112046541-112046542 7.38 K alternative_last_exon CUFF.1273 chr8 - chr8:23186100-23190913;chr8:23186079-23190913 chr8:23189522-23190913 chr8:23185895-23186078 chr8:23189472-23189521 12.50 K alternative_first_exon CUFF.1332 chr9 + chr9:35162303-35228011 chr9:35227931-35228011 chr9:35161999-35162302 chr9:35227780-35227930 80.77 K jcn_only_AD CUFF.1185 chr6 + chr6:150206810-150240322 chr6:150217376-150240322 64.29 K alternative_last_exon CUFF.269 chr12 + chr12:21229504-21272537;chr12:21229504-21279051,chr12:21229504-21279041 chr12:21229504-21242841 chr12:21279052-21279191 chr12:21242842-21243040 61.90 K intron_retention CUFF.162 chr10 - chr10:119774622-119798482 chr10:119774621-119774622;chr10:119798482-119798483 63.64 N jcn_only_AD CUFF.1183 chr6 + chr6:144904737-144999541;chr6:144898425-144999541 chr6:144981412-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 63.41 N jcn_only_AA CUFF.120,CUFF.127 chr10 + chr10:35477317-35495822 chr10:35477317-35490378 chr10:35490379-35495822 chr10:35495822-35495823 21.59 N intron_retention chr1 + chr1:155180686-155181182 chr1:155180685-155180686;chr1:155181182-155181183 17.86 N alternative_donor CUFF.649 chr19 + chr19:1438892-1440017 chr19:1439826-1440017 chr19:1438892-1439825 chr19:1438891-1438892 11.09 K intron_retention CUFF.840 chr2 - chr2:211081236-211082688 chr2:211081235-211081236;chr2:211082688-211082689 89.58 N jcn_only_AD chr14 - chr14:104263856-104313635;chr14:104263856-104313111;chr14:104263856-104306415 chr14:104263856-104313344 10.00 N jcn_only_AA chr3 - chr3:27405336-27410715;chr3:27394411-27410715 chr3:27409054-27410715 39.74 K intron_retention CUFF.593 chr17 + chr17:61906924-61907211 chr17:61906923-61906924;chr17:61907211-61907212 chr17:61906854-61906923;chr17:61907212-61907309 8.74 K alternative_acceptor CUFF.428,CUFF.437 chr15 + chr15:74758472-74771400 chr15:74758472-74771384 chr15:74771385-74771400 chr15:74771400-74771401 51.35 K alternative_last_exon CUFF.498 chr16 - chr16:25098045-25114671;chr16:25112007-25114671 chr16:25097094-25114671 chr16:25097668-25098044;chr16:25111886-25112006 chr16:25096913-25097093 24.11 K intron_retention chr16 + chr16:3117417-3117554 chr16:3117416-3117417;chr16:3117554-3117555 chr16:3117378-3117416;chr16:3117555-3117886 45.04 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 31.02 N alternative_donor CUFF.916 chr22 + chr22:31688685-31733653 chr22:31731403-31733653 chr22:31688685-31731402 chr22:31688684-31688685 0.00 K intron_retention CUFF.1107 chr5 + chr5:134190853-134193046 chr5:134190852-134190853;chr5:134193046-134193047 63.16 N alternative_donor CUFF.81 chr1 + chr1:166808842-166810191 chr1:166809007-166810191 chr1:166808842-166809006 chr1:166808841-166808842 32.56 K alternative_acceptor CUFF.1268 chr8 - chr8:2452792-2453715 chr8:2452795-2453715 chr8:2452792-2452794 chr8:2452791-2452792 52.50 N cassette CUFF.680 chr19 + chr19:17449551-17449931 chr19:17449551-17449762;chr19:17449836-17449931 chr19:17449763-17449835 93.33 N jcn_only_AA CUFF.817 chr2 - chr2:169783801-169787174 chr2:169783873-169787174 chr2:169783801-169783872 chr2:169783800-169783801 73.08 N cassette CUFF.342 chr14 + chr14:50247041-50249087 chr14:50247041-50247420;chr14:50247494-50249087 chr14:50247421-50247493 81.82 N mutually_exclusive CUFF.270 chr12 - chr12:22643153-22659644,chr12:22659754-22666227 chr12:22643153-22646156,chr12:22646272-22666227 chr12:22659645-22659753 chr12:22646157-22646271 34.38 N cassette CUFF.1039 chr4 - chr4:74447586-74450896 chr4:74447586-74447905;chr4:74448008-74450896 chr4:74447906-74448007 90.62 K jcn_only_AA CUFF.1059 chr4 + chr4:130701255-130724146 chr4:130701255-130710066 72.50 N alternative_donor CUFF.142 chr10 - chr10:73912747-73921295 chr10:73912747-73918703 chr10:73918704-73921295 chr10:73921295-73921296 1.32 N alternative_donor CUFF.431,CUFF.452 chr15 - chr15:90380955-90391824;chr15:90380955-90395592;chr15:90380955-90414706 chr15:90380955-90381260 chr15:90381261-90391824;chr15:90391825-90395592;chr15:90395593-90414706 chr15:90391824-90391825;chr15:90395592-90395593;chr15:90414706-90414707 0.30 K jcn_only_AD CUFF.171 chr11 - chr11:406060-406348 chr11:406060-406141 chr11:406142-406348 chr11:406348-406349 5.81 N jcn_only_AD CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873269-84873351 chr15:84873352-84873538 chr15:84873538-84873539 80.00 K alternative_first_exon CUFF.925 chr22 - chr22:51020787-51039578 chr22:51020787-51020986 chr22:51039579-51039675 chr22:51020987-51021463 83.10 K intron_retention CUFF.950 chr3 - chr3:46965159-46966945 chr3:46965158-46965159;chr3:46966945-46966946 31.03 K alternative_first_exon CUFF.524 chr16 - chr16:87811607-87812592 chr16:87811607-87812413 chr16:87812593-87812980 chr16:87812414-87812586 64.25 N intron_retention chr12 - chr12:69235469-69236633 chr12:69235468-69235469;chr12:69236633-69236634 97.65 N coord_cassette CUFF.188 chr11 - chr11:6622006-6624633 chr11:6622006-6622155;chr11:6622833-6623081;chr11:6623446-6624633 chr11:6622156-6622832;chr11:6623082-6623445 89.06 N alternative_donor chr22 - chr22:51016364-51016512;chr22:51016364-51016814 chr22:51016364-51016977 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 40.00 N jcn_only_AA CUFF.741,CUFF.756 chr2 + chr2:33477912-33482434;chr2:33477912-33482509 chr2:33477912-33482350 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 63.64 K alternative_last_exon CUFF.587 chr17 + chr17:61574347-61584416 chr17:61574347-61574497 chr17:61584417-61584419 chr17:61574498-61574975 97.14 K jcn_only_AA CUFF.1353 chr9 + chr9:116791253-116794927 chr9:116791253-116794924 chr9:116794925-116794927 chr9:116794927-116794928 12.71 N alternative_donor CUFF.385 chr15 + chr15:29131425-29213842;chr15:29211691-29213842 chr15:29140756-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 25.00 K jcn_only_AA CUFF.1202 chr7 - chr7:22233074-22233532 chr7:22233396-22233532 chr7:22233074-22233395 chr7:22233073-22233074 6.94 N cassette CUFF.611 chr18 + chr18:163454-178932;chr18:163454-180235 chr18:163454-166786;chr18:166820-180235,chr18:166820-178932 chr18:166787-166819 81.40 K intron_retention CUFF.239 chr11 + chr11:119056951-119057187 chr11:119056950-119056951;chr11:119057187-119057188 chr11:119056634-119056950;chr11:119057188-119057399 95.16 K jcn_only_AD CUFF.469 chr16 + chr16:2141610-2142889 chr16:2141616-2142889 chr16:2141610-2141615 chr16:2141609-2141610 13.85 N mutually_exclusive CUFF.603 chr17 - chr17:79891253-79892528,chr17:79892622-79892801 chr17:79891253-79892201,chr17:79892366-79892801 chr17:79892529-79892621 chr17:79892202-79892365 23.61 N alternative_acceptor CUFF.1255 chr7 + chr7:148987130-148989301 chr7:148987130-148988646 chr7:148988647-148989301 chr7:148989301-148989302 40.00 K alternative_last_exon CUFF.273 chr12 + chr12:26220647-26231965 chr12:26220647-26221629 chr12:26231966-26232825 chr12:26221630-26222421 41.61 K alternative_first_exon CUFF.715 chr19 + chr19:50305399-50306205 chr19:50305857-50306205 chr19:50305238-50305398 chr19:50305682-50305856 72.97 K alternative_last_exon CUFF.888 chr21 - chr21:39471433-39492400;chr21:39427076-39492400 chr21:39325309-39492400 chr21:39471371-39471432;chr21:39426314-39427075 chr21:39325124-39325308 13.43 K alternative_last_exon CUFF.431 chr15 - chr15:77451039-77471131 chr15:77470366-77471131 chr15:77450845-77451038 chr15:77470159-77470365 90.32 K intron_retention chr8 + chr8:144356973-144358066 chr8:144356972-144356973;chr8:144358066-144358067 6.16 K intron_retention CUFF.940 chr3 - chr3:33438371-33438536 chr3:33438370-33438371;chr3:33438536-33438537 47.67 N jcn_only_AD chr13 - chr13:24460646-24463270 chr13:24460646-24462816 chr13:24462817-24463270 chr13:24463270-24463271 84.78 N intron_retention chr11 - chr11:6632684-6633294 chr11:6632683-6632684;chr11:6633294-6633295 58.97 N alternative_donor CUFF.1024 chr4 + chr4:20490606-20493383 chr4:20492438-20493383 chr4:20490606-20492437 chr4:20490605-20490606 0.00 K intron_retention CUFF.1329 chr9 - chr9:34709425-34709496 chr9:34709424-34709425;chr9:34709496-34709497 10.58 K jcn_only_AA CUFF.753 chr2 - chr2:27703994-27706155 chr2:27704128-27706155 chr2:27703994-27704127 chr2:27703993-27703994 91.11 K alternative_first_exon CUFF.1378 chrX - chrX:9001117-9050619 chrX:9001117-9001892 chrX:9050620-9050776 chrX:9001893-9002202 78.10 K intron_retention CUFF.350 chr14 + chr14:61448101-61449225 chr14:61448100-61448101;chr14:61449225-61449226 8.97 N coord_cassette CUFF.440 chr15 - chr15:78475128-78526712 chr15:78475128-78485847;chr15:78485969-78486273;chr15:78486363-78486847;chr15:78487069-78526712 chr15:78485848-78485968;chr15:78486274-78486362;chr15:78486848-78487068 86.87 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 12.20 N intron_retention chr2 - chr2:61761039-61761692 chr2:61761038-61761039;chr2:61761692-61761693 67.74 N alternative_acceptor chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 21.02 K alternative_first_exon CUFF.1097,CUFF.1125 chr5 - chr5:178045780-178050256 chr5:178045780-178046838 chr5:178050257-178050417 chr5:178046839-178047036 18.53 K jcn_only_AA CUFF.1174 chr6 + chr6:126307769-126314938 chr6:126307769-126314902 chr6:126314903-126314938 chr6:126314938-126314939 76.92 N jcn_only_AD chr17 - chr17:79894738-79895403;chr17:79894738-79895133;chr17:79894738-79895055;chr17:79894738-79895068;chr17:79894738-79894845;chr17:79894738-79895103 chr17:79894738-79895137 40.00 N cassette CUFF.452 chr15 - chr15:90420657-90431752;chr15:90414779-90431752 chr15:90420657-90421496,chr15:90414779-90421496;chr15:90421533-90431752 chr15:90421497-90421532 17.11 N jcn_only_AA CUFF.963 chr3 - chr3:93646252-93692517 chr3:93647642-93692517 chr3:93646252-93647641 chr3:93646251-93646252 91.30 K jcn_only_AA CUFF.1278 chr8 - chr8:29535521-29583671 chr8:29582536-29583671 88.80 N jcn_only_AA CUFF.1024,CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57308027-57312522 chr4:57312523-57312860 chr4:57312860-57312861 35.44 K cassette CUFF.1048 chr4 - chr4:83819216-83821229 chr4:83819216-83820865;chr4:83820891-83821229 chr4:83820866-83820890 62.53 K alternative_last_exon CUFF.888 chr21 - chr21:39471433-39492400;chr21:39325309-39492400 chr21:39427076-39492400 chr21:39471371-39471432;chr21:39325124-39325308 chr21:39426314-39427075 57.46 N jcn_only_AD CUFF.174 chr11 - chr11:558980-559968;chr11:558980-559346 chr11:558980-560682 chr11:559347-559968;chr11:559969-560682 chr11:559968-559969;chr11:560682-560683 22.40 K cassette CUFF.974 chr3 - chr3:119246689-119255983 chr3:119246689-119248688;chr3:119248785-119255983 chr3:119248689-119248784 24.24 N jcn_only_AA CUFF.921 chr22 + chr22:45148508-45182336 chr22:45148508-45173041 chr22:45173042-45182336 chr22:45182336-45182337 13.30 N cassette CUFF.473 chr16 + chr16:3118012-3118990 chr16:3118012-3118180;chr16:3118241-3118990 chr16:3118181-3118240 77.16 N intron_retention chr1 + chr1:245133746-245165422 chr1:245133745-245133746;chr1:245165422-245165423 21.52 N alternative_donor CUFF.1188 chr6 + chr6:161413116-161455290 chr6:161443260-161455290 chr6:161413116-161443259 chr6:161413115-161413116 0.00 K intron_retention CUFF.615 chr18 + chr18:12028151-12028840 chr18:12028150-12028151;chr18:12028840-12028841 13.16 N alternative_donor CUFF.596 chr17 + chr17:66511708-66518896 chr17:66511718-66518896 chr17:66511708-66511717 chr17:66511707-66511708 chr17:66518897-66519067;chr17:66511535-66511707 85.22 N alternative_donor CUFF.367 chr14 - chr14:92105595-92112480;chr14:92105595-92136157 chr14:92105595-92126180 chr14:92112481-92126180;chr14:92126181-92136157 chr14:92126180-92126181;chr14:92136157-92136158 0.00 N alternative_first_exon CUFF.1360 chr9 + chr9:125027218-125033231 chr9:125028060-125033231 chr9:125026882-125027217 chr9:125027961-125028059 72.73 N jcn_only_AD CUFF.862,CUFF.878 chr20 - chr20:14308205-14318049 chr20:14308205-14309779 chr20:14309780-14318049 chr20:14318049-14318050 13.33 K intron_retention CUFF.606 chr17 - chr17:79994199-79994259 chr17:79994198-79994199;chr17:79994259-79994260 75.00 N jcn_only_AA CUFF.152 chr10 - chr10:80722644-80808530 chr10:80804270-80808530 chr10:80722644-80804269 chr10:80722643-80722644 16.33 N cassette CUFF.354 chr14 - chr14:71201216-71204961 chr14:71201216-71202677;chr14:71202747-71204961 chr14:71202678-71202746 36.67 N alternative_donor CUFF.806 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 14.92 N jcn_only_AA CUFF.5 chr1 + chr1:1991031-2066700 chr1:1991031-2002737 chr1:2002738-2066700 chr1:2066700-2066701 17.99 K alternative_first_exon CUFF.999 chr3 + chr3:178866008-178916537 chr3:178867505-178916537 chr3:178865902-178866007 chr3:178867426-178867504 33.33 N cassette CUFF.593 chr17 + chr17:61905570-61907211 chr17:61905570-61906853;chr17:61906924-61907211 chr17:61906854-61906923 chr17:61905498-61905569;chr17:61907212-61907309 95.38 K intron_retention chr4 - chr4:83821377-83821486 chr4:83821376-83821377;chr4:83821486-83821487 8.66 N alternative_acceptor CUFF.754 chr2 + chr2:1168870-1215567 chr2:1168870-1204788 chr2:1204789-1215567 chr2:1215567-1215568 4.84 N cassette CUFF.337 chr14 + chr14:24572100-24572718 chr14:24572100-24572368;chr14:24572465-24572718 chr14:24572369-24572464 89.90 K intron_retention CUFF.90 chr1 - chr1:174128129-174128301 chr1:174128128-174128129;chr1:174128301-174128302 73.68 K intron_retention CUFF.676 chr19 + chr19:16212601-16213657 chr19:16212600-16212601;chr19:16213657-16213658 24.24 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207989067 chr2:207953306-207988699 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 10.16 N alternative_acceptor CUFF.904 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 2.79 K coord_cassette CUFF.133 chr10 - chr10:46113709-46143741 chr10:46113709-46120030;chr10:46120086-46121398;chr10:46122554-46135263;chr10:46135412-46143741 chr10:46120031-46120085;chr10:46121399-46122553;chr10:46135264-46135411 chr10:46113588-46113708;chr10:46143742-46143982 60.71 N jcn_only_AA CUFF.42 chr1 + chr1:70820892-70832009 chr1:70820892-70831828 chr1:70831829-70832009 chr1:70832009-70832010 27.50 K alternative_first_exon CUFF.676 chr19 + chr19:16186983-16197232 chr19:16192857-16197232 chr19:16186857-16186982 chr19:16192528-16192856 76.14 K intron_retention chr17 - chr17:56082403-56082774 chr17:56082402-56082403;chr17:56082774-56082775 30.28 N alternative_donor chr4 - chr4:6380300-6382767 chr4:6380300-6382723 chr4:6382724-6382767 chr4:6382767-6382768 35.79 K jcn_only_AA CUFF.736 chr2 - chr2:262751-263210 chr2:262787-263210 chr2:262751-262786 chr2:262750-262751 85.87 N jcn_only_AD CUFF.925 chr22 - chr22:51020292-51020677 chr22:51020292-51020457 chr22:51020458-51020677 chr22:51020677-51020678 14.12 K alternative_first_exon CUFF.580,CUFF.601 chr17 - chr17:47304121-47307938 chr17:47304121-47307829 chr17:47307939-47308195 chr17:47307830-47307890 45.86 N alternative_acceptor CUFF.896 chr21 - chr21:47571895-47572820 chr21:47571920-47572820 chr21:47571895-47571919 chr21:47571894-47571895 2.83 K alternative_acceptor CUFF.1010 chr4 + chr4:1126229-1126514 chr4:1126229-1126496 chr4:1126497-1126514 chr4:1126514-1126515 10.96 N jcn_only_AD chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 75.70 N alternative_donor CUFF.1381 chrX - chrX:13801641-13803740 chrX:13801641-13801897 chrX:13801898-13803740 chrX:13803740-13803741 0.48 N jcn_only_AA CUFF.932 chr3 - chr3:25657078-25660144 chr3:25660001-25660144 chr3:25657078-25660000 chr3:25657077-25657078 32.14 K intron_retention CUFF.1144 chr6 - chr6:31938256-31938382 chr6:31938255-31938256;chr6:31938382-31938383 11.29 K alternative_donor CUFF.930 chr3 + chr3:19989014-19992297 chr3:19989356-19992297 chr3:19989014-19989355 chr3:19989013-19989014 51.52 N coord_cassette CUFF.1033 chr4 - chr4:56471517-56475286 chr4:56471517-56473464;chr4:56473516-56473603;chr4:56473634-56475286 chr4:56473465-56473515;chr4:56473604-56473633 72.02 N alternative_acceptor CUFF.981 chr3 - chr3:125032501-125042152 chr3:125033898-125042152 chr3:125032501-125033897 chr3:125032500-125032501 1.01 N alternative_donor CUFF.30 chr1 + chr1:32541856-32542363 chr1:32542248-32542363 chr1:32541856-32542247 chr1:32541855-32541856 28.57 N jcn_only_AA CUFF.198 chr11 + chr11:36424929-36453402 chr11:36424929-36440804 chr11:36440805-36453402 chr11:36453402-36453403 21.84 K jcn_only_AA CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 87.58 K intron_retention CUFF.1144 chr6 - chr6:31938530-31938688 chr6:31938529-31938530;chr6:31938688-31938689 25.63 N jcn_only_AD CUFF.1232 chr7 + chr7:91670213-91671981 chr7:91671501-91671981 0.83 K intron_retention CUFF.1013 chr4 - chr4:2933193-2933551 chr4:2933192-2933193;chr4:2933551-2933552 30.91 N alternative_donor CUFF.369 chr14 + chr14:92915561-92920243;chr14:92918991-92920243 chr14:92915504-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 10.34 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208031480;chr2:208030431-208031717 chr2:208030431-208030636 chr2:208031481-208031566;chr2:208031718-208032063 chr2:208030637-208030715 19.70 K intron_retention CUFF.607 chr17 + chr17:80442807-80446096 chr17:80442806-80442807;chr17:80446096-80446097 67.65 N jcn_only_AA chr17 + chr17:29592358-29652837 chr17:29592358-29626527 41.18 N alternative_first_exon CUFF.175 chr11 + chr11:827712-828259;chr11:826267-828259 chr11:827319-828259,chr11:827460-828259 chr11:826144-826266 chr11:827206-827318 46.15 K alternative_first_exon CUFF.1079 chr5 + chr5:44809666-44811110 chr5:44810095-44811110 chr5:44809027-44809665 chr5:44809865-44810094 65.10 K alternative_donor CUFF.650 chr19 + chr19:4323144-4323344;chr19:4323211-4323344 chr19:4323235-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 74.01 N cassette CUFF.662 chr19 - chr19:8140075-8145886 chr19:8140075-8140166;chr19:8140296-8145886 chr19:8140167-8140295 68.33 K alternative_first_exon CUFF.21 chr1 - chr1:26212361-26227981 chr1:26212361-26219004 chr1:26227982-26228173 chr1:26219005-26219098 33.33 N alternative_acceptor CUFF.756 chr2 + chr2:33477912-33482509;chr2:33477912-33482350 chr2:33477912-33482434 chr2:33482351-33482434;chr2:33482435-33482509 chr2:33482434-33482435;chr2:33482509-33482510 22.50 N jcn_only_AD CUFF.369 chr14 + chr14:92915504-92920243;chr14:92915561-92920243 chr14:92918991-92920243 chr14:92915504-92915560;chr14:92915561-92918990 chr14:92915503-92915504;chr14:92915560-92915561 11.11 N cassette CUFF.255 chr12 + chr12:4653078-4655474;chr12:4653071-4655474;chr12:4653071-4654947 chr12:4653071-4654384,chr12:4653078-4654384;chr12:4654479-4655474,chr12:4654479-4654947 chr12:4654385-4654478 10.37 K intron_retention CUFF.239 chr11 + chr11:119058854-119059063 chr11:119058853-119058854;chr11:119059063-119059064 chr11:119058649-119058853;chr11:119059064-119059260 21.43 N jcn_only_AD CUFF.956 chr3 - chr3:57582951-57583365 chr3:57582951-57583058 chr3:57583059-57583365 chr3:57583365-57583366 70.45 K alternative_last_exon CUFF.430 chr15 - chr15:75772256-75782548 chr15:75780119-75782548 chr15:75772189-75772255 chr15:75779625-75780118 99.26 K intron_retention CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207249-10207250;chr19:10213243-10213244 75.00 K cassette CUFF.404 chr15 - chr15:47652295-47687757 chr15:47652295-47672653;chr15:47672793-47687757 chr15:47672654-47672792 19.82 K jcn_only_AA CUFF.1364 chr9 - chr9:131483810-131483929;chr9:131483782-131483929 chr9:131483760-131483929 chr9:131483760-131483781;chr9:131483782-131483809 chr9:131483759-131483760;chr9:131483781-131483782 26.54 K alternative_last_exon CUFF.1132 chr6 - chr6:5216972-5260880;chr6:5240957-5260880 chr6:5109726-5260880 chr6:5216851-5216971;chr6:5240759-5240956 chr6:5102827-5109725 4.84 K jcn_only_AA CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 13.57 N alternative_donor CUFF.753 chr2 - chr2:27693963-27695116 chr2:27693963-27694099 chr2:27694100-27695116 chr2:27695116-27695117 66.13 N intron_retention chr16 - chr16:4466602-4466785 chr16:4466601-4466602;chr16:4466785-4466786 88.83 K alternative_first_exon CUFF.90 chr1 - chr1:174124836-174129054 chr1:174124836-174128024 chr1:174129055-174129139 chr1:174128025-174128309 80.41 K alternative_acceptor CUFF.392,CUFF.402 chr15 + chr15:40752096-40754113 chr15:40752096-40754110 chr15:40754111-40754113 chr15:40754113-40754114 75.00 N alternative_acceptor CUFF.408 chr15 - chr15:55783455-55789909 chr15:55787401-55789909 chr15:55783455-55787400 chr15:55783454-55783455 0.00 N jcn_only_AA chr3 - chr3:27394411-27410715;chr3:27409054-27410715 chr3:27405336-27410715 15.38 K intron_retention chr16 + chr16:3115496-3115784 chr16:3115495-3115496;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 68.79 N alternative_donor CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941267 chr9:130941184-130941351 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 24.32 N alternative_donor CUFF.1219 chr7 + chr7:65579902-65592690;chr7:65591631-65592690 chr7:65579958-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 45.88 K jcn_only_AD CUFF.255 chr12 + chr12:4662256-4668022;chr12:4665717-4668022 chr12:4665669-4668022 10.53 K alternative_first_exon CUFF.227,CUFF.241 chr11 - chr11:119230945-119243416;chr11:119230945-119234558 chr11:119230945-119252182 chr11:119243417-119243478;chr11:119234559-119234915 chr11:119252183-119252421 8.89 N cassette CUFF.29 chr1 + chr1:31769923-31791955 chr1:31769923-31782890;chr1:31783012-31791955 chr1:31782891-31783011 82.54 N alternative_donor CUFF.530 chr17 + chr17:1945170-1945898 chr17:1945526-1945898 chr17:1945170-1945525 chr17:1945169-1945170 22.94 N alternative_acceptor CUFF.1216 chr7 + chr7:129015768-129019481 chr7:129015768-129019478 chr7:129019479-129019481 chr7:129019481-129019482 73.21 N cassette CUFF.122 chr10 - chr10:27048168-27054146 chr10:27048168-27052808;chr10:27052890-27054146 chr10:27052809-27052889 50.00 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649277 chr19:54648069-54649333 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 23.68 N alternative_acceptor CUFF.367 chr14 - chr14:92105595-92136157 chr14:92126326-92136157 chr14:92105595-92126325 chr14:92105594-92105595 0.00 N cassette CUFF.728 chr19 + chr19:52909897-52918191;chr19:52909897-52918376 chr19:52909897-52917456;chr19:52917622-52918191,chr19:52917622-52918376 chr19:52917457-52917621 28.21 N alternative_first_exon chrX - chrX:85219058-85302487 chrX:85219058-85233770 chrX:85302488-85302625 chrX:85233771-85233895 13.33 N jcn_only_AA CUFF.452 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 85.50 N jcn_only_AA CUFF.157 chr10 + chr10:35485028-35495822 chr10:35485028-35490378 chr10:35490379-35495822 chr10:35495822-35495823 2.19 N jcn_only_AA CUFF.148 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 87.24 K alternative_first_exon CUFF.216 chr11 + chr11:67818400-67820446 chr11:67819909-67820446 chr11:67818207-67818399 chr11:67819543-67819908 69.93 N coord_cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44473393;chr18:44473495-44483489;chr18:44483597-44500021 chr18:44473394-44473494;chr18:44483490-44483596 90.22 N alternative_acceptor CUFF.1236 chr7 - chr7:100818093-100823322 chr7:100822418-100823322 chr7:100818093-100822417 chr7:100818092-100818093 0.00 N jcn_only_AD CUFF.249 chr12 - chr12:335681-336730 chr12:335681-335818 chr12:335819-336730 chr12:336730-336731 48.78 N jcn_only_AD chr14 + chr14:23392414-23395669 chr14:23393651-23395669 50.70 K cassette CUFF.8 chr1 + chr1:10490626-10493898 chr1:10490626-10490932;chr1:10491459-10493898 chr1:10490933-10491458 46.67 K alternative_acceptor CUFF.953 chr3 - chr3:49462487-49462799 chr3:49462580-49462799 chr3:49462487-49462579 chr3:49462486-49462487 16.67 K intron_retention CUFF.1249 chr7 - chr7:127255150-127255454 chr7:127255149-127255150;chr7:127255454-127255455 71.81 N jcn_only_AA CUFF.1078,CUFF.1083 chr5 + chr5:40936588-40937653 chr5:40936588-40937339 chr5:40937340-40937653 chr5:40937653-40937654 13.25 N cassette CUFF.1272 chr8 - chr8:22011553-22012072 chr8:22011553-22011654;chr8:22011727-22012072 chr8:22011655-22011726 93.55 N cassette CUFF.921 chr22 + chr22:45244941-45258154 chr22:45244941-45255610;chr22:45255715-45258154 chr22:45255611-45255714 92.24 N alternative_acceptor CUFF.463 chr16 + chr16:583999-596816;chr16:583999-586028 chr16:583999-597558 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 51.58 K cassette CUFF.736 chr2 - chr2:231192-234159 chr2:231192-233100;chr2:233230-234159 chr2:233101-233229 83.55 K cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106143252;chr1:106143382-106146784 chr1:106143253-106143381 52.49 K intron_retention CUFF.249 chr12 - chr12:347177-369016 chr12:347176-347177;chr12:369016-369017 50.82 K cassette CUFF.1146 chr6 + chr6:32130400-32133914 chr6:32130400-32132355;chr6:32132435-32133914 chr6:32132356-32132434 47.78 N jcn_only_AA chr11 + chr11:36398255-36400930;chr11:36398255-36415395 chr11:36398255-36422546 chr11:36400931-36415395;chr11:36415396-36422546 chr11:36415395-36415396;chr11:36422546-36422547 10.57 N intron_retention chr5 - chr5:149781568-149785821 chr5:149781567-149781568;chr5:149785821-149785822 66.29 K jcn_only_AD CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 6.17 K alternative_first_exon CUFF.1053 chr4 - chr4:120116724-120133681 chr4:120116724-120116865 chr4:120133682-120133826 chr4:120116866-120116996 85.71 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6176455-6199486 chr19:6148341-6199486 47.92 N mutually_exclusive CUFF.473 chr16 + chr16:3117417-3117984,chr16:3118012-3118180 chr16:3117417-3117554,chr16:3117615-3118180 chr16:3117985-3118011 chr16:3117555-3117614 chr16:3117378-3117416 31.06 N intron_retention chr2 - chr2:676239-677288 chr2:676238-676239;chr2:677288-677289 82.61 N alternative_donor CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 4.78 N cassette CUFF.1250 chr7 + chr7:128848693-128850203 chr7:128848693-128849129;chr7:128849239-128850203 chr7:128849130-128849238 21.43 N alternative_acceptor CUFF.108 chr1 + chr1:245222761-245245384 chr1:245222761-245238875 chr1:245238876-245245384 chr1:245245384-245245385 0.00 N alternative_acceptor CUFF.1170 chr6 + chr6:112604395-112627530 chr6:112604395-112604499 chr6:112604500-112627530 chr6:112627530-112627531 chr6:112604378-112604394;chr6:112627531-112627885 3.33 N jcn_only_AA CUFF.1285 chr8 + chr8:144349655-144356873 chr8:144349655-144351529 62.67 K cassette CUFF.712 chr19 - chr19:49316606-49316919 chr19:49316606-49316689;chr19:49316810-49316919 chr19:49316690-49316809 50.00 N cassette CUFF.1282 chr8 - chr8:56652778-56663522;chr8:56656180-56663522 chr8:56652778-56657619,chr8:56656180-56657619;chr8:56657681-56663522 chr8:56657620-56657680 64.74 N alternative_donor CUFF.861,CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61987308 chr20:61982380-61986847 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 26.92 K jcn_only_AD CUFF.328 chr13 - chr13:97642064-97644761 chr13:97642064-97644675 chr13:97644676-97644761 chr13:97644761-97644762 34.70 N alternative_donor CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619205 chr14:69589078-69619660 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 7.02 N jcn_only_AA CUFF.1121 chr5 - chr5:149784744-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149781568-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 20.79 N alternative_acceptor CUFF.710 chr19 - chr19:49298722-49299684 chr19:49299587-49299684 chr19:49298722-49299586 chr19:49298721-49298722 4.04 K cassette CUFF.102 chr1 + chr1:222819028-222823633 chr1:222819028-222822170;chr1:222822193-222823633 chr1:222822171-222822192 70.51 N jcn_only_AD CUFF.647 chr18 + chr18:77891076-77893494 chr18:77891690-77893494 chr18:77891076-77891689 chr18:77891075-77891076 20.07 K alternative_acceptor CUFF.855 chr2 + chr2:241404164-241404272 chr2:241404164-241404251 chr2:241404252-241404272 chr2:241404272-241404273 31.93 N jcn_only_AD CUFF.951 chr3 - chr3:49330032-49331839 chr3:49330032-49330978 chr3:49330979-49331839 chr3:49331839-49331840 36.73 K cassette CUFF.1117 chr5 - chr5:141034003-141035187 chr5:141034003-141034928;chr5:141034968-141035187 chr5:141034929-141034967 84.35 K cassette CUFF.925 chr22 - chr22:51014765-51015285 chr22:51014765-51014964;chr22:51015067-51015285 chr22:51014965-51015066 83.67 K alternative_acceptor CUFF.1380 chrX - chrX:10417657-10422909 chrX:10417757-10422909 chrX:10417657-10417756 chrX:10417656-10417657 63.64 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330411-128385902;chr6:128384671-128385902 chr6:128330414-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 67.31 K alternative_donor CUFF.736 chr2 - chr2:230045-231022 chr2:230045-230546 chr2:230547-231022 chr2:231022-231023 70.03 N intron_retention chr11 - chr11:118927117-118927730 chr11:118927116-118927117;chr11:118927730-118927731 31.82 N alternative_acceptor CUFF.1062 chr4 - chr4:152100550-152108574 chr4:152102882-152108574 chr4:152100550-152102881 chr4:152100549-152100550 0.57 K alternative_first_exon CUFF.306 chr12 + chr12:111809875-111840941 chr12:111834678-111840941 chr12:111809773-111809874 chr12:111834580-111834677 44.44 N jcn_only_AA CUFF.1024 chr4 + chr4:20525801-20530571 chr4:20525801-20526771 chr4:20526772-20530571 chr4:20530571-20530572 12.50 K intron_retention CUFF.1257 chr7 + chr7:150815432-150815591 chr7:150815431-150815432;chr7:150815591-150815592 12.05 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 93.33 N alternative_acceptor CUFF.148 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 0.00 N jcn_only_AA chr7 - chr7:107580804-107591670 chr7:107583065-107591670 25.58 K alternative_acceptor CUFF.911 chr22 + chr22:29669854-29670256 chr22:29669854-29670253 chr22:29670254-29670256 chr22:29670256-29670257 79.19 K intron_retention CUFF.210 chr11 + chr11:65480306-65480392 chr11:65480305-65480306;chr11:65480392-65480393 1.92 K intron_retention CUFF.679 chr19 - chr19:16654417-16655074 chr19:16654416-16654417;chr19:16655074-16655075 77.14 K alternative_acceptor CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 3.29 N cassette CUFF.683 chr19 + chr19:18118181-18119519 chr19:18118181-18118398;chr19:18118652-18119519 chr19:18118399-18118651 53.26 N intron_retention CUFF.736 chr2 - chr2:263373-264083 chr2:263372-263373;chr2:264083-264084 61.29 K alternative_first_exon CUFF.1238 chr7 - chr7:102696195-102715142 chr7:102696195-102714692 chr7:102715143-102715344 chr7:102714693-102715062 26.50 K alternative_first_exon CUFF.1118 chr5 + chr5:145616996-145634505 chr5:145631439-145634505 chr5:145616861-145616995 chr5:145631420-145631438 1.82 K cassette CUFF.208 chr11 + chr11:63998413-63999342 chr11:63998413-63998503;chr11:63998620-63999342 chr11:63998504-63998619 chr11:63997904-63998412;chr11:63999343-63999436 43.23 N jcn_only_AD chr7 - chr7:156476858-156516805 chr7:156476858-156480723 45.98 K cassette CUFF.946 chr3 + chr3:38315867-38316479 chr3:38315867-38316094;chr3:38316250-38316479 chr3:38316095-38316249 34.38 N jcn_only_AD CUFF.981 chr3 - chr3:125050083-125057665;chr3:125050083-125076579;chr3:125050083-125093945 chr3:125050083-125075820 chr3:125057666-125075820;chr3:125075821-125076579;chr3:125076580-125093945 chr3:125075820-125075821;chr3:125076579-125076580;chr3:125093945-125093946 26.11 K intron_retention CUFF.683 chr19 + chr19:18119587-18119779 chr19:18119586-18119587;chr19:18119779-18119780 3.28 N jcn_only_AD chr3 - chr3:33614847-33614931;chr3:33614847-33615964 chr3:33614847-33617660 chr3:33614932-33615964;chr3:33615965-33617660 chr3:33615964-33615965;chr3:33617660-33617661 80.29 K alternative_donor CUFF.30 chr1 + chr1:32538653-32540551 chr1:32538700-32540551 chr1:32538653-32538699 chr1:32538652-32538653 17.83 K cassette CUFF.1106 chr5 + chr5:131658049-131662969 chr5:131658049-131660153;chr5:131660336-131662969 chr5:131660154-131660335 33.33 N jcn_only_AA CUFF.911 chr22 + chr22:29668421-29669729;chr22:29668421-29674119 chr22:29668421-29669726 chr22:29669727-29669729;chr22:29669730-29674119 chr22:29669729-29669730;chr22:29674119-29674120 32.93 N alternative_donor CUFF.995 chr3 - chr3:156262229-156266593;chr3:156262229-156266693 chr3:156262229-156266654 chr3:156266594-156266654;chr3:156266655-156266693 chr3:156266654-156266655;chr3:156266693-156266694 2.74 N jcn_only_AD CUFF.385 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 25.73 K alternative_first_exon CUFF.1257 chr7 + chr7:150812729-150813879,chr7:150784292-150813879,chr7:150813738-150813879,chr7:150783097-150813879,chr7:150784160-150813879,chr7:150787635-150813879;chr7:150783148-150813879 chr7:150809332-150813879 chr7:150782843-150783147 chr7:150809210-150809331 8.92 K alternative_acceptor CUFF.180 chr11 - chr11:2905141-2905228 chr11:2905146-2905228 chr11:2905141-2905145 chr11:2905140-2905141 28.61 N jcn_only_AA CUFF.904 chr22 - chr22:21831054-21832078;chr22:21831031-21832078 chr22:21830450-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 53.64 N alternative_donor CUFF.1175 chr6 - chr6:128326390-128330274 chr6:128326390-128327170 chr6:128327171-128330274 chr6:128330274-128330275 5.17 K cassette CUFF.868 chr20 - chr20:29965243-29978225 chr20:29965243-29966154;chr20:29966195-29978225 chr20:29966155-29966194 66.67 K cassette CUFF.587 chr17 + chr17:61566153-61568314 chr17:61566153-61566301;chr17:61566494-61568314 chr17:61566302-61566493 89.39 K cassette CUFF.615 chr18 + chr18:11999187-12009881 chr18:11999187-12008331;chr18:12008591-12009881 chr18:12008332-12008590 25.86 K alternative_first_exon CUFF.369 chr14 + chr14:92788980-92792211 chr14:92790305-92792211 chr14:92788925-92788979 chr14:92789961-92790304 95.00 K intron_retention chr11 - chr11:67771269-67771417 chr11:67771268-67771269;chr11:67771417-67771418 1.70 N coord_cassette CUFF.1255 chr7 + chr7:148984868-148987028 chr7:148984868-148985521;chr7:148986549-148986638;chr7:148986818-148987028 chr7:148985522-148986548;chr7:148986639-148986817 42.31 K intron_retention CUFF.541 chr17 - chr17:15586472-15587509 chr17:15586471-15586472;chr17:15587509-15587510 37.15 N jcn_only_AD CUFF.650 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 7.98 N alternative_donor CUFF.856 chr2 - chr2:242447551-242447857;chr2:242447551-242447732 chr2:242447551-242447919 chr2:242447733-242447857;chr2:242447858-242447919 chr2:242447857-242447858;chr2:242447919-242447920 69.41 N mutually_exclusive CUFF.473 chr16 + chr16:3117615-3118180,chr16:3118241-3118990 chr16:3117615-3117984,chr16:3118012-3118990 chr16:3118181-3118240 chr16:3117985-3118011 chr16:3117378-3117614 77.08 K jcn_only_AA CUFF.255,CUFF.287 chr12 + chr12:4662314-4665596 chr12:4662314-4665518 chr12:4665519-4665596 chr12:4665596-4665597 65.26 K alternative_donor CUFF.873 chr20 + chr20:33104267-33114072 chr20:33104682-33114072 chr20:33104267-33104681 chr20:33104266-33104267 52.55 K intron_retention chr17 + chr17:25965381-25967597 chr17:25965380-25965381;chr17:25967597-25967598 18.84 K intron_retention CUFF.289 chr12 - chr12:54757644-54758176 chr12:54757643-54757644;chr12:54758176-54758177 14.15 N intron_retention chr7 - chr7:107572823-107575859 chr7:107572822-107572823;chr7:107575859-107575860 35.82 N alternative_donor CUFF.309 chr12 - chr12:120148426-120149982 chr12:120148426-120148853 chr12:120148854-120149982 chr12:120149982-120149983 4.48 N alternative_acceptor CUFF.728 chr19 + chr19:52917622-52918376 chr19:52917622-52918191 chr19:52918192-52918376 chr19:52918376-52918377 70.00 K alternative_last_exon CUFF.985 chr3 + chr3:126135352-126137300;chr3:126135352-126137297 chr3:126135352-126135614 chr3:126137298-126137368 chr3:126135615-126135708 53.54 N jcn_only_AD CUFF.440 chr15 - chr15:78501592-78537610 chr15:78501592-78504890 chr15:78504891-78537610 chr15:78537610-78537611 30.00 N intron_retention chr18 + chr18:56002770-56008269 chr18:56002769-56002770;chr18:56008269-56008270 37.50 N cassette CUFF.600 chr17 - chr17:79244825-79249768 chr17:79244825-79246315;chr17:79246428-79249768 chr17:79246316-79246427 95.86 K cassette CUFF.1086 chr5 - chr5:54420857-54423084 chr5:54420857-54422181;chr5:54422268-54423084 chr5:54422182-54422267 24.40 N cassette CUFF.399 chr15 - chr15:44862857-44876011 chr15:44862857-44864880;chr15:44865019-44876011 chr15:44864881-44865018 85.39 K jcn_only_AA CUFF.15 chr1 + chr1:16382019-16382172 chr1:16382019-16382169 chr1:16382170-16382172 chr1:16382172-16382173 6.54 N jcn_only_AA chr16 + chr16:3194833-3195668 chr16:3194833-3194984 chr16:3194985-3195668 chr16:3195668-3195669 72.73 N alternative_acceptor CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138724-75139533 chr14:75138187-75138723 chr14:75138186-75138187 2.41 N cassette CUFF.337 chr14 + chr14:24567888-24568766 chr14:24567888-24568257;chr14:24568446-24568766 chr14:24568258-24568445 93.15 N jcn_only_AD CUFF.69 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 21.05 N coord_cassette CUFF.299 chr12 + chr12:69214155-69233053 chr12:69214155-69218142;chr12:69218211-69218334;chr12:69218432-69222550;chr12:69222712-69233053 chr12:69218143-69218210;chr12:69218335-69218431;chr12:69222551-69222711 18.27 K alternative_donor CUFF.533 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 1.55 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58963072-58965062;chr19:58963111-58965062 chr19:58964150-58965062 chr19:58962971-58963071;chr19:58963101-58963110 chr19:58964020-58964149 19.05 N jcn_only_AA CUFF.847 chr2 + chr2:228158034-228159205 chr2:228158034-228158458 chr2:228158459-228159205 chr2:228159205-228159206 92.86 K cassette CUFF.155 chr10 + chr10:96972698-96979647 chr10:96972698-96974608;chr10:96974733-96979647 chr10:96974609-96974732 44.78 N alternative_first_exon chr2 - chr2:676239-677288 chr2:676239-676573 chr2:677289-677439 chr2:676574-676799 78.95 K jcn_only_AD CUFF.1025 chr4 - chr4:36014454-36047600 chr4:36014454-36017007 68.18 K intron_retention chr19 - chr19:14876617-14877046 chr19:14876616-14876617;chr19:14877046-14877047 11.11 K cassette CUFF.1373 chr9 + chr9:139744590-139745206 chr9:139744590-139744957;chr9:139745013-139745206 chr9:139744958-139745012 47.73 K jcn_only_AA CUFF.1330,CUFF.1373 chr9 + chr9:139744590-139744957 chr9:139744590-139744954 chr9:139744955-139744957 chr9:139744957-139744958 25.00 N jcn_only_AA CUFF.473,CUFF.511 chr16 + chr16:66613796-66620899 chr16:66613796-66613928 chr16:66613929-66620899 chr16:66620899-66620900 chr16:66613351-66613795;chr16:66620900-66621001 78.79 K intron_retention CUFF.204 chr11 + chr11:61608004-61608095 chr11:61608003-61608004;chr11:61608095-61608096 14.46 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133320586-133327610;chr9:133320383-133327610 chr9:133327431-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 5.26 N intron_retention chr17 + chr17:66509112-66511127 chr17:66509111-66509112;chr17:66511127-66511128 chr17:66511128-66511260 16.48 K alternative_first_exon CUFF.1360 chr9 + chr9:125027825-125033142;chr9:125027218-125033142 chr9:125028060-125033142 chr9:125026882-125027217 chr9:125027961-125028059 3.29 N alternative_acceptor CUFF.350,CUFF.357 chr14 + chr14:61518650-61518758 chr14:61518650-61518723 chr14:61518724-61518758 chr14:61518758-61518759 2.10 K intron_retention CUFF.1157 chr6 - chr6:43480939-43481096 chr6:43480938-43480939;chr6:43481096-43481097 27.66 N alternative_donor chr16 - chr16:70266708-70267326 chr16:70266708-70267315 chr16:70267316-70267326 chr16:70267326-70267327 91.84 N alternative_donor CUFF.1241 chr7 + chr7:107256835-107258772;chr7:107253878-107258772 chr7:107254178-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 10.84 N alternative_acceptor chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 66.35 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77713347-77750745;chr15:77713437-77750745 chr15:77750627-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 14.81 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73605850;chr3:73453547-73618301;chr3:73453547-73523605 chr3:73453547-73610601 chr3:73605851-73606140;chr3:73618302-73618634;chr3:73523606-73523825 chr3:73610602-73610793 6.40 N alternative_donor CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 52.82 K intron_retention CUFF.171 chr11 - chr11:406539-407061 chr11:406538-406539;chr11:407061-407062 10.42 K alternative_last_exon CUFF.405 chr15 - chr15:50793249-50821993;chr15:50805710-50821993 chr15:50793035-50821993 chr15:50793102-50793248;chr15:50805621-50805709 chr15:50792759-50793034 52.38 K cassette CUFF.192 chr11 - chr11:8941998-8947009 chr11:8941998-8942840;chr11:8943063-8947009 chr11:8942841-8943062 64.58 N jcn_only_AD CUFF.1262 chr7 - chr7:156526952-156540617;chr7:156526952-156549086 chr7:156526952-156529186 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 5.56 K intron_retention chr10 - chr10:74094376-74095537 chr10:74094375-74094376;chr10:74095537-74095538 45.21 K alternative_first_exon CUFF.260 chr12 + chr12:9723489-9725598 chr12:9724170-9725598 chr12:9723307-9723488 chr12:9724058-9724169 44.44 K intron_retention CUFF.237 chr11 - chr11:118923542-118924832 chr11:118923541-118923542;chr11:118924832-118924833 6.41 N intron_retention chr17 + chr17:66508690-66511534 chr17:66508689-66508690;chr17:66511534-66511535 chr17:66511535-66511717 9.15 K intron_retention CUFF.1215 chr7 + chr7:44250531-44250621 chr7:44250530-44250531;chr7:44250621-44250622 30.61 N alternative_first_exon CUFF.191 chr11 - chr11:8502162-8615290;chr11:8502162-8615629 chr11:8502162-8587256 chr11:8615291-8615577;chr11:8615630-8615931 chr11:8587257-8587483 28.70 K cassette CUFF.409 chr15 + chr15:57213297-57383986 chr15:57213297-57355947;chr15:57356022-57383986 chr15:57355948-57356021 33.33 N alternative_donor CUFF.171 chr11 - chr11:410028-417324;chr11:410028-414822 chr11:410028-417293 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 9.68 N jcn_only_AA CUFF.1235 chr7 - chr7:99045812-99063751 chr7:99057817-99063751 chr7:99045812-99057816 chr7:99045811-99045812 95.50 K jcn_only_AA CUFF.1077,CUFF.1115 chr5 + chr5:39521730-39524364 chr5:39521730-39524352 chr5:39524353-39524364 chr5:39524364-39524365 54.05 K cassette CUFF.405 chr15 - chr15:50822127-50830905 chr15:50822127-50824208;chr15:50824425-50830905 chr15:50824209-50824424 22.03 N jcn_only_AA CUFF.794 chr2 + chr2:101565943-101579216;chr2:101565943-101580519 chr2:101565943-101584742 9.16 N jcn_only_AD CUFF.896 chr21 - chr21:47556409-47556898;chr21:47556409-47556828 chr21:47556409-47556892 chr21:47556829-47556892;chr21:47556893-47556898 chr21:47556892-47556893;chr21:47556898-47556899 2.35 K intron_retention CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939385-1939386;chr17:1939822-1939823 64.58 N alternative_donor CUFF.287 chr12 + chr12:53846760-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846161-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 35.14 K intron_retention CUFF.1111 chr5 + chr5:139865318-139866590 chr5:139865317-139865318;chr5:139866590-139866591 chr5:139865174-139865317;chr5:139866591-139866645 75.00 N jcn_only_AD CUFF.1188 chr6 + chr6:161455482-161469647 chr6:161469324-161469647 chr6:161455482-161469323 chr6:161455481-161455482 45.83 K alternative_first_exon CUFF.72 chr1 - chr1:156933387-156937778 chr1:156933387-156933483 chr1:156937779-156937916 chr1:156933484-156933626 68.75 N alternative_donor CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115712-3115781 chr16:3115689-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 17.55 K intron_retention CUFF.188 chr11 - chr11:6621496-6621715 chr11:6621495-6621496;chr11:6621715-6621716 75.32 N alternative_donor CUFF.846 chr2 + chr2:220094623-220094949;chr2:220094703-220094949 chr2:220094681-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 0.77 N jcn_only_AD CUFF.839 chr2 - chr2:207953306-207988497;chr2:207953306-207988699 chr2:207953306-207989067 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 58.59 N jcn_only_AD CUFF.1378 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 65.12 N jcn_only_AA CUFF.373 chr14 - chr14:104201417-104204030 chr14:104202540-104204030 82.76 K alternative_donor CUFF.458 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 17.91 K cassette CUFF.193 chr11 - chr11:10821304-10821790 chr11:10821304-10821636;chr11:10821716-10821790 chr11:10821637-10821715 52.24 K coord_cassette CUFF.599 chr17 - chr17:76994046-77005745 chr17:76994046-76996181;chr17:76996353-77001453;chr17:77001564-77005745 chr17:76996182-76996352;chr17:77001454-77001563 66.67 N cassette CUFF.780 chr2 - chr2:73195663-73215386 chr2:73195663-73198698;chr2:73198815-73215386 chr2:73198699-73198814 82.27 N jcn_only_AA CUFF.1197,CUFF.1226 chr7 + chr7:6631499-6634065 chr7:6631499-6634042 chr7:6634043-6634065 chr7:6634065-6634066 50.00 K alternative_last_exon CUFF.1201 chr7 - chr7:19095789-19153499 chr7:19152764-19153499 chr7:19095674-19095788 chr7:19152670-19152763 47.76 K intron_retention CUFF.724 chr19 - chr19:51532469-51532597 chr19:51532468-51532469;chr19:51532597-51532598 66.58 N intron_retention chr11 + chr11:119058368-119058648 chr11:119058367-119058368;chr11:119058648-119058649 chr11:119058273-119058367;chr11:119058649-119058853 75.00 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 66.27 K alternative_first_exon CUFF.327,CUFF.330 chr13 - chr13:102527647-103053820 chr13:102527647-102568802 chr13:103053821-103054124 chr13:102568803-102568995 70.59 N intron_retention chr22 - chr22:51020525-51020677 chr22:51020524-51020525;chr22:51020677-51020678 51.85 K alternative_last_exon CUFF.742 chr2 + chr2:1243549-1251098 chr2:1243549-1246509 chr2:1251099-1251215 chr2:1246510-1246549 2.06 K alternative_donor CUFF.906 chr22 + chr22:24717292-24720187 chr22:24718887-24720187 chr22:24717292-24718886 chr22:24717291-24717292 87.20 N mutually_exclusive CUFF.835 chr2 - chr2:204326649-204341798,chr2:204341880-204354306 chr2:204326649-204334961,chr2:204335037-204354306 chr2:204341799-204341879 chr2:204334962-204335036 27.50 N alternative_acceptor CUFF.1174 chr6 + chr6:126329892-126332398 chr6:126329892-126330480 chr6:126330481-126332398 chr6:126332398-126332399 33.33 N alternative_acceptor CUFF.457 chr15 + chr15:77713347-77750745 chr15:77713347-77740060 chr15:77740061-77750745 chr15:77750745-77750746 0.00 N jcn_only_AA CUFF.553 chr17 + chr17:25967800-25969263 chr17:25967800-25967990 chr17:25967991-25969263 chr17:25969263-25969264 1.62 K alternative_first_exon CUFF.1008 chr4 + chr4:645878-647640,chr4:646343-647640,chr4:647109-647640;chr4:645547-647640;chr4:629759-647640 chr4:647497-647640 chr4:645257-645546;chr4:629669-629758 chr4:647399-647496 9.24 N jcn_only_AA CUFF.967 chr3 - chr3:107591328-107591814;chr3:107586425-107591814 chr3:107586273-107591814 chr3:107586273-107586424;chr3:107586425-107591327 chr3:107586272-107586273;chr3:107586424-107586425 73.36 N alternative_donor CUFF.796 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 69.57 N intron_retention chr19 + chr19:52901158-52901706 chr19:52901157-52901158;chr19:52901706-52901707 76.60 K intron_retention CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589888-33589889;chr20:33589979-33589980 32.02 N intron_retention chr11 - chr11:10830056-10830251 chr11:10830055-10830056;chr11:10830251-10830252 71.74 K alternative_first_exon CUFF.1149 chr6 + chr6:32822067-32823914;chr6:32812052-32823914 chr6:32812648-32823914 chr6:32821895-32822066;chr6:32811870-32812051 chr6:32812549-32812647 21.59 K intron_retention CUFF.500 chr16 - chr16:30006785-30006861 chr16:30006784-30006785;chr16:30006861-30006862 22.43 N cassette CUFF.748 chr2 - chr2:11593925-11605897 chr2:11593925-11597304;chr2:11597360-11605897 chr2:11597305-11597359 69.23 N alternative_acceptor CUFF.635 chr18 - chr18:61060783-61064266 chr18:61060800-61064266 chr18:61060783-61060799 chr18:61060782-61060783 11.29 N cassette CUFF.342 chr14 + chr14:50249176-50249547 chr14:50249176-50249259;chr14:50249313-50249547 chr14:50249260-50249312 65.96 N alternative_donor CUFF.1034 chr4 + chr4:57308027-57312860 chr4:57312544-57312860 chr4:57308027-57312543 chr4:57308026-57308027 15.00 K coord_cassette CUFF.269 chr12 + chr12:21229504-21294447 chr12:21229504-21279041;chr12:21279192-21284056;chr12:21284171-21294447 chr12:21279042-21279191;chr12:21284057-21284170 80.00 K alternative_first_exon CUFF.742 chr2 + chr2:1159412-1161233;chr2:1133496-1161233 chr2:1158976-1161233 chr2:1133454-1133495 chr2:1158928-1158975 43.98 N alternative_donor CUFF.1175 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 7.35 N jcn_only_AD chr11 + chr11:36397709-36398178 chr11:36397788-36398178 33.33 K alternative_last_exon CUFF.686 chr19 - chr19:21637275-21639262 chr19:21638407-21639262 chr19:21637185-21637274 chr19:21638133-21638406 67.14 N jcn_only_AD CUFF.1121 chr5 - chr5:149782189-149782683;chr5:149782189-149785821 chr5:149782189-149784242 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 27.32 N intron_retention chr8 - chr8:30643506-30657232 chr8:30643505-30643506;chr8:30657232-30657233 78.95 N alternative_acceptor CUFF.1043 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 50.00 N alternative_donor CUFF.580,CUFF.595 chr17 - chr17:66279265-66287226 chr17:66279265-66281685 chr17:66281686-66287226 chr17:66287226-66287227 0.51 N alternative_acceptor chr14 - chr14:71227900-71249939 chr14:71232205-71249939 chr14:71227900-71232204 chr14:71227899-71227900 0.00 N intron_retention chr7 - chr7:156471045-156471770 chr7:156471044-156471045;chr7:156471770-156471771 71.74 K alternative_donor CUFF.1094 chr5 - chr5:64906871-64907583 chr5:64906871-64907429 chr5:64907430-64907583 chr5:64907583-64907584 23.13 K intron_retention CUFF.1142 chr6 + chr6:31929164-31929323 chr6:31929163-31929164;chr6:31929323-31929324 78.79 N alternative_donor CUFF.857 chr2 + chr2:242610857-242611605;chr2:242610841-242611605 chr2:242610821-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 50.00 N jcn_only_AD CUFF.681 chr19 + chr19:17608274-17611086 chr19:17610764-17611086 chr19:17608274-17610763 chr19:17608273-17608274 29.87 K alternative_last_exon CUFF.1402 chrX - chrX:85118100-85282494 chrX:85236814-85282494 chrX:85116179-85118099 chrX:85236741-85236813 7.69 N jcn_only_AD CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133320586-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 31.58 N alternative_last_exon CUFF.345 chr14 + chr14:58979346-59003724;chr14:58979346-59014498;chr14:58979346-59006788 chr14:58979346-58987639 chr14:59014499-59015215;chr14:59006789-59006854 chr14:58987640-58987922 43.18 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241375502-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241396887-241398446 chr2:241392428-241392511;chr2:241375088-241375501;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241396815-241396886 13.79 N intron_retention chr16 + chr16:3115689-3115784 chr16:3115688-3115689;chr16:3115784-3115785 chr16:3115785-3115827 45.00 K intron_retention chr21 + chr21:15660868-15663606 chr21:15660867-15660868;chr21:15663606-15663607 72.92 K alternative_last_exon CUFF.969 chr3 - chr3:108464359-108475354 chr3:108474753-108475354 chr3:108464278-108464358 chr3:108474486-108474752 57.14 K alternative_first_exon CUFF.327,CUFF.328 chr13 - chr13:78492760-78493531 chr13:78492760-78493141 chr13:78493532-78493903 chr13:78493142-78493465 92.31 N jcn_only_AD CUFF.739 chr2 - chr2:175689247-175711042 chr2:175689247-175711036 42.86 N jcn_only_AA CUFF.1144 chr6 - chr6:31939459-31939705;chr6:31938925-31939705;chr6:31939359-31939705 chr6:31939503-31939705 36.39 K alternative_donor CUFF.526 chr16 + chr16:89793734-89795642 chr16:89793766-89795642 chr16:89793734-89793765 chr16:89793733-89793734 61.73 K intron_retention CUFF.841 chr2 + chr2:219222458-219222759 chr2:219222457-219222458;chr2:219222759-219222760 51.49 K jcn_only_AD CUFF.1331 chr9 - chr9:35077397-35078601 chr9:35077397-35078137 96.97 N alternative_donor CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448101-61449225 chr14:61448406-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 5.30 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 0.00 N alternative_donor chr2 + chr2:101609990-101612257 chr2:101611043-101612257 chr2:101609990-101611042 chr2:101609989-101609990 53.57 K intron_retention CUFF.9 chr1 + chr1:11082308-11083249 chr1:11082307-11082308;chr1:11083249-11083250 45.61 N intron_retention chr12 - chr12:7090345-7090971 chr12:7090344-7090345;chr12:7090971-7090972 63.16 N cassette CUFF.69 chr1 + chr1:155180419-155182175 chr1:155180419-155181917;chr1:155182011-155182175 chr1:155181918-155182010 94.12 K alternative_acceptor CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 81.75 N jcn_only_AD chr4 - chr4:6537105-6565286 chr4:6537105-6557260 50.00 N intron_retention chr17 + chr17:61905284-61905497 chr17:61905283-61905284;chr17:61905497-61905498 chr17:61905498-61905569 8.11 N intron_retention chr3 + chr3:28358351-28360999 chr3:28358350-28358351;chr3:28360999-28361000 30.30 K alternative_acceptor CUFF.668 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 13.10 N jcn_only_AD CUFF.385 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 20.71 N alternative_acceptor CUFF.736 chr2 - chr2:263369-264781;chr2:263763-264781 chr2:263373-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 45.00 N jcn_only_AD chr4 - chr4:74477547-74486155 chr4:74477547-74486004 chr4:74486005-74486155 chr4:74486155-74486156 89.29 N jcn_only_AA CUFF.1043 chr4 - chr4:77977254-77987401 chr4:77979789-77987401 chr4:77977254-77979788 chr4:77977253-77977254 89.76 K cassette CUFF.140 chr10 + chr10:70679738-70695761 chr10:70679738-70694554;chr10:70694675-70695761 chr10:70694555-70694674 21.37 K intron_retention CUFF.500 chr16 - chr16:30006165-30006423 chr16:30006164-30006165;chr16:30006423-30006424 37.76 N alternative_acceptor CUFF.355 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 6.35 N alternative_acceptor chr1 + chr1:167301773-167343392 chr1:167301773-167334703 chr1:167334704-167343392 chr1:167343392-167343393 29.55 K alternative_first_exon CUFF.1033,CUFF.1048 chr4 - chr4:56496628-56502710 chr4:56496628-56502247 chr4:56502711-56502946 chr4:56502248-56502522 78.93 K alternative_acceptor CUFF.308 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 30.40 K intron_retention CUFF.297 chr12 + chr12:58013662-58014124 chr12:58013661-58013662;chr12:58014124-58014125 38.60 K alternative_last_exon CUFF.758 chr2 + chr2:38231360-38239745;chr2:38231360-38294124 chr2:38231360-38244328 chr2:38294125-38294220 chr2:38244329-38244378 44.74 N alternative_acceptor CUFF.14 chr1 + chr1:15753781-15755088 chr1:15753781-15754393 chr1:15754394-15755088 chr1:15755088-15755089 7.89 K alternative_first_exon CUFF.635,CUFF.643 chr18 - chr18:61071060-61074664;chr18:61071060-61071741 chr18:61071060-61077522 chr18:61074665-61074732;chr18:61071742-61072022 chr18:61077523-61077679 35.71 K alternative_first_exon CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137220-160141040 chr1:160137068-160137202 chr1:160137218-160137219 53.33 N jcn_only_AA chr5 + chr5:139815843-139818078;chr5:139815843-139818087 chr5:139815843-139818045 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 25.64 N alternative_donor CUFF.1282 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 20.11 N alternative_acceptor CUFF.430 chr15 - chr15:75801369-75809599 chr15:75805780-75809599 chr15:75801369-75805779 chr15:75801368-75801369 33.33 N cassette CUFF.1230 chr7 - chr7:86574363-86594219 chr7:86574363-86577042;chr7:86577239-86594219 chr7:86577043-86577238 chr7:86574215-86574362 96.60 K jcn_only_AA CUFF.1272 chr8 - chr8:22012977-22013849 chr8:22013023-22013849 chr8:22012977-22013022 chr8:22012976-22012977 90.48 K alternative_first_exon CUFF.1198 chr7 + chr7:7197058-7273933 chr7:7222452-7273933 chr7:7196933-7197057 chr7:7222166-7222451 93.85 K jcn_only_AA CUFF.649 chr19 + chr19:1438428-1438809 chr19:1438428-1438805 chr19:1438806-1438809 chr19:1438809-1438810 89.29 N jcn_only_AD chr17 + chr17:29576138-29584704 chr17:29580019-29584704 17.65 N cassette CUFF.1262 chr7 - chr7:156619439-156685621 chr7:156619439-156626432;chr7:156626487-156685621 chr7:156626433-156626486 74.04 N alternative_acceptor CUFF.990 chr3 - chr3:133910819-133913925 chr3:133910828-133913925 chr3:133910819-133910827 chr3:133910818-133910819 6.71 K jcn_only_AD CUFF.1393 chrX + chrX:47035986-47040613 chrX:47039906-47040613 93.79 N cassette CUFF.473 chr16 + chr16:3117615-3118180;chr16:3117417-3118180 chr16:3117615-3117984,chr16:3117417-3117984;chr16:3118012-3118180 chr16:3117985-3118011 chr16:3117378-3117416 89.99 K alternative_first_exon CUFF.1199,CUFF.1248 chr7 - chr7:7592554-7594786 chr7:7592554-7594318 chr7:7594787-7594820 chr7:7594319-7594463 76.67 K intron_retention CUFF.253 chr12 + chr12:3432619-3434255 chr12:3432618-3432619;chr12:3434255-3434256 30.43 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 95.78 N jcn_only_AA chr17 - chr17:79354385-79358745 chr17:79355741-79358745 chr17:79354385-79355740 chr17:79354384-79354385 31.21 K coord_cassette CUFF.745 chr2 - chr2:4006532-4007505 chr2:4006532-4006841;chr2:4006986-4007153;chr2:4007227-4007505 chr2:4006842-4006985;chr2:4007154-4007226 61.54 N jcn_only_AD CUFF.342 chr14 + chr14:50235340-50238311 chr14:50235810-50238311 chr14:50235340-50235809 chr14:50235339-50235340 27.85 N alternative_first_exon CUFF.676 chr19 + chr19:16191886-16192722,chr19:16187508-16192722;chr19:16186983-16192722 chr19:16191253-16192722 chr19:16186857-16186982 chr19:16191112-16191252 11.41 K intron_retention CUFF.1364 chr9 - chr9:131485019-131486272 chr9:131485018-131485019;chr9:131486272-131486273 19.30 K alternative_last_exon CUFF.1321 chr8 + chr8:144356973-144357147,chr8:144356973-144358172;chr8:144356973-144358066 chr8:144356973-144357364 chr8:144358067-144359100 chr8:144357365-144357887 27.94 K alternative_donor CUFF.175 chr11 + chr11:828964-829359 chr11:829184-829359 chr11:828964-829183 chr11:828963-828964 22.94 N jcn_only_AA CUFF.148 chr10 - chr10:78637649-78647048;chr10:78637652-78647048 chr10:78644776-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 44.36 N jcn_only_AA CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831031-21832078 chr22:21831054-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 41.06 N intron_retention chr15 - chr15:44876134-44876362 chr15:44876133-44876134;chr15:44876362-44876363 67.74 K alternative_first_exon CUFF.331 chr13 + chr13:103498705-103504467 chr13:103501545-103504467 chr13:103497194-103498704 chr13:103501468-103501544 32.61 N alternative_acceptor CUFF.1121 chr5 - chr5:149781568-149785821;chr5:149785235-149785821;chr5:149782876-149785821;chr5:149782189-149785821 chr5:149784744-149785821 chr5:149781568-149782188;chr5:149782189-149782875;chr5:149782876-149784743;chr5:149784744-149785234 chr5:149781567-149781568;chr5:149782188-149782189;chr5:149782875-149782876;chr5:149784743-149784744 16.13 N jcn_only_AA CUFF.357 chr14 + chr14:76286505-76330009 chr14:76286505-76286945 chr14:76286946-76330009 chr14:76330009-76330010 23.73 N alternative_donor CUFF.52 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 66.67 K alternative_last_exon CUFF.478 chr16 - chr16:4412133-4445289 chr16:4438633-4445289 chr16:4411494-4412132 chr16:4438546-4438632 54.74 N jcn_only_AD chr22 - chr22:21829590-21830290 chr22:21829590-21830280 59.82 N alternative_donor CUFF.138 chr10 - chr10:69583151-69597691 chr10:69583151-69587299 chr10:69587300-69597691 chr10:69597691-69597692 0.13 N jcn_only_AA CUFF.528 chr17 - chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615694-1617149;chr17:1615941-1617149 chr17:1616350-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 5.82 N jcn_only_AD CUFF.409 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 7.88 N alternative_donor CUFF.596 chr17 + chr17:66509112-66511127;chr17:66509120-66511127;chr17:66508284-66511127 chr17:66508690-66511127 chr17:66508284-66508689;chr17:66508690-66509111;chr17:66509112-66509119 chr17:66508283-66508284;chr17:66508689-66508690;chr17:66509111-66509112 chr17:66511128-66511260;chr17:66507921-66508283 4.35 K alternative_donor CUFF.786 chr2 - chr2:86386795-86389098 chr2:86386795-86389074 chr2:86389075-86389098 chr2:86389098-86389099 32.94 N cassette CUFF.806 chr2 + chr2:160619505-160623794 chr2:160619505-160621136;chr2:160621186-160623794 chr2:160621137-160621185 39.92 K alternative_first_exon CUFF.1213 chr7 - chr7:38937730-38948753;chr7:38937730-38969071 chr7:38937730-38971877 chr7:38948754-38948865;chr7:38969072-38969236 chr7:38971878-38972085 22.40 K jcn_only_AA CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 82.80 N alternative_donor CUFF.859,CUFF.869 chr20 - chr20:1517957-1532516 chr20:1517957-1532336 chr20:1532337-1532516 chr20:1532516-1532517 77.17 N alternative_acceptor CUFF.753 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 4.76 N cassette CUFF.736 chr2 - chr2:262787-264781;chr2:253116-264781 chr2:262787-263210,chr2:253116-263210;chr2:263369-264781 chr2:263211-263368 71.48 N alternative_donor CUFF.409 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57422171-57458599 chr15:57401516-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 0.00 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 7.22 N alternative_acceptor CUFF.1244 chr7 - chr7:111161506-111201906 chr7:111172642-111201906 chr7:111161506-111172641 chr7:111161505-111161506 1.02 N alternative_acceptor CUFF.1262 chr7 - chr7:156526952-156549086 chr7:156529310-156549086 chr7:156526952-156529309 chr7:156526951-156526952 0.54 K jcn_only_AD CUFF.1393 chrX + chrX:47039437-47039610 chrX:47039440-47039610 chrX:47039437-47039439 chrX:47039436-47039437 71.14 K cassette CUFF.950 chr3 - chr3:47018334-47023421 chr3:47018334-47018427;chr3:47018531-47023421 chr3:47018428-47018530 40.74 K alternative_donor CUFF.755,CUFF.774 chr2 - chr2:68374700-68384392;chr2:68374700-68384505 chr2:68374700-68384058 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 84.32 K alternative_first_exon CUFF.401 chr15 - chr15:45470505-45490969;chr15:45470505-45473304;chr15:45470505-45492924 chr15:45470505-45479651 chr15:45473305-45473384;chr15:45492925-45493460 chr15:45479652-45480154 21.53 N alternative_acceptor CUFF.1054 chr4 + chr4:120415679-120418965 chr4:120415679-120418816 chr4:120418817-120418965 chr4:120418965-120418966 6.47 N cassette CUFF.182 chr11 + chr11:3405515-3422988 chr11:3405515-3418346;chr11:3418637-3422988 chr11:3418347-3418636 chr11:3405397-3405514 87.50 K cassette CUFF.175 chr11 + chr11:830714-831223 chr11:830714-830865;chr11:831033-831223 chr11:830866-831032 86.76 K intron_retention chr16 + chr16:3115496-3115781 chr16:3115495-3115496;chr16:3115781-3115782 chr16:3115230-3115495;chr16:3115782-3115827 61.23 N jcn_only_AD CUFF.736 chr2 - chr2:110920710-110922264 chr2:110920710-110922096 chr2:110922097-110922264 chr2:110922264-110922265 64.86 K intron_retention CUFF.505 chr16 + chr16:31393218-31393788 chr16:31393217-31393218;chr16:31393788-31393789 87.50 N cassette CUFF.1228 chr7 - chr7:75054992-75066792 chr7:75054992-75055643;chr7:75055736-75066792 chr7:75055644-75055735 92.97 N alternative_donor CUFF.357 chr14 + chr14:76219299-76230957 chr14:76224213-76230957 chr14:76219299-76224212 chr14:76219298-76219299 3.92 K intron_retention CUFF.784 chr2 - chr2:79365203-79365497 chr2:79365202-79365203;chr2:79365497-79365498 28.57 K intron_retention CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963863-80963864;chr8:80965516-80965517 5.24 K intron_retention CUFF.297 chr12 + chr12:58017697-58017785 chr12:58017696-58017697;chr12:58017785-58017786 31.13 K alternative_donor CUFF.972 chr3 + chr3:119187954-119188666;chr3:119187854-119188666 chr3:119188106-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 38.54 K intron_retention CUFF.855 chr2 + chr2:241402930-241404032 chr2:241402929-241402930;chr2:241404032-241404033 9.85 N alternative_acceptor CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 32.69 K intron_retention CUFF.239 chr11 + chr11:119059261-119059348 chr11:119059260-119059261;chr11:119059348-119059349 chr11:119059064-119059260;chr11:119059349-119059576 8.03 N jcn_only_AA chr15 + chr15:29131425-29140665;chr15:29131425-29139019 chr15:29131425-29213842 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 8.82 N intron_retention chr8 - chr8:80965666-81083659 chr8:80965665-80965666;chr8:81083659-81083660 22.45 N mutually_exclusive CUFF.337 chr14 + chr14:24563644-24566100,chr14:24566347-24567411 chr14:24563644-24563974,chr14:24564055-24567411 chr14:24566101-24566346 chr14:24563975-24564054 38.98 N intron_retention chr3 - chr3:133914027-133921573 chr3:133914026-133914027;chr3:133921573-133921574 56.99 N alternative_donor chr1 + chr1:245246991-245285221 chr1:245270600-245285221 chr1:245246991-245270599 chr1:245246990-245246991 14.29 K cassette CUFF.780 chr2 - chr2:73268061-73285656 chr2:73268061-73269616;chr2:73269715-73285656 chr2:73269617-73269714 3.56 N alternative_donor CUFF.681 chr19 + chr19:17611442-17615263;chr19:17611686-17615263 chr19:17612229-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 21.35 K cassette CUFF.1413 chrX + chrX:114536689-114540769 chrX:114536689-114537864;chrX:114537984-114540769 chrX:114537865-114537983 40.00 K intron_retention CUFF.72 chr1 - chr1:156908306-156908940 chr1:156908305-156908306;chr1:156908940-156908941 11.30 N alternative_acceptor CUFF.1206 chr7 + chr7:34724297-34818073;chr7:34724297-34725362 chr7:34724297-34818106 chr7:34725363-34818073;chr7:34818074-34818106 chr7:34818073-34818074;chr7:34818106-34818107 37.50 N jcn_only_AA CUFF.1232 chr7 + chr7:73112025-73117708 chr7:73112025-73112161 chr7:73112162-73117708 chr7:73117708-73117709 93.43 K cassette CUFF.29 chr1 + chr1:31783012-31791955 chr1:31783012-31791013;chr1:31791084-31791955 chr1:31791014-31791083 50.56 N intron_retention chr2 + chr2:242590527-242592926 chr2:242590526-242590527;chr2:242592926-242592927 52.17 N jcn_only_AA CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 21.95 N intron_retention chr19 - chr19:49299587-49299684 chr19:49299586-49299587;chr19:49299684-49299685 90.12 N alternative_donor CUFF.183 chr11 - chr11:5685404-5686885 chr11:5685404-5686398 chr11:5686399-5686885 chr11:5686885-5686886 49.49 N alternative_donor CUFF.911 chr22 + chr22:29695271-29695588 chr22:29695322-29695588 chr22:29695271-29695321 chr22:29695270-29695271 35.50 N cassette CUFF.584 chr17 - chr17:57775340-57784731 chr17:57775340-57776231;chr17:57777551-57784731 chr17:57776232-57777550 95.04 K intron_retention CUFF.514 chr16 - chr16:67970007-67970117 chr16:67970006-67970007;chr16:67970117-67970118 32.73 N alternative_last_exon CUFF.684 chr19 - chr19:20287619-20349096;chr19:20243397-20349096 chr19:20339293-20349096 chr19:20243270-20243396 chr19:20338806-20339292 97.95 K alternative_last_exon CUFF.600 chr17 - chr17:79250934-79254408 chr17:79253961-79254408 chr17:79250831-79250933 chr17:79253503-79253960 41.62 N jcn_only_AD chr11 - chr11:10823983-10827453 chr11:10823983-10824576 76.58 N alternative_acceptor CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44771532 chr19:44771115-44777051 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 56.82 N intron_retention CUFF.1305 chr8 - chr8:99055004-99057054 chr8:99055003-99055004;chr8:99057054-99057055 58.46 N alternative_donor chr3 - chr3:71777775-71778224;chr3:71777775-71803794;chr3:71777775-71803365 chr3:71777775-71802613 chr3:71778225-71802613;chr3:71802614-71803365;chr3:71803366-71803794 chr3:71802613-71802614;chr3:71803365-71803366;chr3:71803794-71803795 41.18 N intron_retention chr14 + chr14:92915504-92920243 chr14:92915503-92915504;chr14:92920243-92920244 73.91 N cassette CUFF.780 chr2 - chr2:73172229-73195576 chr2:73172229-73188259;chr2:73188378-73195576 chr2:73188260-73188377 36.20 N jcn_only_AA CUFF.247 chr11 - chr11:124766952-124768293 chr11:124767158-124768293 chr11:124766952-124767157 chr11:124766951-124766952 15.49 K cassette CUFF.814 chr2 + chr2:169699628-169707593 chr2:169699628-169707345;chr2:169707517-169707593 chr2:169707346-169707516 11.43 N alternative_acceptor CUFF.119 chr10 - chr10:17646047-17659081 chr10:17657964-17659081 chr10:17646047-17657963 chr10:17646046-17646047 1.17 K alternative_donor CUFF.1425 chrX + chrX:153607898-153608049 chrX:153607927-153608049 chrX:153607898-153607926 chrX:153607897-153607898 95.85 N alternative_acceptor chrX + chrX:148863691-148867663 chrX:148863691-148867418 chrX:148867419-148867663 chrX:148867663-148867664 chrX:148867664-148867732 37.50 N alternative_acceptor CUFF.231 chr11 + chr11:827460-828259 chr11:827460-828229 chr11:828230-828259 chr11:828259-828260 20.37 N jcn_only_AA CUFF.736 chr2 - chr2:263763-264781;chr2:263373-264781 chr2:263369-264781 chr2:263369-263372;chr2:263373-263762 chr2:263368-263369;chr2:263372-263373 31.87 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 81.37 N alternative_acceptor chr20 - chr20:31115717-31172371 chr20:31136689-31172371 chr20:31115717-31136688 chr20:31115716-31115717 0.00 N alternative_acceptor chr16 + chr16:3115828-3117443 chr16:3115828-3117377 chr16:3117378-3117443 chr16:3117443-3117444 chr16:3115782-3115827;chr16:3117444-3117886 78.10 N jcn_only_AD CUFF.354 chr14 - chr14:71227900-71249939;chr14:71227900-71267383 chr14:71227900-71232158 chr14:71232159-71249939;chr14:71249940-71267383 chr14:71249939-71249940;chr14:71267383-71267384 61.54 N cassette CUFF.983 chr3 - chr3:125745323-125769740 chr3:125745323-125752449;chr3:125752522-125769740 chr3:125752450-125752521 80.84 N alternative_acceptor CUFF.752 chr2 - chr2:25174424-25179911 chr2:25176505-25179911 chr2:25174424-25176504 chr2:25174423-25174424 4.00 N cassette CUFF.401 chr15 - chr15:45464277-45467416 chr15:45464277-45464344;chr15:45464517-45467416 chr15:45464345-45464516 70.50 N alternative_donor chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 66.67 N intron_retention chr6 - chr6:133047978-133055391 chr6:133047977-133047978;chr6:133055391-133055392 77.50 N jcn_only_AD CUFF.315 chr13 + chr13:21205242-21228014 chr13:21219098-21228014 88.37 N jcn_only_AD CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448962-61449225;chr14:61448406-61449225 chr14:61448101-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 73.46 K alternative_acceptor CUFF.745 chr2 - chr2:4007227-4007505 chr2:4007365-4007505 chr2:4007227-4007364 chr2:4007226-4007227 60.76 N intron_retention chr9 + chr9:34992984-34993196 chr9:34992983-34992984;chr9:34993196-34993197 8.70 N alternative_acceptor CUFF.142 chr10 - chr10:73963283-73970489 chr10:73964264-73970489 chr10:73963283-73964263 chr10:73963282-73963283 0.48 K jcn_only_AA CUFF.208 chr11 + chr11:64000087-64000175 chr11:64000087-64000172 chr11:64000173-64000175 chr11:64000175-64000176 chr11:63999903-64000086;chr11:64000176-64000337 28.64 N alternative_donor chr7 - chr7:86548627-86550078;chr7:86548627-86549023 chr7:86548627-86554843 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 96.51 K cassette CUFF.1318 chr8 - chr8:126948578-126963157 chr8:126948578-126958176;chr8:126958427-126963157 chr8:126958177-126958426 88.32 N jcn_only_AD chr11 + chr11:74622471-74630577;chr11:74630071-74630577 chr11:74624828-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 27.27 K intron_retention CUFF.193 chr11 - chr11:10821304-10821636 chr11:10821303-10821304;chr11:10821636-10821637 5.08 N jcn_only_AD CUFF.341 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 1.79 N intron_retention chr4 - chr4:36161128-36162080 chr4:36161127-36161128;chr4:36162080-36162081 77.78 N coord_cassette CUFF.127 chr10 + chr10:35416122-35495822 chr10:35416122-35467816;chr10:35467915-35468061;chr10:35468205-35477127;chr10:35477317-35495822 chr10:35467817-35467914;chr10:35468062-35468204;chr10:35477128-35477316 78.92 N jcn_only_AA CUFF.753 chr2 - chr2:27672964-27676250 chr2:27676138-27676250 chr2:27672964-27676137 chr2:27672963-27672964 40.00 N alternative_first_exon CUFF.988 chr3 + chr3:132764865-132948113 chr3:132911672-132948113 chr3:132764746-132764864 chr3:132911572-132911671 62.65 K intron_retention chr2 - chr2:177042550-177042730 chr2:177042549-177042550;chr2:177042730-177042731 46.83 N cassette CUFF.1154 chr6 - chr6:39856832-39864972 chr6:39856832-39859081;chr6:39859156-39864972 chr6:39859082-39859155 57.69 N intron_retention CUFF.462 chr16 + chr16:105883-106320 chr16:105882-105883;chr16:106320-106321 chr16:105794-105882 56.25 K intron_retention CUFF.204 chr11 + chr11:61630542-61630753 chr11:61630541-61630542;chr11:61630753-61630754 71.88 K intron_retention CUFF.309 chr12 - chr12:120220442-120221711 chr12:120220441-120220442;chr12:120221711-120221712 90.91 K alternative_acceptor CUFF.208 chr11 + chr11:63999437-63999981 chr11:63999437-63999901 chr11:63999902-63999981 chr11:63999981-63999982 chr11:63999343-63999436;chr11:63999982-64000086 91.44 N alternative_acceptor CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57583026 chr15:57574797-57591423 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 8.16 N jcn_only_AD CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577140-242590424 chr2:242577786-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 1.91 K intron_retention CUFF.676 chr19 + chr19:16212220-16212869 chr19:16212219-16212220;chr19:16212869-16212870 77.23 K intron_retention CUFF.247 chr11 - chr11:124766567-124766827 chr11:124766566-124766567;chr11:124766827-124766828 20.37 K intron_retention CUFF.285 chr12 - chr12:52979620-52979746 chr12:52979619-52979620;chr12:52979746-52979747 61.11 N intron_retention chr11 + chr11:119056338-119056557 chr11:119056337-119056338;chr11:119056557-119056558 11.54 N jcn_only_AA CUFF.294 chr12 - chr12:56705180-56708634;chr12:56706670-56708634;chr12:56705199-56708634 chr12:56705238-56708634 chr12:56705180-56705198;chr12:56705199-56705237;chr12:56705238-56706669 chr12:56705179-56705180;chr12:56705198-56705199;chr12:56705237-56705238 6.74 N alternative_donor CUFF.287 chr12 + chr12:53846161-53848509;chr12:53847068-53848509;chr12:53837558-53848509 chr12:53846760-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 10.81 N jcn_only_AD CUFF.1144,CUFF.1173 chr6 - chr6:116980088-116981898 chr6:116980088-116981395 chr6:116981396-116981898 chr6:116981898-116981899 22.22 N intron_retention chr1 - chr1:27429804-27432375 chr1:27429803-27429804;chr1:27432375-27432376 20.87 K jcn_only_AA CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019248-58019364 chr12:58019365-58019407 chr12:58019407-58019408 72.04 N intron_retention chr17 - chr17:1615941-1617149 chr17:1615940-1615941;chr17:1617149-1617150 97.14 K intron_retention CUFF.165 chr10 + chr10:124134323-124152696 chr10:124134322-124134323;chr10:124152696-124152697 3.42 N jcn_only_AD CUFF.341 chr14 + chr14:50070337-50074117;chr14:50069187-50074117 chr14:50067416-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 5.07 N jcn_only_AA CUFF.798 chr2 - chr2:110920710-110922096 chr2:110920713-110922096 chr2:110920710-110920712 chr2:110920709-110920710 9.43 K alternative_last_exon CUFF.204,CUFF.229 chr11 + chr11:107944225-107948902 chr11:107944225-107944526 chr11:107948903-107948967 chr11:107944527-107944795 66.67 N cassette CUFF.270 chr12 - chr12:22646272-22666227 chr12:22646272-22659644;chr12:22659754-22666227 chr12:22659645-22659753 88.03 N coord_cassette CUFF.611 chr18 + chr18:163454-180235 chr18:163454-166786;chr18:166820-178932;chr18:179038-180235 chr18:166787-166819;chr18:178933-179037 22.22 K alternative_donor CUFF.774 chr2 - chr2:68374700-68384505;chr2:68374700-68384058 chr2:68374700-68384392 chr2:68384059-68384392;chr2:68384393-68384505 chr2:68384392-68384393;chr2:68384505-68384506 7.46 K alternative_donor CUFF.513 chr16 + chr16:67233486-67233586 chr16:67233497-67233586 chr16:67233486-67233496 chr16:67233485-67233486 69.41 K intron_retention CUFF.373 chr14 - chr14:104202540-104205015 chr14:104202539-104202540;chr14:104205015-104205016 77.82 K alternative_last_exon CUFF.1069 chr5 - chr5:472081-472793;chr5:471939-472793;chr5:472709-472793 chr5:466642-472793 chr5:471071-471938;chr5:472218-472708 chr5:466239-466641 48.15 N alternative_first_exon CUFF.509 chr16 - chr16:57513601-57513756,chr16:57513601-57513772,chr16:57513601-57514206,chr16:57513601-57515373,chr16:57513601-57520216,chr16:57513601-57521007,chr16:57513601-57521042,chr16:57513601-57521157;chr16:57513601-57517869 chr16:57513601-57514241 chr16:57517870-57518288 chr16:57514242-57514402 69.83 K cassette CUFF.1273 chr8 - chr8:23186079-23198504 chr8:23186079-23190913;chr8:23191137-23198504 chr8:23190914-23191136 46.55 K alternative_first_exon CUFF.1097 chr5 - chr5:82969369-82971106,chr5:82969369-82978143;chr5:82969369-82970344 chr5:82969369-82969951 chr5:82970345-82970437 chr5:82969952-82970139 28.83 K intron_retention CUFF.870 chr20 + chr20:30136597-30136831 chr20:30136596-30136597;chr20:30136831-30136832 90.50 K intron_retention CUFF.137 chr10 + chr10:60047518-60048035 chr10:60047517-60047518;chr10:60048035-60048036 37.21 N alternative_first_exon CUFF.177,CUFF.247 chr11 - chr11:124766952-124768293 chr11:124766952-124767621 chr11:124768294-124768465 chr11:124767622-124768177 9.43 K cassette CUFF.120 chr10 + chr10:18280233-18284584 chr10:18280233-18282109;chr10:18282221-18284584 chr10:18282110-18282220 62.04 K alternative_first_exon CUFF.331 chr13 + chr13:103525694-103527656 chr13:103527209-103527656 chr13:103525609-103525693 chr13:103527056-103527208 39.13 K intron_retention CUFF.193 chr11 - chr11:10827488-10828835 chr11:10827487-10827488;chr11:10828835-10828836 49.03 N jcn_only_AD CUFF.742 chr2 + chr2:1079342-1204788 chr2:1168870-1204788 94.29 K cassette CUFF.1050 chr4 - chr4:99403327-99407888 chr4:99403327-99405549;chr4:99405750-99407888 chr4:99405550-99405749 24.02 N jcn_only_AA CUFF.279 chr12 - chr12:49335361-49351092;chr12:49349981-49351092;chr12:49332631-49351092 chr12:49350319-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 32.45 N alternative_donor CUFF.325 chr13 + chr13:51805516-51825603 chr13:51819556-51825603 chr13:51805516-51819555 chr13:51805515-51805516 0.00 K intron_retention CUFF.700 chr19 - chr19:41937794-41938219 chr19:41937793-41937794;chr19:41938219-41938220 92.90 N mutually_exclusive CUFF.382 chr15 + chr15:24820151-24832713,chr15:24832883-24869114 chr15:24820151-24825373,chr15:24825478-24869114 chr15:24832714-24832882 chr15:24825374-24825477 89.17 K alternative_first_exon CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54621767-54636823 chr7:54617527-54617863 chr7:54621691-54621766 2.59 N jcn_only_AD CUFF.355 chr14 - chr14:75138187-75139533 chr14:75138187-75138671 chr14:75138672-75139533 chr14:75139533-75139534 10.00 N jcn_only_AD CUFF.583 chr17 - chr17:56083889-56084304 chr17:56083889-56084267 chr17:56084268-56084304 chr17:56084304-56084305 9.82 N jcn_only_AA CUFF.528 chr17 - chr17:1616350-1617149;chr17:1616199-1617149;chr17:1616190-1617149;chr17:1615941-1617149 chr17:1615694-1617149 chr17:1615694-1615940;chr17:1615941-1616189;chr17:1616190-1616198;chr17:1616199-1616349 chr17:1615693-1615694;chr17:1615940-1615941;chr17:1616189-1616190;chr17:1616198-1616199 31.15 N alternative_donor CUFF.607 chr17 + chr17:80436795-80438957 chr17:80438421-80438957 chr17:80436795-80438420 chr17:80436794-80436795 4.70 N alternative_acceptor chr16 + chr16:14020614-14021978 chr16:14020614-14021884 chr16:14021885-14021978 chr16:14021978-14021979 45.16 N alternative_acceptor chr19 + chr19:17447967-17448816 chr19:17447967-17448682 chr19:17448683-17448816 chr19:17448816-17448817 92.86 K intron_retention CUFF.72 chr1 - chr1:156914990-156915836 chr1:156914989-156914990;chr1:156915836-156915837 25.00 K intron_retention CUFF.602 chr17 - chr17:79478135-79478213 chr17:79478134-79478135;chr17:79478213-79478214 31.19 N jcn_only_AD CUFF.988 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 2.80 K alternative_first_exon CUFF.162 chr10 - chr10:119774622-119798482 chr10:119774622-119793492 chr10:119798483-119798951 chr10:119793493-119793519 27.78 K alternative_acceptor CUFF.63 chr1 - chr1:151149508-151150476 chr1:151149541-151150476 chr1:151149508-151149540 chr1:151149507-151149508 11.03 N cassette CUFF.1330 chr9 + chr9:34989829-34993196 chr9:34989829-34990495;chr9:34990609-34993196 chr9:34990496-34990608 70.67 N alternative_acceptor CUFF.830,CUFF.844 chr2 + chr2:191362446-191364740 chr2:191362446-191364557 chr2:191364558-191364740 chr2:191364740-191364741 1.03 N jcn_only_AA CUFF.1175 chr6 - chr6:128330411-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128383570-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 23.58 N coord_cassette CUFF.991 chr3 - chr3:141724387-141868024 chr3:141724387-141811902;chr3:141811970-141820576;chr3:141820684-141868024 chr3:141811903-141811969;chr3:141820577-141820683 91.23 N coord_cassette CUFF.603 chr17 - chr17:79891253-79892801 chr17:79891253-79892201;chr17:79892366-79892528;chr17:79892622-79892801 chr17:79892202-79892365;chr17:79892529-79892621 64.10 N intron_retention chr11 - chr11:10827558-10828801 chr11:10827557-10827558;chr11:10828801-10828802 79.05 K jcn_only_AD CUFF.533 chr17 - chr17:5436305-5436623 chr17:5436305-5436611 chr17:5436612-5436623 chr17:5436623-5436624 3.05 K alternative_first_exon CUFF.602 chr17 - chr17:79478653-79478928 chr17:79478653-79478788 chr17:79478929-79479168 chr17:79478789-79478810 9.05 K alternative_last_exon CUFF.1417 chrX + chrX:133632715-133654511 chrX:133632715-133634059 chrX:133654512-133654542 chrX:133634060-133634698 62.50 K intron_retention CUFF.235 chr11 + chr11:118403177-118404571 chr11:118403176-118403177;chr11:118404571-118404572 4.75 N alternative_acceptor CUFF.872 chr20 - chr20:31097744-31099149;chr20:31062546-31099149 chr20:31074605-31099149 chr20:31062546-31074604;chr20:31074605-31097743 chr20:31062545-31062546;chr20:31074604-31074605 2.33 K cassette CUFF.595 chr17 - chr17:66268909-66274229 chr17:66268909-66270067;chr17:66270212-66274229 chr17:66270068-66270211 94.01 N alternative_last_exon CUFF.951 chr3 - chr3:49349088-49355741 chr3:49354912-49355741 chr3:49348947-49349087 chr3:49354538-49354911 53.85 K cassette CUFF.16 chr1 - chr1:16894526-16899636 chr1:16894526-16895567;chr1:16895732-16899636 chr1:16895568-16895731 84.52 K intron_retention CUFF.419 chr15 + chr15:64444942-64445443 chr15:64444941-64444942;chr15:64445443-64445444 23.16 N alternative_acceptor CUFF.967 chr3 - chr3:107559252-107560951 chr3:107560867-107560951 chr3:107559252-107560866 chr3:107559251-107559252 21.25 N alternative_acceptor CUFF.935 chr3 + chr3:28357915-28358243;chr3:28357915-28360999 chr3:28357915-28360222 chr3:28358244-28360222;chr3:28360223-28360999 chr3:28360222-28360223;chr3:28360999-28361000 8.30 K intron_retention CUFF.342 chr14 + chr14:50246394-50246465 chr14:50246393-50246394;chr14:50246465-50246466 82.18 N jcn_only_AD CUFF.547 chr17 + chr17:17380580-17394592 chr17:17388748-17394592 chr17:17380580-17388747 chr17:17380579-17380580 79.17 K intron_retention CUFF.493 chr16 + chr16:21712349-21716489 chr16:21712348-21712349;chr16:21716489-21716490 5.05 N alternative_donor CUFF.1158 chr6 + chr6:46623772-46626698 chr6:46626266-46626698 chr6:46623772-46626265 chr6:46623771-46623772 5.88 K intron_retention CUFF.929 chr3 + chr3:13976988-13977417 chr3:13976987-13976988;chr3:13977417-13977418 41.18 K cassette CUFF.733 chr19 - chr19:56307617-56312937 chr19:56307617-56309594;chr19:56309671-56312937 chr19:56309595-56309670 13.64 N jcn_only_AA CUFF.110 chr1 - chr1:247323116-247335149 chr1:247323170-247335149 chr1:247323116-247323169 chr1:247323115-247323116 26.19 N cassette CUFF.626 chr18 - chr18:44435579-44470542 chr18:44435579-44444126;chr18:44444212-44470542 chr18:44444127-44444211 38.70 N alternative_acceptor chr19 + chr19:17448474-17448816;chr19:17448474-17448682 chr19:17448474-17448707 chr19:17448683-17448707;chr19:17448708-17448816 chr19:17448707-17448708;chr19:17448816-17448817 58.64 K alternative_donor CUFF.903 chr22 + chr22:21058329-21058475 chr22:21058345-21058475 chr22:21058329-21058344 chr22:21058328-21058329 22.55 N alternative_first_exon CUFF.700 chr19 - chr19:41944320-41946385;chr19:41944320-41945378 chr19:41944320-41945786 chr19:41946386-41946714;chr19:41945379-41945489 chr19:41945787-41945815 78.75 K cassette CUFF.1373 chr9 + chr9:139744590-139745206 chr9:139744590-139744954;chr9:139745013-139745206 chr9:139744955-139745012 39.07 K coord_cassette CUFF.140 chr10 + chr10:70679738-70695761 chr10:70679738-70693954;chr10:70694117-70694554;chr10:70694675-70695761 chr10:70693955-70694116;chr10:70694555-70694674 26.98 K intron_retention CUFF.1132 chr6 - chr6:5104185-5108785 chr6:5104184-5104185;chr6:5108785-5108786 54.29 N jcn_only_AA CUFF.674 chr19 - chr19:14847057-14854231 chr19:14852899-14854231 chr19:14847057-14852898 chr19:14847056-14847057 3.91 K intron_retention CUFF.299 chr12 + chr12:69236305-69237543 chr12:69236304-69236305;chr12:69237543-69237544 79.66 K jcn_only_AD CUFF.27 chr1 + chr1:28655636-28657107 chr1:28655692-28657107 chr1:28655636-28655691 chr1:28655635-28655636 64.37 N intron_retention chr18 - chr18:44483597-44486189 chr18:44483596-44483597;chr18:44486189-44486190 56.00 N alternative_last_exon CUFF.1156 chr6 - chr6:41462632-41513826 chr6:41491964-41513826 chr6:41462591-41462631 chr6:41491633-41491963 94.62 N alternative_acceptor CUFF.980 chr3 + chr3:122843191-122864368 chr3:122843191-122849326 chr3:122849327-122864368 chr3:122864368-122864369 19.05 N cassette CUFF.1016 chr4 - chr4:3945100-3954837 chr4:3945100-3949816;chr4:3949948-3954837 chr4:3949817-3949947 95.49 N jcn_only_AD CUFF.1150 chr6 + chr6:33240504-33243573 chr6:33243435-33243573 chr6:33240504-33243434 chr6:33240503-33240504 33.68 N intron_retention CUFF.210 chr11 + chr11:65479751-65479820 chr11:65479750-65479751;chr11:65479820-65479821 48.48 N alternative_acceptor CUFF.202 chr11 - chr11:61517215-61523106 chr11:61521918-61523106 chr11:61517215-61521917 chr11:61517214-61517215 21.05 N jcn_only_AA CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960048-102962412 chr11:102960039-102960047 chr11:102960038-102960039 62.20 K intron_retention CUFF.537 chr17 + chr17:6353393-6353681 chr17:6353392-6353393;chr17:6353681-6353682 12.09 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 94.04 N alternative_acceptor CUFF.911 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 92.50 K alternative_last_exon CUFF.1057 chr4 + chr4:124750343-124846338 chr4:124750343-124784729 chr4:124846339-124846492 chr4:124784730-124784940 43.51 N jcn_only_AA CUFF.114 chr10 + chr10:5077809-5138601 chr10:5077809-5120061 chr10:5120062-5138601 chr10:5138601-5138602 73.77 N cassette CUFF.967 chr3 - chr3:107576050-107591814 chr3:107576050-107586157;chr3:107586425-107591814 chr3:107586158-107586424 59.03 N alternative_acceptor CUFF.182 chr11 + chr11:3424187-3427728 chr11:3424187-3424822 chr11:3424823-3427728 chr11:3427728-3427729 0.00 N jcn_only_AD CUFF.383 chr15 + chr15:25223466-25225093 chr15:25224790-25225093 chr15:25223466-25224789 chr15:25223465-25223466 12.31 N alternative_donor CUFF.1378 chrX - chrX:9130946-9132573;chrX:9130946-9131117 chrX:9130946-9132333 chrX:9131118-9132333;chrX:9132334-9132573 chrX:9132333-9132334;chrX:9132573-9132574 64.52 N cassette CUFF.1177 chr6 - chr6:133046119-133049879;chr6:133046119-133055391 chr6:133046119-133047860;chr6:133048152-133049879,chr6:133048152-133055391 chr6:133047861-133048151 78.86 N alternative_donor CUFF.587 chr17 + chr17:61560051-61560820 chr17:61560535-61560820 chr17:61560051-61560534 chr17:61560050-61560051 22.22 N jcn_only_AA CUFF.355 chr14 - chr14:75136830-75137464 chr14:75136846-75137464 chr14:75136830-75136845 chr14:75136829-75136830 13.24 N alternative_donor chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 15.79 N jcn_only_AA chr11 + chr11:61583899-61605249 chr11:61583899-61593503 70.59 N jcn_only_AA chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 18.75 K intron_retention CUFF.593 chr17 + chr17:61904884-61907492 chr17:61904883-61904884;chr17:61907492-61907493 chr17:61904778-61904883;chr17:61907493-61907549 68.99 N alternative_donor CUFF.935 chr3 + chr3:28283304-28304781;chr3:28283393-28304781 chr3:28295257-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 3.85 N alternative_acceptor CUFF.1175 chr6 - chr6:128320050-128324341 chr6:128322353-128324341 chr6:128320050-128322352 chr6:128320049-128320050 16.33 K alternative_acceptor CUFF.392 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 67.65 K jcn_only_AD CUFF.1100,CUFF.1117 chr5 - chr5:141050196-141050891 chr5:141050196-141050831 chr5:141050832-141050891 chr5:141050891-141050892 93.15 N alternative_donor CUFF.5 chr1 + chr1:2106753-2116021 chr1:2113354-2116021 chr1:2106753-2113353 chr1:2106752-2106753 1.32 N intron_retention chr1 + chr1:110211994-110212257 chr1:110211993-110211994;chr1:110212257-110212258 62.86 N jcn_only_AA CUFF.528 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 1.17 K intron_retention CUFF.1361 chr9 - chr9:125627821-125627902 chr9:125627820-125627821;chr9:125627902-125627903 22.22 N mutually_exclusive CUFF.956 chr3 - chr3:57563115-57570110,chr3:57570192-57582800 chr3:57563115-57569624,chr3:57569735-57582800 chr3:57570111-57570191 chr3:57569625-57569734 73.53 N cassette CUFF.1017 chr4 - chr4:6087357-6114448 chr4:6087357-6107199;chr4:6107695-6114448 chr4:6107200-6107694 81.20 K alternative_last_exon CUFF.478 chr16 - chr16:4407261-4408367 chr16:4408105-4408367 chr16:4407169-4407260 chr16:4407392-4408104 82.95 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5260880;chr6:5109726-5144371;chr6:5109726-5132951 chr6:5109726-5113304 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 8.91 K cassette CUFF.1305 chr8 - chr8:99055004-99057574 chr8:99055004-99057170;chr8:99057317-99057574 chr8:99057171-99057316 55.77 N alternative_acceptor CUFF.1333 chr9 + chr9:43818185-43822517 chr9:43818185-43819609 chr9:43819610-43822517 chr9:43822517-43822518 29.41 K alternative_last_exon CUFF.116 chr10 + chr10:6270182-6271071;chr10:6270182-6274857 chr10:6270182-6273225 chr10:6274858-6277495 chr10:6273226-6273275 17.21 N jcn_only_AD chr11 + chr11:36475657-36483891;chr11:36476997-36483891 chr11:36476369-36483891 87.80 K intron_retention CUFF.695 chr19 - chr19:39924210-39924304 chr19:39924209-39924210;chr19:39924304-39924305 8.89 K alternative_acceptor CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 87.13 K cassette CUFF.870 chr20 + chr20:30154099-30156922 chr20:30154099-30155880;chr20:30156084-30156922 chr20:30155881-30156083 19.31 K intron_retention CUFF.397 chr15 + chr15:41222881-41223700 chr15:41222880-41222881;chr15:41223700-41223701 53.23 K intron_retention CUFF.596 chr17 + chr17:66511261-66511534 chr17:66511260-66511261;chr17:66511534-66511535 chr17:66511128-66511260;chr17:66511535-66511717 24.07 N jcn_only_AA CUFF.601 chr17 - chr17:79355741-79358928;chr17:79354385-79358928 chr17:79358833-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 18.70 K cassette CUFF.911 chr22 + chr22:29669854-29674018 chr22:29669854-29670253;chr22:29670272-29674018 chr22:29670254-29670271 33.69 K coord_cassette CUFF.860 chr20 + chr20:2840454-2841094 chr20:2840454-2840699;chr20:2840798-2840884;chr20:2841014-2841094 chr20:2840700-2840797;chr20:2840885-2841013 51.28 K intron_retention CUFF.223 chr11 - chr11:94704230-94704538 chr11:94704229-94704230;chr11:94704538-94704539 26.28 N alternative_acceptor CUFF.596 chr17 + chr17:66519068-66519865 chr17:66519068-66519854 chr17:66519855-66519865 chr17:66519865-66519866 chr17:66518897-66519067;chr17:66519866-66519957 1.26 K intron_retention chr17 + chr17:79890661-79890871 chr17:79890660-79890661;chr17:79890871-79890872 93.67 K intron_retention CUFF.76 chr1 + chr1:160137203-160141040 chr1:160137202-160137203;chr1:160141040-160141041 21.43 N cassette CUFF.626 chr18 - chr18:44471018-44500021 chr18:44471018-44483489;chr18:44483597-44500021 chr18:44483490-44483596 93.62 K alternative_first_exon CUFF.1324 chr8 + chr8:144818109-144822028 chr8:144821674-144822028 chr8:144818020-144818108 chr8:144821538-144821673 73.17 K intron_retention ENSG00000261505.1 chr16 - chr16:1370460-1372488 chr16:1370459-1370460;chr16:1372488-1372489 13.64 N alternative_donor CUFF.496 chr16 + chr16:22448814-22462940 chr16:22449059-22462940 chr16:22448814-22449058 chr16:22448813-22448814 5.95 K alternative_last_exon CUFF.110 chr1 - chr1:247320706-247322307;chr1:247320520-247322307;chr1:247287174-247322307 chr1:247302060-247322307 chr1:247319720-247320519;chr1:247285277-247287173 chr1:247302021-247302059 3.43 N alternative_acceptor CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1440024;chr19:1438892-1439966 chr19:1438892-1439959 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 1.32 K intron_retention CUFF.75 chr1 - chr1:158587847-158589011 chr1:158587846-158587847;chr1:158589011-158589012 54.55 K alternative_first_exon CUFF.1417 chrX + chrX:133594369-133607388 chrX:133594566-133607388 chrX:133594107-133594368 chrX:133594380-133594565 87.50 K cassette CUFF.941 chr3 - chr3:33602464-33612218 chr3:33602464-33605455;chr3:33605459-33612218 chr3:33605456-33605458 40.00 N alternative_donor CUFF.1271 chr8 + chr8:17434266-17434644 chr8:17434270-17434644 chr8:17434266-17434269 chr8:17434265-17434266 86.90 K cassette CUFF.1093 chr5 - chr5:60198336-60214091 chr5:60198336-60199474;chr5:60199544-60214091 chr5:60199475-60199543 79.70 K coord_cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77887933;chr11:77888032-77888784;chr11:77889032-77899618 chr11:77887934-77888031;chr11:77888785-77889031 95.00 K alternative_first_exon CUFF.1133 chr6 - chr6:13470863-13486242;chr6:13470863-13486869 chr6:13470863-13472212 chr6:13486243-13486486;chr6:13486870-13486935 chr6:13472213-13472329 33.33 K alternative_acceptor CUFF.1304 chr8 + chr8:98817693-98827555 chr8:98817693-98827531 chr8:98827532-98827555 chr8:98827555-98827556 7.42 K cassette CUFF.122 chr10 - chr10:27112235-27149675 chr10:27112235-27128661;chr10:27128713-27149675 chr10:27128662-27128712 17.47 K cassette CUFF.1381 chrX - chrX:13825889-13834962 chrX:13825889-13830989;chrX:13831028-13834962 chrX:13830990-13831027 79.46 K alternative_donor CUFF.155 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 87.72 N jcn_only_AA CUFF.1321 chr8 + chr8:144351691-144356873;chr8:144351691-144356889 chr8:144351691-144354565 5.74 K intron_retention CUFF.680 chr19 + chr19:17449836-17449931 chr19:17449835-17449836;chr19:17449931-17449932 33.19 N alternative_acceptor CUFF.71 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 0.00 K alternative_donor CUFF.923 chr22 + chr22:47188660-47189397 chr22:47188702-47189397 chr22:47188660-47188701 chr22:47188659-47188660 25.00 N intron_retention chr22 - chr22:51018232-51018402 chr22:51018231-51018232;chr22:51018402-51018403 55.81 N intron_retention chr1 - chr1:153925127-153925280 chr1:153925126-153925127;chr1:153925280-153925281 93.57 K cassette CUFF.86 chr1 - chr1:169698815-169700975 chr1:169698815-169699572;chr1:169699759-169700975 chr1:169699573-169699758 98.22 K mutually_exclusive CUFF.1033 chr4 - chr4:56466743-56473464,chr4:56473516-56473603 chr4:56466743-56471441,chr4:56471517-56473603 chr4:56473465-56473515 chr4:56471442-56471516 50.31 N cassette CUFF.342 chr14 + chr14:50247494-50249259 chr14:50247494-50249087;chr14:50249176-50249259 chr14:50249088-50249175 89.29 N intron_retention chr17 - chr17:650523-650784 chr17:650522-650523;chr17:650784-650785 87.34 K cassette CUFF.191 chr11 - chr11:8496614-8615290 chr11:8496614-8602360;chr11:8602508-8615290 chr11:8602361-8602507 90.91 K intron_retention CUFF.471 chr16 + chr16:2203224-2203578 chr16:2203223-2203224;chr16:2203578-2203579 87.80 K intron_retention chr4 - chr4:83816001-83816844 chr4:83816000-83816001;chr4:83816844-83816845 8.00 K cassette CUFF.911 chr22 + chr22:29669854-29674018 chr22:29669854-29670256;chr22:29670272-29674018 chr22:29670257-29670271 20.00 K cassette CUFF.226 chr11 - chr11:102933144-102936997 chr11:102933144-102935003;chr11:102935107-102936997 chr11:102935004-102935106 89.63 K alternative_first_exon CUFF.645 chr18 - chr18:76737430-76738785,chr18:76737430-76738462 chr18:76737430-76737554 chr18:76738786-76738843 chr18:76737555-76737895 34.97 K cassette CUFF.1383 chrX - chrX:15344169-15353622 chrX:15344169-15349711;chrX:15350115-15353622 chrX:15349712-15350114 98.07 K alternative_first_exon CUFF.839 chr2 - chr2:208030431-208030636;chr2:208030431-208031717 chr2:208030431-208031480 chr2:208030637-208030715;chr2:208031718-208032063 chr2:208031481-208031566 7.58 N jcn_only_AD CUFF.821 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 16.95 N alternative_acceptor CUFF.1129 chr6 + chr6:2988266-2989761 chr6:2988266-2988661 chr6:2988662-2989761 chr6:2989761-2989762 65.33 K coord_cassette CUFF.824 chr2 - chr2:175779900-175816891 chr2:175779900-175783261;chr2:175783294-175809615;chr2:175809672-175816891 chr2:175783262-175783293;chr2:175809616-175809671 92.54 N intron_retention CUFF.1362 chr9 - chr9:130941184-130941351 chr9:130941183-130941184;chr9:130941351-130941352 95.15 N alternative_acceptor chr17 - chr17:79994890-79995325 chr17:79994965-79995325 chr17:79994890-79994964 chr17:79994889-79994890 29.00 N jcn_only_AA CUFF.639 chr18 + chr18:12658343-12658572 chr18:12658343-12658549 chr18:12658550-12658572 chr18:12658572-12658573 81.19 N intron_retention chrX - chrX:134257303-134257418 chrX:134257302-134257303;chrX:134257418-134257419 91.18 N jcn_only_AA CUFF.243 chr11 - chr11:119291097-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291089-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 10.14 K alternative_last_exon CUFF.113 chr10 - chr10:356033-372945 chr10:370960-372945 chr10:355971-356032 chr10:370577-370959 chr10:372946-373116 81.91 K alternative_first_exon CUFF.1364 chr9 - chr9:131484854-131486272 chr9:131484854-131486230 chr9:131486273-131486489 chr9:131486231-131486256 22.62 K intron_retention CUFF.206 chr11 - chr11:62365614-62365798 chr11:62365613-62365614;chr11:62365798-62365799 50.53 N jcn_only_AA CUFF.618 chr18 + chr18:55711941-56057877 chr18:55711941-55833019 57.36 N alternative_acceptor CUFF.388,CUFF.428 chr15 + chr15:74771620-74773391 chr15:74771620-74772961 chr15:74772962-74773391 chr15:74773391-74773392 47.83 N alternative_acceptor chr18 + chr18:14808579-14822603 chr18:14808579-14808670 chr18:14808671-14822603 chr18:14822603-14822604 33.33 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66678944;chr15:66645294-66678757 chr15:66645294-66648976 chr15:66678945-66679143;chr15:66678758-66678943 chr15:66648977-66649054 17.10 K intron_retention CUFF.715 chr19 + chr19:50305857-50306205 chr19:50305856-50305857;chr19:50306205-50306206 10.42 K jcn_only_AD CUFF.1197 chr7 + chr7:6641772-6647590 chr7:6647229-6647590 29.41 K cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49349880;chr12:49350319-49351092 chr12:49349881-49350318 91.57 N alternative_acceptor chrX + chrX:15693092-15782700 chrX:15693092-15706783 chrX:15706784-15782700 chrX:15782700-15782701 0.00 N cassette CUFF.1222 chr7 + chr7:73101426-73106925;chr7:73101231-73106925 chr7:73101231-73105245,chr7:73101426-73105245;chr7:73105343-73106925 chr7:73105246-73105342 77.55 N alternative_donor chr11 + chr11:74624828-74630577;chr11:74630071-74630577 chr11:74622471-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 86.36 K alternative_first_exon CUFF.940,CUFF.967 chr3 - chr3:33467234-33482168 chr3:33467234-33481227 chr3:33482169-33482415 chr3:33481228-33481870 66.67 K cassette CUFF.488 chr16 + chr16:14031716-14038579 chr16:14031716-14037830;chr16:14037953-14038579 chr16:14037831-14037952 76.92 N intron_retention chr19 + chr19:17448474-17448816 chr19:17448473-17448474;chr19:17448816-17448817 48.57 K cassette CUFF.707 chr19 + chr19:45251386-45254483 chr19:45251386-45251951;chr19:45252304-45254483 chr19:45251952-45252303 84.62 K alternative_first_exon CUFF.235 chr11 + chr11:118402317-118402489;chr11:118401950-118402489 chr11:118402242-118402489 chr11:118401756-118401949 chr11:118402241-118402241 1.77 K intron_retention CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135409-30135410;chr20:30136479-30136480 81.48 N jcn_only_AA CUFF.818 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 3.12 N jcn_only_AA CUFF.1175 chr6 - chr6:128383570-128385902;chr6:128330414-128385902;chr6:128384671-128385902 chr6:128330411-128385902 chr6:128330411-128330413;chr6:128330414-128383569;chr6:128383570-128384670 chr6:128330410-128330411;chr6:128330413-128330414;chr6:128383569-128383570 13.93 N alternative_donor chr5 - chr5:127398193-127418661 chr5:127398193-127418426 chr5:127418427-127418661 chr5:127418661-127418662 90.09 N intron_retention chr4 - chr4:99405593-99407888 chr4:99405592-99405593;chr4:99407888-99407889 75.93 K alternative_donor CUFF.1367 chr9 + chr9:133355188-133355771 chr9:133355287-133355771 chr9:133355188-133355286 chr9:133355187-133355188 32.19 K alternative_donor CUFF.1067 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 61.11 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 4.90 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 25.25 N jcn_only_AA chr2 + chr2:680152-696540 chr2:680152-681255 chr2:681256-696540 chr2:696540-696541 46.15 K jcn_only_AA CUFF.308 chr12 - chr12:113646065-113658801 chr12:113646315-113658801 chr12:113646065-113646314 chr12:113646064-113646065 29.84 K alternative_donor CUFF.453 chr15 + chr15:91290721-91292596 chr15:91290892-91292596 chr15:91290721-91290891 chr15:91290720-91290721 81.82 N alternative_donor CUFF.1104 chr5 + chr5:129019967-129030412 chr5:129023908-129030412 chr5:129019967-129023907 chr5:129019966-129019967 50.00 K alternative_last_exon CUFF.108,CUFF.92 chr1 + chr1:245246991-245250034,chr1:245246991-245250061,chr1:245246991-245254328,chr1:245246991-245285221;chr1:245246991-245254795 chr1:245246991-245250546 chr1:245254796-245255091 chr1:245250547-245251133 53.70 K alternative_first_exon CUFF.906 chr22 + chr22:24698353-24709280 chr22:24700421-24709280 chr22:24698163-24698352 chr22:24700339-24700420 24.78 N jcn_only_AA chr14 - chr14:104224089-104245081;chr14:104230817-104245081 chr14:104225643-104245081 46.88 K alternative_donor CUFF.579 chr17 + chr17:46990328-46993437 chr17:46990384-46993437 chr17:46990328-46990383 chr17:46990327-46990328 19.44 N cassette CUFF.373 chr14 - chr14:104212891-104213269 chr14:104212891-104212988;chr14:104213110-104213269 chr14:104212989-104213109 80.88 K intron_retention CUFF.31 chr1 - chr1:32827478-32827558 chr1:32827477-32827478;chr1:32827558-32827559 4.05 N cassette CUFF.1146 chr6 + chr6:32121414-32122363 chr6:32121414-32121972;chr6:32122024-32122363 chr6:32121973-32122023 13.73 N jcn_only_AD CUFF.52 chr1 + chr1:110211106-110211546 chr1:110211123-110211546 chr1:110211106-110211122 chr1:110211105-110211106 76.72 N alternative_acceptor chr11 + chr11:119056338-119056630 chr11:119056338-119056557 chr11:119056558-119056630 chr11:119056630-119056631 63.64 K intron_retention CUFF.471 chr16 + chr16:2203047-2203146 chr16:2203046-2203047;chr16:2203146-2203147 7.09 N jcn_only_AA chr17 + chr17:66526143-66547224 chr17:66526143-66526417 chr17:66526418-66547224 chr17:66547224-66547225 96.83 N jcn_only_AA CUFF.309 chr12 - chr12:120156622-120158282 chr12:120156667-120158282 chr12:120156622-120156666 chr12:120156621-120156622 12.00 K cassette CUFF.1197 chr7 + chr7:6641772-6647167 chr7:6641772-6642294;chr7:6642384-6647167 chr7:6642295-6642383 25.71 N jcn_only_AA chr17 + chr17:80416707-80417875 chr17:80416707-80417867 chr17:80417868-80417875 chr17:80417875-80417876 87.97 N cassette CUFF.967 chr3 - chr3:107586273-107594976;chr3:107586425-107596748 chr3:107586425-107591814,chr3:107586273-107591814;chr3:107591874-107594976,chr3:107591874-107596748 chr3:107591815-107591873 79.34 K alternative_donor CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261731-45261980 chr19:45261671-45261730 chr19:45261670-45261671 49.09 N jcn_only_AD CUFF.437 chr15 + chr15:77713080-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 55.96 N alternative_donor CUFF.980 chr3 + chr3:122786054-122808014 chr3:122786423-122808014 chr3:122786054-122786422 chr3:122786053-122786054 8.51 N alternative_donor CUFF.537 chr17 + chr17:6349508-6350782;chr17:6348725-6350782 chr17:6348663-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 31.13 N alternative_acceptor CUFF.528 chr17 - chr17:1615694-1616996;chr17:1616190-1616996;chr17:1616350-1616996;chr17:1616199-1616996 chr17:1616220-1616996 chr17:1615694-1616189;chr17:1616190-1616198;chr17:1616199-1616219;chr17:1616220-1616349 chr17:1615693-1615694;chr17:1616189-1616190;chr17:1616198-1616199;chr17:1616219-1616220 11.68 N alternative_donor CUFF.650 chr19 + chr19:4306039-4306194 chr19:4306067-4306194 chr19:4306039-4306066 chr19:4306038-4306039 3.89 N alternative_donor CUFF.204 chr11 + chr11:61560501-61593503 chr11:61583899-61593503 chr11:61560501-61583898 chr11:61560500-61560501 0.00 N alternative_acceptor chr12 - chr12:22610096-22612425;chr12:22611520-22612425 chr12:22611490-22612425 chr12:22610096-22611489;chr12:22611490-22611519 chr12:22610095-22610096;chr12:22611489-22611490 31.03 K cassette CUFF.1215 chr7 + chr7:44247798-44251845 chr7:44247798-44250621;chr7:44250724-44251845 chr7:44250622-44250723 18.18 N jcn_only_AD CUFF.1175 chr6 - chr6:128561296-128563665 chr6:128561296-128562367 chr6:128562368-128563665 chr6:128563665-128563666 35.71 N jcn_only_AD CUFF.473 chr16 + chr16:3115496-3115781;chr16:3115689-3115781 chr16:3115712-3115781 chr16:3115496-3115688;chr16:3115689-3115711 chr16:3115495-3115496;chr16:3115688-3115689 chr16:3115782-3115827;chr16:3115230-3115495 8.45 K cassette CUFF.126 chr10 - chr10:35299371-35302626 chr10:35299371-35300775;chr10:35300893-35302626 chr10:35300776-35300892 46.32 N jcn_only_AA CUFF.243 chr11 - chr11:119291089-119291578;chr11:119291046-119291578;chr11:119291159-119291578 chr11:119291097-119291578 chr11:119291046-119291088;chr11:119291089-119291096;chr11:119291097-119291158 chr11:119291045-119291046;chr11:119291088-119291089;chr11:119291096-119291097 44.93 N jcn_only_AD CUFF.758 chr2 + chr2:38224658-38231133 chr2:38230170-38231133 chr2:38224658-38230169 chr2:38224657-38224658 6.14 K alternative_last_exon CUFF.1353 chr9 + chr9:116791253-116794927,chr9:116791253-116794924 chr9:116791253-116793083 chr9:116794928-116795008 chr9:116793084-116793160 10.81 N intron_retention chr17 + chr17:29685641-29685986 chr17:29685640-29685641;chr17:29685986-29685987 15.91 K cassette CUFF.1117 chr5 - chr5:141041357-141044488 chr5:141041357-141041609;chr5:141041823-141044488 chr5:141041610-141041822 92.71 N alternative_donor CUFF.721 chr19 - chr19:11541841-11546510 chr19:11541841-11545593 chr19:11545594-11546510 chr19:11546510-11546511 16.39 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106427235-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 23.94 N jcn_only_AA CUFF.357,CUFF.369 chr14 + chr14:92922953-92949023 chr14:92922953-92923597 chr14:92923598-92949023 chr14:92949023-92949024 5.15 K alternative_last_exon CUFF.539 chr17 - chr17:15472345-15496650 chr17:15492542-15496650 chr17:15472205-15472344 chr17:15492326-15492541 50.76 N jcn_only_AD CUFF.541 chr17 - chr17:15584268-15584364;chr17:15584268-15586174 chr17:15584268-15586167 chr17:15584365-15586167;chr17:15586168-15586174 chr17:15586167-15586168;chr17:15586174-15586175 87.08 N coord_cassette CUFF.350 chr14 + chr14:61451522-61497162 chr14:61451522-61453769;chr14:61453876-61482621;chr14:61482675-61486258;chr14:61486299-61497162 chr14:61453770-61453875;chr14:61482622-61482674;chr14:61486259-61486298 83.72 N cassette CUFF.214 chr11 + chr11:67786725-67788953 chr11:67786725-67787183;chr11:67787266-67788953 chr11:67787184-67787265 97.35 K alternative_donor CUFF.645 chr18 - chr18:76737430-76738785 chr18:76737430-76738462 chr18:76738463-76738785 chr18:76738785-76738786 81.07 N alternative_acceptor CUFF.670 chr19 + chr19:11888553-11889144 chr19:11888553-11888930 chr19:11888931-11889144 chr19:11889144-11889145 77.78 K intron_retention CUFF.618 chr18 + chr18:12658205-12658572 chr18:12658204-12658205;chr18:12658572-12658573 10.31 K alternative_last_exon CUFF.697 chr19 - chr19:40909770-40913812 chr19:40913627-40913812 chr19:40909613-40909769 chr19:40913362-40913626 93.75 K intron_retention CUFF.1125 chr5 - chr5:178030936-178032303 chr5:178030935-178030936;chr5:178032303-178032304 40.82 K alternative_acceptor CUFF.835 chr2 - chr2:204354810-204355936 chr2:204354813-204355936 chr2:204354810-204354812 chr2:204354809-204354810 81.08 N cassette CUFF.1333 chr9 + chr9:43908524-43915825 chr9:43908524-43915359;chr9:43915591-43915825 chr9:43915360-43915590 25.00 N jcn_only_AD CUFF.596 chr17 + chr17:66524042-66525010 chr17:66524861-66525010 chr17:66524042-66524860 chr17:66524041-66524042 2.33 K alternative_first_exon CUFF.121,CUFF.146 chr10 - chr10:76287751-76290264 chr10:76287751-76289050 chr10:76290265-76290352 chr10:76289051-76289135 66.23 N coord_cassette CUFF.518 chr16 + chr16:70390151-70398919 chr16:70390151-70395320;chr16:70395414-70398445;chr16:70398549-70398919 chr16:70395321-70395413;chr16:70398446-70398548 87.50 K jcn_only_AA CUFF.326 chr13 + chr13:52028466-52034807 chr13:52028466-52034620 chr13:52034621-52034807 chr13:52034807-52034808 18.11 K jcn_only_AA CUFF.33 chr1 - chr1:41483652-41485897 chr1:41483829-41485897 chr1:41483652-41483828 chr1:41483651-41483652 87.13 K alternative_first_exon CUFF.1313 chr8 + chr8:107371865-107531170 chr8:107460277-107531170 chr8:107371704-107371864 chr8:107460120-107460276 40.00 N alternative_acceptor CUFF.528 chr17 - chr17:1617309-1617664 chr17:1617340-1617664 chr17:1617309-1617339 chr17:1617308-1617309 0.97 N alternative_donor CUFF.1163 chr6 + chr6:90338943-90340151 chr6:90338958-90340151 chr6:90338943-90338957 chr6:90338942-90338943 75.00 N intron_retention chr2 - chr2:86398469-86400772 chr2:86398468-86398469;chr2:86400772-86400773 68.29 K cassette CUFF.1404 chrX - chrX:100170073-100182958 chrX:100170073-100177781;chrX:100178051-100182958 chrX:100177782-100178050 67.86 K intron_retention CUFF.856 chr2 - chr2:242438830-242439587 chr2:242438829-242438830;chr2:242439587-242439588 20.76 N alternative_donor CUFF.1163 chr6 + chr6:90326377-90327672 chr6:90326676-90327672 chr6:90326377-90326675 chr6:90326376-90326377 6.96 K jcn_only_AD CUFF.724 chr19 - chr19:51537396-51537840 chr19:51537396-51537680 chr19:51537681-51537840 chr19:51537840-51537841 80.42 N coord_cassette CUFF.958 chr3 - chr3:71743093-71759562 chr3:71743093-71745610;chr3:71745672-71748764;chr3:71748860-71759562 chr3:71745611-71745671;chr3:71748765-71748859 81.58 N alternative_donor CUFF.1208 chr7 - chr7:22357657-22396448 chr7:22357657-22395596 chr7:22395597-22396448 chr7:22396448-22396449 77.03 N jcn_only_AA CUFF.907 chr22 - chr22:25155957-25158364 chr22:25157929-25158364 chr22:25155957-25157928 chr22:25155956-25155957 10.26 K cassette CUFF.1033 chr4 - chr4:56466743-56473464;chr4:56466743-56473603 chr4:56466743-56471441;chr4:56471517-56473603,chr4:56471517-56473464 chr4:56471442-56471516 65.92 N jcn_only_AD CUFF.870 chr20 + chr20:30115386-30125981 chr20:30115854-30125981 chr20:30115386-30115853 chr20:30115385-30115386 16.90 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 71.53 N jcn_only_AA chr11 - chr11:5687504-5699433 chr11:5691178-5699433 80.00 N jcn_only_AD chr2 - chr2:61764723-61765626 chr2:61764723-61765272 40.00 N alternative_acceptor CUFF.279 chr12 - chr12:49335361-49351092;chr12:49350319-49351092;chr12:49349981-49351092 chr12:49332631-49351092 chr12:49332631-49335360;chr12:49335361-49349980;chr12:49349981-49350318 chr12:49332630-49332631;chr12:49335360-49335361;chr12:49349980-49349981 31.58 K coord_cassette CUFF.1311 chr8 + chr8:106801153-106810951 chr8:106801153-106807983;chr8:106808126-106808996;chr8:106809135-106810951 chr8:106807984-106808125;chr8:106808997-106809134 96.34 N alternative_last_exon CUFF.193 chr11 - chr11:10819429-10823840 chr11:10823757-10823840 chr11:10818597-10819428 chr11:10823596-10823756 69.70 N jcn_only_AA CUFF.650 chr19 + chr19:4304759-4306020;chr19:4304759-4305942 chr19:4304759-4305981 chr19:4305943-4305981;chr19:4305982-4306020 chr19:4305981-4305982;chr19:4306020-4306021 4.67 K intron_retention chr22 + chr22:45244941-45255610 chr22:45244940-45244941;chr22:45255610-45255611 2.94 K mutually_exclusive CUFF.722 chr19 - chr19:51483744-51485582,chr19:51485714-51487106 chr19:51483744-51485022,chr19:51485171-51487106 chr19:51485583-51485713 chr19:51485023-51485170 22.08 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69616147;chr14:69589078-69619660 chr14:69589078-69619205 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 6.68 N intron_retention chr11 - chr11:10828867-10830251 chr11:10828866-10828867;chr11:10830251-10830252 64.25 K jcn_only_AA CUFF.346 chr14 + chr14:59377061-59475751 chr14:59377061-59415030 65.40 N alternative_first_exon CUFF.191,CUFF.213 chr11 - chr11:8502162-8587256;chr11:8502162-8615290 chr11:8502162-8615629 chr11:8587257-8587483;chr11:8615291-8615577 chr11:8615630-8615931 53.91 K intron_retention CUFF.602 chr17 - chr17:79478653-79478788 chr17:79478652-79478653;chr17:79478788-79478789 77.40 K intron_retention CUFF.119 chr10 - chr10:17645648-17645724 chr10:17645647-17645648;chr10:17645724-17645725 3.20 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 43.12 K coord_cassette CUFF.116 chr10 + chr10:6265984-6268154 chr10:6265984-6266111;chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266112-6266176;chr10:6266469-6266586 66.67 N jcn_only_AD CUFF.206 chr11 - chr11:410028-417324;chr11:410028-417293 chr11:410028-414822 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 77.44 K cassette CUFF.113 chr10 - chr10:518490-532398 chr10:518490-530720;chr10:530889-532398 chr10:530721-530888 chr10:518379-518489;chr10:532399-532470 88.10 K intron_retention CUFF.904 chr22 - chr22:21831054-21832078 chr22:21831053-21831054;chr22:21832078-21832079 32.61 N jcn_only_AD CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107253878-107258772 chr7:107256835-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 10.92 K alternative_last_exon CUFF.729 chr19 + chr19:54657578-54657680;chr19:54657578-54659046 chr19:54657578-54658995 chr19:54657681-54658984;chr19:54659047-54659419 chr19:54658996-54658999 9.56 N intron_retention chr2 + chr2:220095073-220096649 chr2:220095072-220095073;chr2:220096649-220096650 68.06 K intron_retention CUFF.528 chr17 - chr17:1616190-1616996 chr17:1616189-1616190;chr17:1616996-1616997 50.00 N jcn_only_AA CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818078 chr5:139815843-139818087 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 36.84 K coord_cassette CUFF.599 chr17 - chr17:76994046-77001453 chr17:76994046-76994229;chr17:76994369-76996181;chr17:76996353-77001453 chr17:76994230-76994368;chr17:76996182-76996352 48.44 K intron_retention CUFF.903 chr22 + chr22:21057182-21057293 chr22:21057181-21057182;chr22:21057293-21057294 62.03 K intron_retention CUFF.514 chr16 - chr16:67969382-67969484 chr16:67969381-67969382;chr16:67969484-67969485 22.73 K intron_retention CUFF.1331 chr9 - chr9:35074430-35076518 chr9:35074429-35074430;chr9:35076518-35076519 59.46 N intron_retention chr2 - chr2:110920710-110922096 chr2:110920709-110920710;chr2:110922096-110922097 20.00 N alternative_acceptor CUFF.530 chr17 + chr17:1939386-1939822 chr17:1939386-1939722 chr17:1939723-1939822 chr17:1939822-1939823 50.00 N alternative_donor CUFF.71 chr1 - chr1:156445030-156446803 chr1:156445030-156446285 chr1:156446286-156446803 chr1:156446803-156446804 57.69 K mutually_exclusive CUFF.340 chr14 + chr14:39944160-39961458,chr14:39961761-39982820 chr14:39944160-39954220,chr14:39954462-39982820 chr14:39961459-39961760 chr14:39954221-39954461 84.86 K alternative_donor CUFF.780 chr2 - chr2:73285726-73286222 chr2:73285726-73286136 chr2:73286137-73286222 chr2:73286222-73286223 36.96 N alternative_donor CUFF.437 chr15 + chr15:77713080-77750745;chr15:77750627-77750745;chr15:77713437-77750745 chr15:77713347-77750745 chr15:77713080-77713346;chr15:77713347-77713436;chr15:77713437-77750626 chr15:77713079-77713080;chr15:77713346-77713347;chr15:77713436-77713437 60.00 K jcn_only_AD CUFF.513 chr16 + chr16:67234710-67234792 chr16:67234712-67234792 chr16:67234710-67234711 chr16:67234709-67234710 92.25 N alternative_donor CUFF.1248 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 33.33 K cassette CUFF.1183 chr6 + chr6:145142155-145148746 chr6:145142155-145148483;chr6:145148523-145148746 chr6:145148484-145148522 34.66 K intron_retention CUFF.237 chr11 - chr11:118925773-118925896 chr11:118925772-118925773;chr11:118925896-118925897 4.50 K cassette CUFF.1273 chr8 - chr8:23225948-23261466 chr8:23225948-23228155;chr8:23228276-23261466 chr8:23228156-23228275 18.67 N cassette CUFF.1121 chr5 - chr5:149785885-149792187 chr5:149785885-149786714;chr5:149786888-149792187 chr5:149786715-149786887 95.95 K alternative_first_exon CUFF.959 chr3 - chr3:73453547-73482789,chr3:73453547-73651504;chr3:73453547-73610601;chr3:73453547-73605850;chr3:73453547-73523605 chr3:73453547-73618301 chr3:73610602-73610793;chr3:73605851-73606140;chr3:73523606-73523825 chr3:73618302-73618634 22.40 K intron_retention chr4 - chr4:6382822-6383503 chr4:6382821-6382822;chr4:6383503-6383504 2.06 N jcn_only_AA CUFF.897 chr22 - chr22:18096087-18102226 chr22:18101894-18102226 chr22:18096087-18101893 chr22:18096086-18096087 11.45 K alternative_last_exon CUFF.537 chr17 + chr17:6353393-6353681 chr17:6353393-6353558 chr17:6353682-6354789 chr17:6353559-6353606 3.33 K intron_retention CUFF.860 chr20 + chr20:2844730-2844824 chr20:2844729-2844730;chr20:2844824-2844825 69.47 N alternative_acceptor CUFF.818 chr2 + chr2:171191961-171225731 chr2:171191961-171225717 chr2:171225718-171225731 chr2:171225731-171225732 3.12 K jcn_only_AD CUFF.1336,CUFF.1341 chr9 - chr9:46686830-46687553 chr9:46686830-46687372 chr9:46687373-46687553 chr9:46687553-46687554 44.00 N intron_retention chr17 - chr17:76988223-76988491 chr17:76988222-76988223;chr17:76988491-76988492 42.31 N mutually_exclusive CUFF.336 chr14 + chr14:24459569-24473545,chr14:24473602-24475094 chr14:24459569-24470592,chr14:24470727-24475094 chr14:24473546-24473601 chr14:24470593-24470726 82.14 K alternative_first_exon CUFF.869 chr20 - chr20:30009482-30016345 chr20:30009482-30011622,chr20:30009482-30011612 chr20:30016346-30016438 chr20:30011623-30011728 51.22 K jcn_only_AA CUFF.1239 chr7 + chr7:107215756-107216853 chr7:107215756-107216810 chr7:107216811-107216853 chr7:107216853-107216854 95.41 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6383503 chr4:6382822-6473290 chr4:6525170-6525358;chr4:6383504-6383597 chr4:6473291-6473491 25.98 N alternative_donor chr7 + chr7:129015768-129019481;chr7:129017465-129019481 chr7:129008393-129019481 chr7:129008393-129015767;chr7:129015768-129017464 chr7:129008392-129008393;chr7:129015767-129015768 57.14 K alternative_acceptor CUFF.524 chr16 - chr16:87807148-87811473 chr16:87807196-87811473 chr16:87807148-87807195 chr16:87807147-87807148 82.50 K intron_retention CUFF.518 chr16 + chr16:70395414-70398445 chr16:70395413-70395414;chr16:70398445-70398446 9.35 K coord_cassette CUFF.925 chr22 - chr22:51019090-51020677 chr22:51019090-51019848;chr22:51019983-51020177;chr22:51020292-51020677 chr22:51019849-51019982;chr22:51020178-51020291 66.00 K intron_retention CUFF.925 chr22 - chr22:51016364-51016977 chr22:51016363-51016364;chr22:51016977-51016978 20.00 K intron_retention CUFF.265 chr12 + chr12:13364523-13366412 chr12:13364522-13364523;chr12:13366412-13366413 12.57 N intron_retention chr22 - chr22:51015023-51015285 chr22:51015022-51015023;chr22:51015285-51015286 87.27 K alternative_last_exon CUFF.329 chr13 - chr13:101129697-101132514 chr13:101132018-101132514 chr13:101129583-101129696 chr13:101131801-101132017 92.00 N jcn_only_AD chr11 + chr11:36322621-36415395;chr11:36398255-36415395 chr11:36383732-36415395 14.29 N alternative_donor CUFF.631 chr18 + chr18:56024485-56031499 chr18:56027291-56031499 chr18:56024485-56027290 chr18:56024484-56024485 1.19 K alternative_last_exon CUFF.951 chr3 - chr3:49350047-49362134;chr3:49349088-49362134 chr3:49354912-49362134 chr3:49348947-49349087 chr3:49354538-49354911 40.00 K intron_retention CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474495-11474496;chr19:11474836-11474837 90.32 N jcn_only_AA CUFF.798 chr2 - chr2:110959072-110962476 chr2:110960057-110962476 chr2:110959072-110960056 chr2:110959071-110959072 7.65 K alternative_last_exon CUFF.1384 chrX + chrX:15711182-15713793;chrX:15711182-15715362 chrX:15711182-15720904 chrX:15713794-15713856;chrX:15715363-15715874 chrX:15720905-15721844 14.19 K intron_retention chr7 + chr7:107234551-107236311 chr7:107234550-107234551;chr7:107236311-107236312 6.56 N alternative_donor CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 98.20 K alternative_acceptor CUFF.1144 chr6 - chr6:31938917-31939096 chr6:31938925-31939096 chr6:31938917-31938924 chr6:31938916-31938917 79.89 N alternative_donor CUFF.170 chr10 - chr10:135060555-135061294 chr10:135060555-135061057 chr10:135061058-135061294 chr10:135061294-135061295 66.67 K intron_retention CUFF.1146 chr6 + chr6:32122182-32122363 chr6:32122181-32122182;chr6:32122363-32122364 10.14 N intron_retention chr2 + chr2:169712721-169713199 chr2:169712720-169712721;chr2:169713199-169713200 40.82 N alternative_acceptor CUFF.402 chr15 + chr15:45768751-45804570;chr15:45768751-45789310 chr15:45768751-45769966 chr15:45769967-45789310;chr15:45789311-45804570 chr15:45789310-45789311;chr15:45804570-45804571 0.00 N jcn_only_AA CUFF.509 chr16 - chr16:57513598-57517869 chr16:57513601-57517869 chr16:57513598-57513600 chr16:57513597-57513598 9.80 N jcn_only_AA CUFF.904 chr22 - chr22:21828970-21829499 chr22:21829090-21829499 chr22:21828970-21829089 chr22:21828969-21828970 4.92 K alternative_first_exon CUFF.758 chr2 + chr2:38177739-38201182;chr2:38156873-38201182 chr2:38179345-38201182 chr2:38156405-38156872 chr2:38179246-38179344 22.78 N alternative_acceptor CUFF.1111 chr5 + chr5:139815843-139818045;chr5:139815843-139818087 chr5:139815843-139818078 chr5:139818046-139818078;chr5:139818079-139818087 chr5:139818078-139818079;chr5:139818087-139818088 chr5:139815689-139815842;chr5:139818088-139818202 30.77 N cassette CUFF.1238 chr7 - chr7:102566822-102603979 chr7:102566822-102572327;chr7:102572381-102603979 chr7:102572328-102572380 91.16 N jcn_only_AA CUFF.91 chr1 + chr1:196913069-196918584;chr1:196913069-196918746 chr1:196913069-196918565 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 32.61 N cassette CUFF.917 chr22 + chr22:37697061-37699294 chr22:37697061-37697921;chr22:37698073-37699294 chr22:37697922-37698072 10.10 N alternative_acceptor CUFF.91 chr1 + chr1:196913069-196918746;chr1:196913069-196918565 chr1:196913069-196918584 chr1:196918566-196918584;chr1:196918585-196918746 chr1:196918584-196918585;chr1:196918746-196918747 13.95 N jcn_only_AD CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 43.75 K intron_retention CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239899-33239900;chr6:33240404-33240405 8.97 N coord_cassette CUFF.37 chr1 + chr1:54360221-54375603 chr1:54360221-54368729;chr1:54368940-54370338;chr1:54370483-54375603 chr1:54368730-54368939;chr1:54370339-54370482 59.80 N jcn_only_AA CUFF.334 chr14 + chr14:23390330-23392177;chr14:23390330-23392180;chr14:23390330-23393509 chr14:23390330-23392287 chr14:23392178-23392180;chr14:23392181-23392287;chr14:23392288-23393509 chr14:23392180-23392181;chr14:23392287-23392288;chr14:23393509-23393510 52.41 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106400154-106431371 chr8:106331210-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 80.00 N alternative_donor chr11 + chr11:74622471-74630577;chr11:74624828-74630577 chr11:74630071-74630577 chr11:74622471-74624827;chr11:74624828-74630070 chr11:74622470-74622471;chr11:74624827-74624828 4.55 N jcn_only_AA chr12 + chr12:26205536-26208211 chr12:26205536-26208168 chr12:26208169-26208211 chr12:26208211-26208212 18.60 N jcn_only_AD CUFF.872 chr20 - chr20:31115717-31123243;chr20:31115717-31120119 chr20:31115717-31172371 chr20:31120120-31123243;chr20:31123244-31172371 chr20:31123243-31123244;chr20:31172371-31172372 50.00 N jcn_only_AD CUFF.664 chr19 - chr19:10207250-10213243 chr19:10207250-10213227 chr19:10213228-10213243 chr19:10213243-10213244 44.44 N jcn_only_AA CUFF.174 chr11 - chr11:558767-558855 chr11:558785-558855 chr11:558767-558784 chr11:558766-558767 73.16 K jcn_only_AA CUFF.116,CUFF.157 chr10 + chr10:98092354-98095650 chr10:98092354-98095647 chr10:98095648-98095650 chr10:98095650-98095651 94.08 N alternative_donor CUFF.606 chr17 - chr17:79994890-79995489;chr17:79994890-79995506 chr17:79994890-79995325 chr17:79995326-79995489;chr17:79995490-79995506 chr17:79995489-79995490;chr17:79995506-79995507 66.67 K jcn_only_AD CUFF.1142 chr6 + chr6:31935860-31936104 chr6:31935897-31936104 chr6:31935860-31935896 chr6:31935859-31935860 31.10 N alternative_acceptor CUFF.950 chr3 - chr3:46982556-47017842 chr3:47007620-47017842 chr3:46982556-47007619 chr3:46982555-46982556 0.00 K intron_retention CUFF.747 chr2 + chr2:9244290-9244564 chr2:9244289-9244290;chr2:9244564-9244565 62.50 N coord_cassette CUFF.794 chr2 + chr2:101598840-101609808 chr2:101598840-101604540;chr2:101604739-101606717;chr2:101606909-101607241;chr2:101607335-101609808 chr2:101604541-101604738;chr2:101606718-101606908;chr2:101607242-101607334 80.77 N jcn_only_AD CUFF.1217,CUFF.1230 chr7 - chr7:86548627-86554843;chr7:86548627-86550078 chr7:86548627-86549023 chr7:86549024-86550078;chr7:86550079-86554843 chr7:86550078-86550079;chr7:86554843-86554844 chr7:86548536-86548626;chr7:86554844-86554972 29.45 K intron_retention chr5 + chr5:134181903-134182352 chr5:134181902-134181903;chr5:134182352-134182353 34.38 N intron_retention chr3 + chr3:28283304-28357823 chr3:28283303-28283304;chr3:28357823-28357824 68.97 N jcn_only_AD CUFF.251 chr12 + chr12:1754228-1754959;chr12:1749143-1754959 chr12:1742072-1754959 20.51 K cassette CUFF.763 chr2 - chr2:46808731-46819613 chr2:46808731-46818941;chr2:46819065-46819613 chr2:46818942-46819064 28.79 N cassette CUFF.440 chr15 - chr15:78500445-78537610 chr15:78500445-78501486;chr15:78501592-78537610 chr15:78501487-78501591 76.83 K intron_retention CUFF.373 chr14 - chr14:104201001-104201336 chr14:104201000-104201001;chr14:104201336-104201337 92.31 N alternative_donor CUFF.963 chr3 - chr3:93646252-93677354;chr3:93646252-93692517;chr3:93646252-93692406 chr3:93646252-93647545 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 0.00 K alternative_first_exon CUFF.1160 chr6 - chr6:75977465-75982179;chr6:75977465-75994117 chr6:75977465-75993935 chr6:75994118-75994684 chr6:75993936-75994059 51.22 N jcn_only_AD CUFF.489 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 20.75 N alternative_donor CUFF.925 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 15.71 N mutually_exclusive CUFF.824 chr2 - chr2:175689247-175742567,chr2:175742857-175779785 chr2:175689247-175711607,chr2:175711686-175779785 chr2:175742568-175742856 chr2:175711608-175711685 29.47 K cassette CUFF.688 chr19 + chr19:32851525-32873372 chr19:32851525-32871514;chr19:32871527-32873372 chr19:32871515-32871526 44.74 N jcn_only_AD chr2 - chr2:175711686-175712040;chr2:175711686-175712446 chr2:175711686-175740515 18.57 N jcn_only_AD CUFF.35,CUFF.53 chr1 - chr1:53878941-53883199 chr1:53878941-53881072 chr1:53881073-53883199 chr1:53883199-53883200 36.92 K cassette CUFF.808 chr2 - chr2:166714915-166727306 chr2:166714915-166721493;chr2:166721588-166727306 chr2:166721494-166721587 57.14 N jcn_only_AA CUFF.1097 chr5 - chr5:82948641-82969242 chr5:82948644-82969242 chr5:82948641-82948643 chr5:82948640-82948641 79.32 N cassette CUFF.533 chr17 - chr17:5421208-5424843 chr17:5421208-5424200;chr17:5424333-5424843 chr17:5424201-5424332 62.61 N cassette CUFF.991 chr3 - chr3:141697525-141724282;chr3:141697525-141713861 chr3:141697525-141712379;chr3:141712428-141724282,chr3:141712428-141713861 chr3:141712380-141712427 95.21 N alternative_acceptor CUFF.1230 chr7 - chr7:86541488-86542256 chr7:86541562-86542256 chr7:86541488-86541561 chr7:86541487-86541488 chr7:86542257-86542520;chr7:86541388-86541487 94.07 N coord_cassette CUFF.299 chr12 + chr12:69207409-69233053 chr12:69207409-69222550;chr12:69222712-69229608;chr12:69229765-69233053 chr12:69222551-69222711;chr12:69229609-69229764 75.42 K alternative_first_exon CUFF.206 chr11 - chr11:62368162-62368894 chr11:62368162-62368494 chr11:62368895-62369312 chr11:62368495-62368820 54.79 N alternative_acceptor CUFF.473 chr16 + chr16:3115496-3115784;chr16:3115496-3115642;chr16:3115496-3115781 chr16:3115496-3115621 chr16:3115622-3115642;chr16:3115643-3115781;chr16:3115782-3115784 chr16:3115642-3115643;chr16:3115781-3115782;chr16:3115784-3115785 chr16:3115230-3115495;chr16:3115785-3115827 33.42 N jcn_only_AA CUFF.743,CUFF.851 chr2 + chr2:3464108-3466628;chr2:3464108-3469367 chr2:3464108-3464417 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 7.93 K alternative_acceptor CUFF.176 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 69.54 N alternative_last_exon CUFF.607 chr17 + chr17:80442807-80446096 chr17:80442807-80443372 chr17:80446097-80446115 chr17:80443373-80443530 47.37 N alternative_donor CUFF.1237,CUFF.1262 chr7 - chr7:156629580-156685621 chr7:156629580-156685163 chr7:156685164-156685621 chr7:156685621-156685622 9.44 N alternative_acceptor CUFF.603 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 76.06 K alternative_first_exon CUFF.1199 chr7 - chr7:7594821-7605544 chr7:7594821-7603867 chr7:7605545-7606627 chr7:7603868-7604020 39.13 N alternative_donor CUFF.1313 chr8 + chr8:107691521-107695426 chr8:107694774-107695426 chr8:107691521-107694773 chr8:107691520-107691521 1.16 N jcn_only_AD CUFF.94 chr1 - chr1:205593020-205600759 chr1:205593020-205594759 chr1:205594760-205600759 chr1:205600759-205600760 43.48 N intron_retention chr6 + chr6:31928872-31929323 chr6:31928871-31928872;chr6:31929323-31929324 55.68 N cassette CUFF.446 chr15 - chr15:83350333-83357909 chr15:83350333-83357487;chr15:83357584-83357909 chr15:83357488-83357583 91.57 N alternative_acceptor CUFF.277 chr12 - chr12:48396825-48398019;chr12:48393909-48398019 chr12:48394878-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 23.19 N jcn_only_AD CUFF.846 chr2 + chr2:220094681-220094949;chr2:220094703-220094949 chr2:220094623-220094949 chr2:220094623-220094680;chr2:220094681-220094702 chr2:220094622-220094623;chr2:220094680-220094681 91.70 N jcn_only_AD CUFF.452 chr15 - chr15:44884637-44888257 chr15:44884637-44887456 chr15:44887457-44888257 chr15:44888257-44888258 67.27 K alternative_last_exon CUFF.652 chr19 - chr19:5901466-5903622;chr19:5897009-5903622 chr19:5902651-5903622 chr19:5896916-5897008 chr19:5902440-5902650 45.71 N cassette CUFF.37 chr1 + chr1:54360221-54375603;chr1:54360221-54371767 chr1:54360221-54370406;chr1:54370483-54371767,chr1:54370483-54375603 chr1:54370407-54370482 33.18 N alternative_donor CUFF.1241 chr7 + chr7:107254178-107258772;chr7:107256835-107258772 chr7:107253878-107258772 chr7:107253878-107254177;chr7:107254178-107256834 chr7:107253877-107253878;chr7:107254177-107254178 87.95 K cassette CUFF.409 chr15 + chr15:57543622-57545459 chr15:57543622-57544618;chr15:57544691-57545459 chr15:57544619-57544690 60.94 K alternative_first_exon CUFF.480 chr16 + chr16:4552961-4555484,chr16:4538744-4555484,chr16:4533740-4555484,chr16:4526419-4555484,chr16:4526667-4555484,chr16:4546029-4555484;chr16:4524849-4555484;chr16:4526489-4555484 chr16:4533756-4555484 chr16:4524691-4524848;chr16:4525835-4526488 chr16:4533743-4533755 13.95 K intron_retention CUFF.856 chr2 - chr2:242447551-242447919 chr2:242447550-242447551;chr2:242447919-242447920 28.97 K intron_retention CUFF.808 chr2 - chr2:166727531-166731188 chr2:166727530-166727531;chr2:166731188-166731189 18.68 K coord_cassette CUFF.255 chr12 + chr12:4653071-4657257 chr12:4653071-4654947;chr12:4654999-4655474;chr12:4655585-4657257 chr12:4654948-4654998;chr12:4655475-4655584 54.12 N alternative_donor chr2 - chr2:88913372-88926484 chr2:88913372-88924263 chr2:88924264-88926484 chr2:88926484-88926485 0.00 K intron_retention CUFF.950 chr3 - chr3:46963803-46964818 chr3:46963802-46963803;chr3:46964818-46964819 27.14 N alternative_acceptor chr2 + chr2:48898820-49003418 chr2:48898820-48906473 chr2:48906474-49003418 chr2:49003418-49003419 0.00 N jcn_only_AD CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5144371 chr6:5109726-5132951 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 71.29 N alternative_acceptor CUFF.452 chr15 - chr15:90432369-90437112 chr15:90432373-90437112 chr15:90432369-90432372 chr15:90432368-90432369 76.25 N alternative_donor CUFF.1367 chr9 + chr9:133325721-133327610;chr9:133327431-133327610;chr9:133320383-133327610 chr9:133320586-133327610 chr9:133320383-133320585;chr9:133320586-133325720;chr9:133325721-133327430 chr9:133320382-133320383;chr9:133320585-133320586;chr9:133325720-133325721 42.11 N jcn_only_AD chr8 - chr8:56676540-56685785;chr8:56676540-56685534 chr8:56676540-56685827 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 61.18 N jcn_only_AA chr9 + chr9:133320383-133325658;chr9:133320383-133326988 chr9:133320383-133327610 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 43.48 K cassette CUFF.1094 chr5 - chr5:64910047-64920020 chr5:64910047-64913919;chr5:64914083-64920020 chr5:64913920-64914082 39.32 N jcn_only_AD CUFF.652 chr19 - chr19:5897009-5903622 chr19:5897009-5901345 chr19:5901346-5903622 chr19:5903622-5903623 26.79 N coord_cassette CUFF.9 chr1 + chr1:11074023-11078789 chr1:11074023-11075580;chr1:11075704-11076900;chr1:11077065-11078789 chr1:11075581-11075703;chr1:11076901-11077064 85.29 K cassette CUFF.285 chr12 - chr12:52992897-52994810 chr12:52992897-52993054;chr12:52993087-52994810 chr12:52993055-52993086 45.76 N jcn_only_AD CUFF.1054 chr4 + chr4:120384135-120414487 chr4:120409873-120414487 chr4:120384135-120409872 chr4:120384134-120384135 27.40 K jcn_only_AA CUFF.176 chr11 - chr11:1775369-1776135 chr11:1775486-1776135 chr11:1775369-1775485 chr11:1775368-1775369 76.65 N alternative_first_exon chr3 - chr3:47018271-47023421 chr3:47018271-47020963 chr3:47023422-47023488 chr3:47020964-47021095 75.86 N alternative_acceptor CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128329233-128330274 chr6:128326390-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 91.67 N alternative_donor CUFF.148,CUFF.164 chr10 - chr10:78669855-78674693 chr10:78669855-78673814 chr10:78673815-78674693 chr10:78674693-78674694 0.00 N jcn_only_AA CUFF.1146 chr6 + chr6:32122555-32123464;chr6:32122555-32122806 chr6:32122555-32123544 3.70 N jcn_only_AA chr14 + chr14:58894356-58894989 chr14:58894356-58894955 chr14:58894956-58894989 chr14:58894989-58894990 33.33 N intron_retention CUFF.1356 chr9 - chr9:123555536-123555631 chr9:123555535-123555536;chr9:123555631-123555632 38.82 N alternative_donor CUFF.385 chr15 + chr15:29283000-29287955;chr15:29253788-29287955 chr15:29213953-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 99.62 N alternative_donor CUFF.839 chr2 - chr2:207953306-207989067;chr2:207953306-207988699 chr2:207953306-207988497 chr2:207988498-207988699;chr2:207988700-207989067 chr2:207988699-207988700;chr2:207989067-207989068 35.21 K intron_retention chr15 - chr15:44865019-44865744 chr15:44865018-44865019;chr15:44865744-44865745 55.77 N jcn_only_AA CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 13.66 K cassette CUFF.1353 chr9 + chr9:116750861-116764275 chr9:116750861-116760538;chr9:116760635-116764275 chr9:116760539-116760634 4.63 K intron_retention CUFF.38 chr1 - chr1:54394114-54395711 chr1:54394113-54394114;chr1:54395711-54395712 14.55 K alternative_acceptor CUFF.1065 chr4 - chr4:162954808-163032422 chr4:162954811-163032422 chr4:162954808-162954810 chr4:162954807-162954808 20.69 K intron_retention CUFF.729 chr19 + chr19:54647486-54647741 chr19:54647485-54647486;chr19:54647741-54647742 6.67 K coord_cassette CUFF.452 chr15 - chr15:90414779-90431752 chr15:90414779-90420537;chr15:90420657-90421496;chr15:90421533-90431752 chr15:90420538-90420656;chr15:90421497-90421532 16.13 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 37.70 N jcn_only_AA CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200516-71201102 chr14:71200060-71200515 chr14:71200059-71200060 86.11 K alternative_last_exon CUFF.506 chr16 + chr16:56226529-56268924;chr16:56226529-56309842 chr16:56226529-56247183 chr16:56309843-56310340 chr16:56247184-56247278 0.63 N alternative_first_exon CUFF.33 chr1 - chr1:213184801-213188954 chr1:213184801-213188490 chr1:213188955-213189168 chr1:213188491-213188874 83.61 K coord_cassette CUFF.723 chr19 - chr19:51526485-51528847 chr19:51526485-51527300;chr19:51527567-51527889;chr19:51528051-51528847 chr19:51527301-51527566;chr19:51527890-51528050 92.28 N alternative_donor CUFF.925 chr22 - chr22:51016364-51016512;chr22:51016364-51016977 chr22:51016364-51016814 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 44.29 K jcn_only_AA CUFF.408 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 94.26 K intron_retention CUFF.1115 chr5 + chr5:140040401-140041204 chr5:140040400-140040401;chr5:140041204-140041205 30.95 N intron_retention chr17 + chr17:66508690-66511127 chr17:66508689-66508690;chr17:66511127-66511128 chr17:66511128-66511260 70.00 N alternative_donor CUFF.907 chr22 - chr22:25155957-25158364 chr22:25155957-25157845 chr22:25157846-25158364 chr22:25158364-25158365 2.78 N intron_retention chr10 - chr10:74094376-74095591 chr10:74094375-74094376;chr10:74095591-74095592 71.43 K alternative_acceptor CUFF.1393,CUFF.1420 chrX + chrX:142113879-142121813 chrX:142113879-142121810 chrX:142121811-142121813 chrX:142121813-142121814 50.00 N jcn_only_AD chr20 - chr20:61982380-61987308;chr20:61982380-61986847 chr20:61982380-62005232 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 52.63 N alternative_acceptor CUFF.1008 chr4 + chr4:661796-663837 chr4:661796-663834 chr4:663835-663837 chr4:663837-663838 62.50 K cassette CUFF.1157 chr6 - chr6:43481372-43483626 chr6:43481372-43483332;chr6:43483440-43483626 chr6:43483333-43483439 77.95 K alternative_last_exon CUFF.308 chr12 - chr12:113633695-113645242 chr12:113638619-113645242 chr12:113633246-113633694 chr12:113637854-113638618 42.16 N jcn_only_AA chr4 - chr4:152065203-152069073 chr4:152065441-152069073 23.53 N jcn_only_AA chr19 + chr19:17450409-17451915 chr19:17450409-17451852 chr19:17451853-17451915 chr19:17451915-17451916 84.92 K alternative_last_exon CUFF.533 chr17 - chr17:5425107-5433800 chr17:5433379-5433800 chr17:5424844-5425106 chr17:5433205-5433378 45.31 N jcn_only_AA CUFF.182 chr11 + chr11:3424187-3427728 chr11:3424187-3424822 chr11:3424823-3427728 chr11:3427728-3427729 60.00 N alternative_donor CUFF.988 chr3 + chr3:133097401-133098595;chr3:132948196-133098595 chr3:133022182-133098595 chr3:132948196-133022181;chr3:133022182-133097400 chr3:132948195-132948196;chr3:133022181-133022182 0.00 N jcn_only_AD CUFF.9 chr1 + chr1:11082299-11083249 chr1:11082308-11083249 chr1:11082299-11082307 chr1:11082298-11082299 70.45 K intron_retention CUFF.5 chr1 + chr1:2087532-2100956 chr1:2087531-2087532;chr1:2100956-2100957 38.46 K intron_retention CUFF.954 chr3 + chr3:51747327-51749077 chr3:51747326-51747327;chr3:51749077-51749078 20.83 K coord_cassette CUFF.478 chr16 - chr16:4455569-4462356 chr16:4455569-4457501;chr16:4457686-4458181;chr16:4458253-4462356 chr16:4457502-4457685;chr16:4458182-4458252 79.84 N jcn_only_AA CUFF.541 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 21.85 K alternative_first_exon CUFF.304 chr12 - chr12:102869578-102874096 chr12:102869578-102872264 chr12:102874097-102874378 chr12:102872265-102872410 27.54 N coord_cassette CUFF.780 chr2 - chr2:73188378-73215386 chr2:73188378-73195576;chr2:73195663-73198698;chr2:73198815-73215386 chr2:73195577-73195662;chr2:73198699-73198814 90.91 K cassette CUFF.940 chr3 - chr3:33444397-33450727 chr3:33444397-33450181;chr3:33450290-33450727 chr3:33450182-33450289 77.78 K alternative_acceptor CUFF.202 chr11 - chr11:61514596-61514822 chr11:61514614-61514822 chr11:61514596-61514613 chr11:61514595-61514596 23.08 K intron_retention CUFF.200 chr11 + chr11:57310654-57310731 chr11:57310653-57310654;chr11:57310731-57310732 50.00 K alternative_first_exon CUFF.380 chr15 - chr15:23114293-23115116 chr15:23114293-23114585 chr15:23115117-23115256 chr15:23114586-23114611 9.57 N jcn_only_AD CUFF.857 chr2 + chr2:242577176-242590424;chr2:242577786-242590424 chr2:242577140-242590424 chr2:242577140-242577175;chr2:242577176-242577785 chr2:242577139-242577140;chr2:242577175-242577176 95.13 K jcn_only_AD CUFF.1389 chrX + chrX:45129987-45184737 chrX:45184464-45184737 75.00 K intron_retention CUFF.668 chr19 + chr19:11470397-11470496 chr19:11470396-11470397;chr19:11470496-11470497 69.44 K intron_retention CUFF.247 chr11 - chr11:124756719-124756872 chr11:124756718-124756719;chr11:124756872-124756873 33.33 K cassette CUFF.247 chr11 - chr11:124767158-124767621 chr11:124767158-124767483;chr11:124767529-124767621 chr11:124767484-124767528 48.39 K intron_retention CUFF.177 chr11 - chr11:2187289-2187709 chr11:2187288-2187289;chr11:2187709-2187710 13.87 N alternative_acceptor CUFF.1175 chr6 - chr6:128327201-128330274;chr6:128326390-128330274 chr6:128329233-128330274 chr6:128326390-128327200;chr6:128327201-128329232 chr6:128326389-128326390;chr6:128327200-128327201 0.00 N alternative_donor CUFF.133 chr10 - chr10:46148508-46158989 chr10:46148508-46158027 chr10:46158028-46158989 chr10:46158989-46158990 chr10:46148432-46148507;chr10:46158990-46159290 4.08 N alternative_donor CUFF.385 chr15 + chr15:29283000-29287955;chr15:29213953-29287955 chr15:29253788-29287955 chr15:29213953-29253787;chr15:29253788-29282999 chr15:29213952-29213953;chr15:29253787-29253788 0.00 K intron_retention CUFF.193 chr11 - chr11:10828929-10829095 chr11:10828928-10828929;chr11:10829095-10829096 70.97 N jcn_only_AA chr19 - chr19:6192041-6199486;chr19:6148341-6199486 chr19:6176455-6199486 35.42 K intron_retention CUFF.650 chr19 + chr19:4310594-4311838 chr19:4310593-4310594;chr19:4311838-4311839 39.18 K intron_retention CUFF.841 chr2 + chr2:219221911-219222256 chr2:219221910-219221911;chr2:219222256-219222257 50.00 N alternative_acceptor chr2 + chr2:109092307-109098165 chr2:109092307-109098152 chr2:109098153-109098165 chr2:109098165-109098166 54.55 K cassette CUFF.192 chr11 - chr11:8948722-8950923 chr11:8948722-8949049;chr11:8949256-8950923 chr11:8949050-8949255 44.57 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763844;chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626 chr2:61761039-61761692 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 0.00 K alternative_donor CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915386-104915917 chr11:104915918-104916017 chr11:104916017-104916018 58.14 K coord_cassette CUFF.967 chr3 - chr3:107595034-107596748 chr3:107595034-107595301;chr3:107595379-107596159;chr3:107596345-107596748 chr3:107595302-107595378;chr3:107596160-107596344 16.85 N alternative_donor CUFF.1219 chr7 + chr7:65579958-65592690;chr7:65591631-65592690 chr7:65579902-65592690 chr7:65579902-65579957;chr7:65579958-65591630 chr7:65579901-65579902;chr7:65579957-65579958 54.12 K alternative_last_exon CUFF.940 chr3 - chr3:33437773-33438536 chr3:33438371-33438536 chr3:33437654-33437772 chr3:33438068-33438370 74.39 N jcn_only_AD chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 83.56 K alternative_last_exon CUFF.170 chr10 - chr10:135060555-135061294 chr10:135061206-135061294 chr10:135059982-135060554 chr10:135061011-135061205 94.29 K cassette CUFF.851 chr2 + chr2:231927036-231931619 chr2:231927036-231927219;chr2:231927408-231931619 chr2:231927220-231927407 84.62 K cassette CUFF.49 chr1 - chr1:106132408-106146784 chr1:106132408-106145898;chr1:106146181-106146784 chr1:106145899-106146180 54.35 N jcn_only_AD CUFF.676 chr19 + chr19:16186520-16186856;chr19:16178773-16186856 chr19:16178549-16186856 chr19:16178549-16178772;chr19:16178773-16186519 chr19:16178548-16178549;chr19:16178772-16178773 70.15 N alternative_acceptor CUFF.541 chr17 - chr17:15584268-15586167 chr17:15584537-15586167 chr17:15584268-15584536 chr17:15584267-15584268 12.59 N alternative_donor CUFF.925 chr22 - chr22:51018232-51018485 chr22:51018232-51018402 chr22:51018403-51018485 chr22:51018485-51018486 61.54 N jcn_only_AD CUFF.5 chr1 + chr1:2087532-2100956 chr1:2100557-2100956 chr1:2087532-2100556 chr1:2087531-2087532 20.00 K intron_retention CUFF.1091 chr5 + chr5:56533000-56542126 chr5:56532999-56533000;chr5:56542126-56542127 23.33 K alternative_first_exon CUFF.933,CUFF.963 chr3 - chr3:27233734-27236027;chr3:27233734-27243000 chr3:27233734-27235551 chr3:27243001-27243071 chr3:27235552-27235635 11.39 K intron_retention CUFF.925 chr22 - chr22:51009722-51009803 chr22:51009721-51009722;chr22:51009803-51009804 34.71 K cassette CUFF.572 chr17 - chr17:40738156-40739851 chr17:40738156-40738782;chr17:40738910-40739851 chr17:40738783-40738909 83.49 N alternative_acceptor CUFF.512 chr16 - chr16:67223587-67223873 chr16:67223671-67223873 chr16:67223587-67223670 chr16:67223586-67223587 3.42 N alternative_donor CUFF.406 chr15 - chr15:55486558-55488550 chr15:55486558-55487501 chr15:55487502-55488550 chr15:55488550-55488551 8.80 N jcn_only_AD CUFF.806 chr2 + chr2:160615847-160619390 chr2:160615870-160619390 chr2:160615847-160615869 chr2:160615846-160615847 24.51 N jcn_only_AD CUFF.914 chr22 - chr22:21846384-21871613;chr22:21846384-21868422 chr22:21846384-21868418 3.95 N alternative_donor CUFF.681 chr19 + chr19:17612229-17615263;chr19:17611686-17615263 chr19:17611442-17615263 chr19:17611442-17611685;chr19:17611686-17612228 chr19:17611441-17611442;chr19:17611685-17611686 52.81 N jcn_only_AD chr2 + chr2:1168870-1215567 chr2:1206366-1215567 chr2:1168870-1206365 chr2:1168869-1168870 41.58 K alternative_last_exon CUFF.883 chr21 + chr21:15664069-15678016 chr21:15664069-15671758 chr21:15678017-15678163 chr21:15671759-15673717 78.69 N intron_retention CUFF.232 chr11 + chr11:117070149-117070348 chr11:117070148-117070149;chr11:117070348-117070349 44.19 K intron_retention CUFF.1419 chrX - chrX:134290954-134291240 chrX:134290953-134290954;chrX:134291240-134291241 80.00 N jcn_only_AA CUFF.1230 chr7 - chr7:86542382-86544038 chr7:86542521-86544038 chr7:86542382-86542520 chr7:86542381-86542382 chr7:86544039-86544176;chr7:86542257-86542381 98.11 N alternative_donor CUFF.349,CUFF.355 chr14 - chr14:75140815-75142443 chr14:75140815-75142401 chr14:75142402-75142443 chr14:75142443-75142444 53.57 K intron_retention CUFF.282 chr12 + chr12:52404926-52407470 chr12:52404925-52404926;chr12:52407470-52407471 11.74 N jcn_only_AD chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 9.13 N cassette CUFF.985 chr3 + chr3:126113822-126114784 chr3:126113822-126114167;chr3:126114273-126114784 chr3:126114168-126114272 78.10 N intron_retention chr18 + chr18:56001125-56008269 chr18:56001124-56001125;chr18:56008269-56008270 28.85 N cassette CUFF.935 chr3 + chr3:28283304-28357823 chr3:28283304-28304781;chr3:28304872-28357823 chr3:28304782-28304871 85.48 N alternative_acceptor chr1 - chr1:113471975-113497897 chr1:113472657-113497897 chr1:113471975-113472656 chr1:113471974-113471975 25.00 N alternative_acceptor chr17 - chr17:79995424-79995506;chr17:79994890-79995506 chr17:79995418-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 22.29 N cassette CUFF.780 chr2 - chr2:73247394-73250316 chr2:73247394-73249650;chr2:73249706-73250316 chr2:73249651-73249705 93.76 N jcn_only_AD chr11 + chr11:119056220-119056630 chr11:119056338-119056630 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 37.50 N cassette CUFF.653 chr19 - chr19:6040253-6044203 chr19:6040253-6042054;chr19:6042135-6044203 chr19:6042055-6042134 77.84 N alternative_donor chr19 - chr19:2427323-2427456 chr19:2427323-2427411 chr19:2427412-2427456 chr19:2427456-2427457 75.51 K alternative_donor CUFF.1188 chr6 + chr6:161514872-161518111 chr6:161514884-161518111 chr6:161514872-161514883 chr6:161514871-161514872 68.54 N alternative_donor chr17 - chr17:1615694-1617149 chr17:1615694-1616996 chr17:1616997-1617149 chr17:1617149-1617150 45.57 N alternative_donor chr5 - chr5:149782189-149784242;chr5:149782189-149782683 chr5:149782189-149785821 chr5:149782684-149784242;chr5:149784243-149785821 chr5:149784242-149784243;chr5:149785821-149785822 77.78 N jcn_only_AD chr10 + chr10:35437420-35467799 chr10:35464634-35467799 chr10:35437420-35464633 chr10:35437419-35437420 34.43 K alternative_last_exon CUFF.1344,CUFF.1373 chr9 + chr9:95600023-95646187 chr9:95600023-95600538 chr9:95646188-95646282 chr9:95600539-95600734 72.31 N cassette CUFF.985 chr3 + chr3:126114893-126126014 chr3:126114893-126115332;chr3:126115523-126126014 chr3:126115333-126115522 81.37 N jcn_only_AA chr17 - chr17:79995424-79995506;chr17:79995418-79995506 chr17:79994890-79995506 chr17:79994890-79995417;chr17:79995418-79995423 chr17:79994889-79994890;chr17:79995417-79995418 17.01 K intron_retention chrX - chrX:152988744-152989788 chrX:152988743-152988744;chrX:152989788-152989789 17.81 N intron_retention chr6 + chr6:112375365-112375537 chr6:112375364-112375365;chr6:112375537-112375538 44.44 K alternative_first_exon CUFF.752 chr2 - chr2:25190163-25194424;chr2:25190163-25194686 chr2:25190163-25194284 chr2:25194425-25194486;chr2:25194687-25194963 chr2:25194285-25194376 79.57 N jcn_only_AD CUFF.352 chr14 - chr14:69589078-69619481;chr14:69589078-69619660;chr14:69589078-69619205 chr14:69589078-69616147 chr14:69616148-69619205;chr14:69619206-69619481;chr14:69619482-69619660 chr14:69619205-69619206;chr14:69619481-69619482;chr14:69619660-69619661 88.63 N jcn_only_AD CUFF.452 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 6.41 K jcn_only_AD CUFF.910 chr22 + chr22:29534771-29536269 chr22:29534822-29536269 chr22:29534771-29534821 chr22:29534770-29534771 95.65 N intron_retention CUFF.1362 chr9 - chr9:130941184-130941267 chr9:130941183-130941184;chr9:130941267-130941268 90.08 N jcn_only_AD CUFF.698 chr19 - chr19:41355886-41356151 chr19:41355886-41356141 chr19:41356142-41356151 chr19:41356151-41356152 92.86 K cassette CUFF.116 chr10 + chr10:6266177-6268154 chr10:6266177-6266468;chr10:6266587-6268154 chr10:6266469-6266586 1.78 N jcn_only_AD CUFF.517 chr16 - chr16:70265062-70265339 chr16:70265062-70265225 chr16:70265226-70265339 chr16:70265339-70265340 93.81 N cassette CUFF.1348 chr9 - chr9:104239452-104249230 chr9:104239452-104242952;chr9:104243008-104249230 chr9:104242953-104243007 50.00 N jcn_only_AA CUFF.148 chr10 - chr10:79396328-79397022;chr10:79163782-79397022 chr10:79396274-79397022 chr10:79163782-79396273;chr10:79396274-79396327 chr10:79163781-79163782;chr10:79396273-79396274 35.03 N cassette CUFF.337 chr14 + chr14:24563464-24566100;chr14:24563644-24566100 chr14:24563464-24563974,chr14:24563644-24563974;chr14:24564055-24566100 chr14:24563975-24564054 36.96 K jcn_only_AA CUFF.249 chr12 - chr12:332401-344255 chr12:336835-344255 59.38 N jcn_only_AA CUFF.951 chr3 - chr3:49343322-49365118 chr3:49363279-49365118 84.24 K intron_retention CUFF.683 chr19 + chr19:18119394-18119519 chr19:18119393-18119394;chr19:18119519-18119520 14.81 N jcn_only_AA chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 13.21 N alternative_donor CUFF.273 chr12 + chr12:26148064-26173077 chr12:26164755-26173077 chr12:26148064-26164754 chr12:26148063-26148064 4.00 N jcn_only_AD CUFF.142 chr10 - chr10:73970590-73972944 chr10:73970590-73971945 chr10:73971946-73972944 chr10:73972944-73972945 11.45 K cassette CUFF.844 chr2 + chr2:219433702-219445283 chr2:219433702-219438717;chr2:219438957-219445283 chr2:219438718-219438956 51.52 K alternative_first_exon CUFF.1018 chr4 - chr4:6382822-6415629,chr4:6382822-6473886,chr4:6382822-6536997;chr4:6382822-6525169;chr4:6382822-6473290 chr4:6382822-6383503 chr4:6525170-6525358;chr4:6473291-6473491 chr4:6383504-6383597 19.03 N alternative_donor CUFF.1362 chr9 - chr9:130953142-130966464;chr9:130953142-130953710;chr9:130953142-130953558;chr9:130953142-130954133 chr9:130953142-130954010 chr9:130953559-130953710;chr9:130953711-130954010;chr9:130954011-130954133;chr9:130954134-130966464 chr9:130953710-130953711;chr9:130954010-130954011;chr9:130954133-130954134;chr9:130966464-130966465 11.76 N intron_retention chr5 + chr5:134181903-134190587 chr5:134181902-134181903;chr5:134190587-134190588 54.55 K cassette CUFF.1003 chr3 + chr3:186648624-186681572 chr3:186648624-186660135;chr3:186660216-186681572 chr3:186660136-186660215 68.62 N mutually_exclusive CUFF.921 chr22 + chr22:45182487-45204186,chr22:45204319-45210551 chr22:45182487-45197956,chr22:45198045-45210551 chr22:45204187-45204318 chr22:45197957-45198044 10.90 N jcn_only_AA CUFF.1402 chrX - chrX:85219058-85233770 chrX:85226591-85233770 chrX:85219058-85226590 chrX:85219057-85219058 88.24 N alternative_acceptor chr15 - chr15:84873728-84898603 chr15:84874072-84898603 chr15:84873728-84874071 chr15:84873727-84873728 15.38 N coord_cassette CUFF.1282 chr8 - chr8:56652778-56663522 chr8:56652778-56656039;chr8:56656180-56657619;chr8:56657681-56663522 chr8:56656040-56656179;chr8:56657620-56657680 63.93 N jcn_only_AA CUFF.307 chr12 - chr12:113596915-113599074 chr12:113596918-113599074 chr12:113596915-113596917 chr12:113596914-113596915 56.60 N jcn_only_AA CUFF.5 chr1 + chr1:2106753-2116021 chr1:2106753-2113270 chr1:2113271-2116021 chr1:2116021-2116022 21.88 K intron_retention CUFF.740 chr2 - chr2:675631-677288 chr2:675630-675631;chr2:677288-677289 95.65 N cassette CUFF.361 chr14 + chr14:77934528-77935419 chr14:77934528-77934799;chr14:77934852-77935419 chr14:77934800-77934851 68.58 N alternative_donor CUFF.1238 chr7 - chr7:102453979-102462486 chr7:102453979-102454780 chr7:102454781-102462486 chr7:102462486-102462487 0.00 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241392512-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241394438-241398446 chr2:241397535-241398446 chr2:241392428-241392511;chr2:241396815-241396886;chr2:241375088-241375501;chr2:241394416-241394437 chr2:241397375-241397534 16.09 N jcn_only_AD chr10 - chr10:74103270-74113099 chr10:74103270-74104707 chr10:74104708-74113099 chr10:74113099-74113100 83.93 K alternative_last_exon CUFF.635 chr18 - chr18:61071060-61077522 chr18:61074733-61077522 chr18:61070940-61071059 chr18:61074623-61074732 38.00 N alternative_donor CUFF.585 chr17 + chr17:60777141-60813446;chr17:60783831-60813446 chr17:60784969-60813446 chr17:60777141-60783830;chr17:60783831-60784968 chr17:60777140-60777141;chr17:60783830-60783831 13.04 K cassette CUFF.755 chr2 - chr2:31423492-31424999 chr2:31423492-31424727;chr2:31424865-31424999 chr2:31424728-31424864 90.68 N cassette CUFF.490 chr16 + chr16:19592976-19612985 chr16:19592976-19603111;chr16:19603197-19612985 chr16:19603112-19603196 86.02 K cassette CUFF.1163 chr6 + chr6:90327751-90333128 chr6:90327751-90331640;chr6:90331746-90333128 chr6:90331641-90331745 94.09 N cassette CUFF.587 chr17 + chr17:61555460-61557129 chr17:61555460-61556367;chr17:61556462-61557129 chr17:61556368-61556461 chr17:61555292-61555459 95.92 N cassette CUFF.814 chr2 + chr2:169659184-169681143 chr2:169659184-169668076;chr2:169668163-169681143 chr2:169668077-169668162 89.19 K alternative_first_exon CUFF.533 chr17 - chr17:5403271-5405056 chr17:5403271-5403350 chr17:5405057-5405192 chr17:5403351-5404508 94.25 N jcn_only_AD CUFF.354 chr14 - chr14:71200060-71201102 chr14:71200060-71200473 chr14:71200474-71201102 chr14:71201102-71201103 84.38 N jcn_only_AD chr16 + chr16:586143-587133 chr16:586896-587133 84.00 N alternative_acceptor CUFF.287 chr12 + chr12:53853188-53854798;chr12:53853188-53853583 chr12:53853188-53854114 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 1.18 K alternative_donor CUFF.1355 chr9 + chr9:117350201-117354831 chr9:117350399-117354831 chr9:117350201-117350398 chr9:117350200-117350201 66.67 K intron_retention CUFF.304 chr12 - chr12:102874179-102874364 chr12:102874178-102874179;chr12:102874364-102874365 65.00 N jcn_only_AD CUFF.287 chr12 + chr12:53846760-53848509;chr12:53846161-53848509;chr12:53847068-53848509 chr12:53837558-53848509 chr12:53837558-53846160;chr12:53846161-53846759;chr12:53846760-53847067 chr12:53837557-53837558;chr12:53846160-53846161;chr12:53846759-53846760 1.14 K alternative_acceptor CUFF.120 chr10 + chr10:18280233-18282112 chr10:18280233-18282109 chr10:18282110-18282112 chr10:18282112-18282113 11.56 N intron_retention chr7 + chr7:75040010-75044162 chr7:75040009-75040010;chr7:75044162-75044163 42.86 N jcn_only_AA CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 57.73 K intron_retention chr16 + chr16:14020614-14021884 chr16:14020613-14020614;chr16:14021884-14021885 85.71 N cassette CUFF.624 chr18 - chr18:44284628-44336340 chr18:44284628-44301324;chr18:44301433-44336340 chr18:44301325-44301432 88.89 N alternative_acceptor chrX - chrX:20252933-20285156 chrX:20258788-20285156 chrX:20252933-20258787 chrX:20252932-20252933 0.00 K intron_retention CUFF.80 chr1 - chr1:161953126-161953385 chr1:161953125-161953126;chr1:161953385-161953386 54.76 K alternative_donor CUFF.1071 chr5 - chr5:1075606-1076252 chr5:1075606-1076005 chr5:1076006-1076252 chr5:1076252-1076253 87.50 K cassette CUFF.227 chr11 - chr11:104912447-104915118 chr11:104912447-104914209;chr11:104914273-104915118 chr11:104914210-104914272 54.49 N alternative_acceptor CUFF.1367 chr9 + chr9:133320383-133326988;chr9:133320383-133327610 chr9:133320383-133325658 chr9:133325659-133326988;chr9:133326989-133327610 chr9:133326988-133326989;chr9:133327610-133327611 9.52 K intron_retention CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056219-119056220;chr11:119056557-119056558 chr11:119056112-119056219 60.29 N jcn_only_AD CUFF.925 chr22 - chr22:51016364-51016977;chr22:51016364-51016814 chr22:51016364-51016512 chr22:51016513-51016814;chr22:51016815-51016977 chr22:51016814-51016815;chr22:51016977-51016978 14.29 K jcn_only_AD CUFF.1186 chr6 - chr6:151754366-151757580 chr6:151754366-151757554 chr6:151757555-151757580 chr6:151757580-151757581 14.29 K intron_retention CUFF.1417 chrX + chrX:133594369-133607388 chrX:133594368-133594369;chrX:133607388-133607389 76.47 N alternative_donor CUFF.226 chr11 - chr11:102960048-102962515 chr11:102960048-102962412 chr11:102962413-102962515 chr11:102962515-102962516 69.17 N cassette CUFF.322 chr13 - chr13:25525627-25542343 chr13:25525627-25541529;chr13:25541592-25542343 chr13:25541530-25541591 96.21 N alternative_acceptor CUFF.1285 chr8 + chr8:71543526-71558279 chr8:71543526-71544669 chr8:71544670-71558279 chr8:71558279-71558280 0.00 N alternative_acceptor CUFF.148 chr10 - chr10:78831404-78832854;chr10:78823902-78832854 chr10:78799396-78832854 chr10:78799396-78823901;chr10:78823902-78831403 chr10:78799395-78799396;chr10:78823901-78823902 99.74 N jcn_only_AD CUFF.673 chr19 - chr19:33904550-33968951 chr19:33904550-33953900 94.49 K cassette CUFF.71 chr1 - chr1:156438813-156446803 chr1:156438813-156444899;chr1:156445030-156446803 chr1:156444900-156445029 13.51 N intron_retention chr11 + chr11:118401950-118403631 chr11:118401949-118401950;chr11:118403631-118403632 25.00 K intron_retention CUFF.857 chr2 + chr2:242607637-242607954 chr2:242607636-242607637;chr2:242607954-242607955 3.57 N alternative_donor CUFF.668 chr19 + chr19:11474496-11474836 chr19:11474512-11474836 chr19:11474496-11474511 chr19:11474495-11474496 85.00 K alternative_last_exon CUFF.1106 chr5 + chr5:131649462-131657876 chr5:131649462-131656557 chr5:131657877-131658048 chr5:131656558-131656656 36.17 N intron_retention chr19 + chr19:1439826-1440017 chr19:1439825-1439826;chr19:1440017-1440018 32.08 N jcn_only_AD CUFF.1326 chr9 - chr9:15214248-15225914;chr9:15214248-15249915;chr9:15214248-15224357 chr9:15214248-15224337 11.83 N jcn_only_AA chr10 - chr10:78637649-78644746 chr10:78637652-78644746 chr10:78637649-78637651 chr10:78637648-78637649 28.07 K alternative_donor CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187854-119188666 chr3:119187954-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 39.02 K jcn_only_AA CUFF.1142 chr6 + chr6:31928872-31929117 chr6:31928872-31928972 chr6:31928973-31929117 chr6:31929117-31929118 21.74 N alternative_donor CUFF.857 chr2 + chr2:242610821-242611605;chr2:242610841-242611605 chr2:242610857-242611605 chr2:242610821-242610840;chr2:242610841-242610856 chr2:242610820-242610821;chr2:242610840-242610841 39.58 K cassette CUFF.763 chr2 - chr2:46808731-46819613 chr2:46808731-46815213;chr2:46815319-46819613 chr2:46815214-46815318 29.85 N alternative_acceptor CUFF.735 chr19 + chr19:58963072-58965062;chr19:58963072-58963494 chr19:58963072-58964553 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 4.05 K intron_retention CUFF.1243 chr7 - chr7:107643417-107643555 chr7:107643416-107643417;chr7:107643555-107643556 13.43 K alternative_last_exon CUFF.262 chr12 + chr12:11712317-11743183 chr12:11712317-11716634 chr12:11743184-11743303 chr12:11716635-11717337 25.93 K alternative_acceptor CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290231-119290760 chr11:119290142-119290230 chr11:119290141-119290142 76.64 K alternative_first_exon CUFF.855 chr2 + chr2:241381924-241398446;chr2:241396887-241398446;chr2:241375502-241398446;chr2:241394438-241398446;chr2:241397535-241398446 chr2:241392512-241398446 chr2:241396815-241396886;chr2:241375088-241375501;chr2:241394416-241394437;chr2:241397375-241397534 chr2:241392428-241392511 36.78 N alternative_acceptor CUFF.497 chr16 - chr16:23504843-23505623;chr16:23504780-23505623 chr16:23504909-23505623 chr16:23504780-23504842;chr16:23504843-23504908 chr16:23504779-23504780;chr16:23504842-23504843 8.47 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777457;chr19:44771115-44777051 chr19:44771115-44771532 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 39.71 K alternative_first_exon CUFF.526 chr16 + chr16:89787685-89788938;chr16:89786991-89788938 chr16:89788254-89788938 chr16:89786808-89786990 chr16:89788161-89788253 10.08 N jcn_only_AA CUFF.1016 chr4 - chr4:3951320-3952865;chr4:3948667-3952865 chr4:3951277-3952865 chr4:3948667-3951276;chr4:3951277-3951319 chr4:3948666-3948667;chr4:3951276-3951277 38.14 N alternative_donor CUFF.753 chr2 - chr2:27708371-27712481 chr2:27708371-27709025 chr2:27709026-27712481 chr2:27712481-27712482 3.85 N intron_retention chr7 + chr7:148990584-148990841 chr7:148990583-148990584;chr7:148990841-148990842 87.39 K alternative_donor CUFF.910 chr22 + chr22:29469210-29490245 chr22:29469216-29490245 chr22:29469210-29469215 chr22:29469209-29469210 50.00 N alternative_acceptor CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1439966 chr19:1438892-1440024 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 6.29 K alternative_acceptor CUFF.1216 chr7 + chr7:54617864-54636823 chr7:54617864-54636701 chr7:54636702-54636823 chr7:54636823-54636824 13.04 N alternative_acceptor CUFF.1316 chr8 - chr8:120772979-120774654 chr8:120774013-120774654 chr8:120772979-120774012 chr8:120772978-120772979 4.71 N jcn_only_AA CUFF.71 chr1 - chr1:156453223-156470277 chr1:156469353-156470277 chr1:156453223-156469352 chr1:156453222-156453223 6.21 K alternative_last_exon CUFF.1024 chr4 + chr4:20552522-20555427 chr4:20552522-20554050 chr4:20555428-20555591 chr4:20554051-20554340 30.23 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 62.50 N intron_retention CUFF.1257 chr7 + chr7:150815432-150815560 chr7:150815431-150815432;chr7:150815560-150815561 11.71 N alternative_donor CUFF.276,CUFF.294 chr12 - chr12:56709027-56709604;chr12:56709027-56709690 chr12:56709027-56709500 chr12:56709501-56709604;chr12:56709605-56709690 chr12:56709604-56709605;chr12:56709690-56709691 0.88 K intron_retention CUFF.189 chr11 - chr11:6636561-6636672 chr11:6636560-6636561;chr11:6636672-6636673 18.57 N intron_retention CUFF.183 chr11 - chr11:5685404-5686398 chr11:5685403-5685404;chr11:5686398-5686399 53.75 K cassette CUFF.1257 chr7 + chr7:150831656-150837065 chr7:150831656-150835229;chr7:150835401-150837065 chr7:150835230-150835400 80.77 N intron_retention chr17 + chr17:80438421-80438957 chr17:80438420-80438421;chr17:80438957-80438958 92.31 K jcn_only_AA CUFF.392 chr15 + chr15:40756747-40757542 chr15:40756747-40757533 chr15:40757534-40757542 chr15:40757542-40757543 75.56 N intron_retention chr22 + chr22:29684776-29687553 chr22:29684775-29684776;chr22:29687553-29687554 12.50 N alternative_acceptor CUFF.870 chr20 + chr20:30135410-30136479 chr20:30135410-30136182 chr20:30136183-30136479 chr20:30136479-30136480 89.69 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 100.00 K alternative_first_exon CUFF.788 chr2 - chr2:88892924-88894986 chr2:88892924-88893430 chr2:88894987-88895181 chr2:88893431-88893682 85.90 N jcn_only_AA CUFF.191 chr11 - chr11:8457687-8474368 chr11:8462301-8474368 chr11:8457687-8462300 chr11:8457686-8457687 90.08 K alternative_first_exon CUFF.739 chr2 - chr2:286344-287162;chr2:286344-286869 chr2:286344-287582 chr2:287163-287261;chr2:286870-286951 chr2:287583-287892 25.39 N jcn_only_AA CUFF.1073,CUFF.1118 chr5 + chr5:145651238-145694458 chr5:145651238-145664184 chr5:145664185-145694458 chr5:145694458-145694459 2.44 K cassette CUFF.357 chr14 + chr14:76201633-76211437 chr14:76201633-76203908;chr14:76203951-76211437 chr14:76203909-76203950 71.33 N jcn_only_AA CUFF.681 chr19 + chr19:17598339-17599816 chr19:17598339-17599656 chr19:17599657-17599816 chr19:17599816-17599817 88.76 K intron_retention CUFF.390 chr15 + chr15:33022996-33023116 chr15:33022995-33022996;chr15:33023116-33023117 chr15:33022891-33022995;chr15:33023117-33026870 23.33 N jcn_only_AA CUFF.736 chr2 - chr2:219002-229965 chr2:224921-229965 chr2:219002-224920 chr2:219001-219002 20.31 N alternative_acceptor CUFF.175 chr11 + chr11:36415562-36422546;chr11:36415562-36417663 chr11:36415562-36415945 chr11:36415946-36417663;chr11:36417664-36422546 chr11:36417663-36417664;chr11:36422546-36422547 7.06 N jcn_only_AA CUFF.601 chr17 - chr17:79358833-79358928;chr17:79355741-79358928 chr17:79354385-79358928 chr17:79354385-79355740;chr17:79355741-79358832 chr17:79354384-79354385;chr17:79355740-79355741 73.73 K intron_retention CUFF.911 chr22 + chr22:29694886-29695223 chr22:29694885-29694886;chr22:29695223-29695224 17.99 K alternative_first_exon CUFF.360 chr14 - chr14:77275987-77280649;chr14:77275987-77278647 chr14:77275987-77276431 chr14:77280650-77280764;chr14:77278648-77278992 chr14:77276432-77276494 14.81 N jcn_only_AA CUFF.607 chr17 + chr17:80436795-80438282;chr17:80436795-80438957 chr17:80436795-80437813 chr17:80437814-80438282;chr17:80438283-80438957 chr17:80438282-80438283;chr17:80438957-80438958 3.31 N jcn_only_AD CUFF.1183 chr6 + chr6:144981412-144999541;chr6:144898425-144999541 chr6:144904737-144999541 chr6:144898425-144904736;chr6:144904737-144981411 chr6:144898424-144898425;chr6:144904736-144904737 29.27 K alternative_donor CUFF.869 chr20 - chr20:30009482-30011622 chr20:30009482-30011612 chr20:30011613-30011622 chr20:30011622-30011623 34.78 N jcn_only_AA CUFF.1144 chr6 - chr6:31939503-31939705;chr6:31939459-31939705;chr6:31939359-31939705 chr6:31938925-31939705 39.14 K alternative_first_exon CUFF.814 chr2 + chr2:169659184-169668076 chr2:169667936-169668076 chr2:169658891-169659183 chr2:169667853-169667935 4.33 N jcn_only_AA chr17 + chr17:29657517-29661855 chr17:29657517-29661681 9.38 N jcn_only_AD chr14 - chr14:59946070-59950397;chr14:59946070-59950526 chr14:59946070-59950207 20.00 K cassette CUFF.1238 chr7 - chr7:102669866-102696090 chr7:102669866-102687255;chr7:102687468-102696090 chr7:102687256-102687467 28.70 N alternative_donor CUFF.9 chr1 + chr1:11072486-11073772 chr1:11072801-11073772 chr1:11072486-11072800 chr1:11072485-11072486 68.22 N alternative_acceptor CUFF.607 chr17 + chr17:1945170-1946269 chr17:1945170-1945898 chr17:1945899-1946269 chr17:1946269-1946270 74.00 N intron_retention chr19 + chr19:1438892-1439714 chr19:1438891-1438892;chr19:1439714-1439715 46.75 K cassette CUFF.81 chr1 + chr1:166810326-166816730 chr1:166810326-166815848;chr1:166815976-166816730 chr1:166815849-166815975 63.16 K intron_retention chr17 - chr17:79994185-79994259 chr17:79994184-79994185;chr17:79994259-79994260 20.00 K alternative_first_exon CUFF.1182 chr6 + chr6:144613044-144724258 chr6:144665441-144724258 chr6:144612873-144613043 chr6:144665153-144665440 98.87 N intron_retention CUFF.235 chr11 + chr11:118403923-118404134 chr11:118403922-118403923;chr11:118404134-118404135 2.24 N alternative_acceptor CUFF.312 chr12 - chr12:133181418-133182732 chr12:133181605-133182732 chr12:133181418-133181604 chr12:133181417-133181418 9.14 K alternative_acceptor CUFF.337 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 89.78 N cassette CUFF.309 chr12 - chr12:120146124-120148344 chr12:120146124-120148055;chr12:120148192-120148344 chr12:120148056-120148191 80.22 K cassette CUFF.494 chr16 + chr16:21987565-21994408 chr16:21987565-21991867;chr16:21992022-21994408 chr16:21991868-21992021 55.56 N jcn_only_AD CUFF.385 chr15 + chr15:29211691-29213842;chr15:29140756-29213842 chr15:29131425-29213842 chr15:29131425-29140755;chr15:29140756-29211690 chr15:29131424-29131425;chr15:29140755-29140756 1.55 K jcn_only_AD CUFF.650 chr19 + chr19:4323235-4323344;chr19:4323211-4323344 chr19:4323144-4323344 chr19:4323144-4323210;chr19:4323211-4323234 chr19:4323143-4323144;chr19:4323210-4323211 8.78 N jcn_only_AA CUFF.876 chr20 + chr20:33589889-33589979 chr20:33589889-33589961 chr20:33589962-33589979 chr20:33589979-33589980 56.94 N alternative_acceptor CUFF.108,CUFF.8 chr1 + chr1:245180629-245222687 chr1:245180629-245193956 chr1:245193957-245222687 chr1:245222687-245222688 0.00 N coord_cassette CUFF.541 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15535822;chr17:15535989-15539349 chr17:15534933-15535028;chr17:15535823-15535988 87.41 N jcn_only_AD chr15 - chr15:64658275-64665896 chr15:64658275-64665354 50.00 K jcn_only_AA CUFF.357 chr14 + chr14:76249874-76259258 chr14:76249874-76259255 chr14:76259256-76259258 chr14:76259258-76259259 48.78 N coord_cassette CUFF.674 chr19 - chr19:14876617-14883153 chr19:14876617-14877046;chr19:14877194-14877789;chr19:14877922-14883153 chr19:14877047-14877193;chr19:14877790-14877921 77.36 N alternative_donor chr6 + chr6:112558118-112600322 chr6:112598514-112600322 chr6:112558118-112598513 chr6:112558117-112558118 chr6:112557980-112558117 0.00 N jcn_only_AD CUFF.270 chr12 - chr12:22610096-22622642;chr12:22610096-22612425 chr12:22610096-22611417 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 91.01 K alternative_donor CUFF.301 chr12 + chr12:72094659-72097756 chr12:72094806-72097756 chr12:72094659-72094805 chr12:72094658-72094659 74.19 N alternative_acceptor CUFF.460 chr15 - chr15:102194934-102197124 chr15:102196224-102197124 chr15:102194934-102196223 chr15:102194933-102194934 2.50 N mutually_exclusive CUFF.1177 chr6 - chr6:133046119-133049879,chr6:133050073-133055391 chr6:133046119-133047860,chr6:133048152-133055391 chr6:133049880-133050072 chr6:133047861-133048151 55.56 K alternative_first_exon CUFF.774,CUFF.840 chr2 - chr2:211085527-211089910 chr2:211085527-211089038 chr2:211089911-211090215 chr2:211089039-211089589 35.62 K jcn_only_AA CUFF.551 chr17 - chr17:21437283-21438688 chr17:21437833-21438688 chr17:21437283-21437832 chr17:21437282-21437283 34.15 K alternative_acceptor CUFF.409 chr15 + chr15:57211105-57212099 chr15:57211105-57212089 chr15:57212090-57212099 chr15:57212099-57212100 86.99 K intron_retention CUFF.204 chr11 + chr11:61595697-61595966 chr11:61595696-61595697;chr11:61595966-61595967 31.82 N jcn_only_AA CUFF.798 chr2 - chr2:110927576-110958997 chr2:110937262-110958997 96.13 N alternative_acceptor CUFF.1024 chr4 + chr4:20570628-20591266 chr4:20570628-20574856 chr4:20574857-20591266 chr4:20591266-20591267 0.00 K alternative_last_exon CUFF.1132 chr6 - chr6:5240957-5260880;chr6:5109726-5260880 chr6:5216972-5260880 chr6:5240759-5240956;chr6:5102827-5109725 chr6:5216851-5216971 46.77 N alternative_donor CUFF.1313 chr8 + chr8:107738538-107749747;chr8:107738486-107749747 chr8:107726214-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 96.67 N cassette CUFF.164 chr10 - chr10:123673409-123687358 chr10:123673409-123683780;chr10:123683845-123687358 chr10:123683781-123683844 94.52 K jcn_only_AA CUFF.1226 chr7 + chr7:75039744-75044162 chr7:75039744-75039888 30.20 N alternative_donor CUFF.341 chr14 + chr14:50067416-50074117;chr14:50069187-50074117 chr14:50070337-50074117 chr14:50067416-50069186;chr14:50069187-50070336 chr14:50067415-50067416;chr14:50069186-50069187 0.00 K intron_retention CUFF.911 chr22 + chr22:29694886-29695184 chr22:29694885-29694886;chr22:29695184-29695185 19.84 N alternative_donor CUFF.84 chr1 + chr1:167190196-167272710 chr1:167210848-167272710 chr1:167190196-167210847 chr1:167190195-167190196 0.00 N jcn_only_AD CUFF.796 chr2 + chr2:109066146-109067483 chr2:109066451-109067483 chr2:109066146-109066450 chr2:109066145-109066146 30.00 N alternative_donor CUFF.533,CUFF.576 chr17 - chr17:42339005-42340003 chr17:42339005-42339394 chr17:42339395-42340003 chr17:42340003-42340004 2.72 K cassette CUFF.382 chr15 + chr15:24825478-24869114 chr15:24825478-24832713;chr15:24832883-24869114 chr15:24832714-24832882 15.18 N intron_retention chr12 + chr12:58017882-58018648 chr12:58017881-58017882;chr12:58018648-58018649 50.00 N jcn_only_AA CUFF.76,CUFF.9 chr1 + chr1:11083387-11084358 chr1:11083387-11084120 chr1:11084121-11084358 chr1:11084358-11084359 81.82 N alternative_acceptor chr15 + chr15:29131425-29140665;chr15:29131425-29139019 chr15:29131425-29213842 chr15:29139020-29140665;chr15:29140666-29213842 chr15:29140665-29140666;chr15:29213842-29213843 100.00 N jcn_only_AD CUFF.537 chr17 + chr17:6348725-6350782;chr17:6348663-6350782 chr17:6349508-6350782 chr17:6348663-6348724;chr17:6348725-6349507 chr17:6348662-6348663;chr17:6348724-6348725 2.78 N cassette CUFF.983 chr3 - chr3:125769894-125820271 chr3:125769894-125786789;chr3:125787090-125820271 chr3:125786790-125787089 90.99 K intron_retention CUFF.902 chr22 + chr22:20748953-20749622 chr22:20748952-20748953;chr22:20749622-20749623 chr22:20748405-20748952;chr22:20749623-20749708 9.38 N intron_retention chr2 - chr2:207989129-208031863 chr2:207989128-207989129;chr2:208031863-208031864 60.71 K intron_retention CUFF.1362 chr9 - chr9:130940770-130940987 chr9:130940769-130940770;chr9:130940987-130940988 44.97 N alternative_acceptor CUFF.1157 chr6 - chr6:43480837-43481096 chr6:43480939-43481096 chr6:43480837-43480938 chr6:43480836-43480837 88.08 K alternative_acceptor CUFF.357 chr14 + chr14:76243194-76245921 chr14:76243194-76245917 chr14:76245918-76245921 chr14:76245921-76245922 40.00 K intron_retention CUFF.1115 chr5 + chr5:140027510-140028055 chr5:140027509-140027510;chr5:140028055-140028056 12.30 K jcn_only_AA CUFF.878 chr20 - chr20:34246905-34252800 chr20:34246937-34252800 chr20:34246905-34246936 chr20:34246904-34246905 72.88 K alternative_acceptor CUFF.940 chr3 - chr3:33451080-33453072 chr3:33451094-33453072 chr3:33451080-33451093 chr3:33451079-33451080 44.74 N alternative_donor CUFF.821 chr2 - chr2:174072387-174136238 chr2:174072387-174074374 chr2:174074375-174136238 chr2:174136238-174136239 0.00 N jcn_only_AD CUFF.631 chr18 + chr18:55912741-55916130 chr18:55914857-55916130 chr18:55912741-55914856 chr18:55912740-55912741 0.97 N alternative_donor CUFF.925 chr22 - chr22:30735024-30736197 chr22:30735024-30735118 chr22:30735119-30736197 chr22:30736197-30736198 44.74 N jcn_only_AD CUFF.1248 chr7 - chr7:117424509-117431181;chr7:117424509-117426439 chr7:117424509-117431344 chr7:117426440-117431181;chr7:117431182-117431344 chr7:117431181-117431182;chr7:117431344-117431345 18.18 N intron_retention chr17 - chr17:79994890-79995506 chr17:79994889-79994890;chr17:79995506-79995507 80.92 N intron_retention chr2 - chr2:110920713-110922264 chr2:110920712-110920713;chr2:110922264-110922265 77.27 N alternative_acceptor CUFF.736 chr2 - chr2:253116-260084 chr2:256691-260084 chr2:253116-256690 chr2:253115-253116 1.66 K alternative_acceptor CUFF.641 chr18 - chr18:66567475-66569424 chr18:66567509-66569424 chr18:66567475-66567508 chr18:66567474-66567475 22.86 N alternative_first_exon chr11 - chr11:2187999-2188664 chr11:2187999-2188116 chr11:2188665-2188746 chr11:2188117-2188526 95.43 K intron_retention CUFF.223 chr11 - chr11:94703261-94704140 chr11:94703260-94703261;chr11:94704140-94704141 46.59 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 80.95 N cassette CUFF.1100 chr5 - chr5:127396937-127417664;chr5:127396937-127418426 chr5:127396937-127412638;chr5:127412786-127418426,chr5:127412786-127417664 chr5:127412639-127412785 38.52 K jcn_only_AD CUFF.155 chr10 + chr10:96961943-96966964 chr10:96961953-96966964 chr10:96961943-96961952 chr10:96961942-96961943 93.27 K intron_retention CUFF.255 chr12 + chr12:4662314-4665596 chr12:4662313-4662314;chr12:4665596-4665597 41.27 K intron_retention CUFF.213 chr11 - chr11:67770646-67771126 chr11:67770645-67770646;chr11:67771126-67771127 3.24 K intron_retention CUFF.497 chr16 - chr16:23504909-23505623 chr16:23504908-23504909;chr16:23505623-23505624 10.19 N alternative_donor CUFF.42 chr1 + chr1:70820791-70831828 chr1:70820892-70831828 chr1:70820791-70820891 chr1:70820790-70820791 40.20 N coord_cassette CUFF.279 chr12 - chr12:49334972-49350767 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350134-49350767 chr12:49346896-49347057;chr12:49349881-49350133 45.88 K alternative_first_exon CUFF.422 chr15 - chr15:66645294-66678987;chr15:66645294-66648976;chr15:66645294-66678757 chr15:66645294-66678944 chr15:66648977-66649054;chr15:66678758-66678943 chr15:66678945-66679143 24.35 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924133 chr19:39924059-39924157 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 10.78 K cassette CUFF.237 chr11 - chr11:118919599-118920267 chr11:118919599-118919729;chr11:118919916-118920267 chr11:118919730-118919915 80.95 N alternative_donor CUFF.814 chr2 + chr2:169711971-169713199 chr2:169712721-169713199 chr2:169711971-169712720 chr2:169711970-169711971 30.48 N jcn_only_AA CUFF.857 chr2 + chr2:242577140-242590424 chr2:242577140-242577675 chr2:242577676-242590424 chr2:242590424-242590425 1.80 K alternative_acceptor CUFF.1047 chr4 - chr4:83536173-83542364 chr4:83536235-83542364 chr4:83536173-83536234 chr4:83536172-83536173 77.22 N intron_retention chr17 - chr17:56082403-56082758 chr17:56082402-56082403;chr17:56082758-56082759 87.18 N intron_retention chr6 + chr6:2989968-2990102 chr6:2989967-2989968;chr6:2990102-2990103 76.92 N jcn_only_AA chr1 + chr1:155180686-155201808 chr1:155180686-155181182 88.46 N jcn_only_AA CUFF.35 chr1 - chr1:53878941-53883199 chr1:53881197-53883199 chr1:53878941-53881196 chr1:53878940-53878941 21.15 K alternative_last_exon CUFF.928 chr3 + chr3:8775677-8819162 chr3:8775677-8787211 chr3:8819163-8819222 chr3:8787212-8788451 90.00 N alternative_donor ENSG00000185875.8 chr10 + chr10:25305622-25310670 chr10:25305719-25310670 chr10:25305622-25305718 chr10:25305621-25305622 40.00 K alternative_first_exon CUFF.578 chr17 - chr17:46685458-46710875;chr17:46685458-46685590 chr17:46685458-46687880 chr17:46710876-46710960;chr17:46685591-46685695 chr17:46687881-46688379 27.41 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905033;chr17:61904875-61905210;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905188 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 7.22 N alternative_acceptor CUFF.735 chr19 + chr19:58963072-58964553;chr19:58963072-58965062 chr19:58963072-58963494 chr19:58963495-58964553;chr19:58964554-58965062 chr19:58964553-58964554;chr19:58965062-58965063 18.92 N cassette CUFF.1296 chr8 - chr8:80976829-81083659 chr8:80976829-81032049;chr8:81032120-81083659 chr8:81032050-81032119 93.30 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 89.41 K intron_retention CUFF.1144 chr6 - chr6:31939459-31939705 chr6:31939458-31939459;chr6:31939705-31939706 72.29 K intron_retention CUFF.736 chr2 - chr2:263373-264781 chr2:263372-263373;chr2:264781-264782 8.60 N intron_retention chr11 + chr11:3405515-3422988 chr11:3405514-3405515;chr11:3422988-3422989 chr11:3405397-3405514 72.00 N jcn_only_AA CUFF.269,CUFF.287 chr12 + chr12:53853188-53854114;chr12:53853188-53854798 chr12:53853188-53853583 chr12:53853584-53854114;chr12:53854115-53854798 chr12:53854114-53854115;chr12:53854798-53854799 0.56 N cassette CUFF.698 chr19 - chr19:41354669-41356151 chr19:41354669-41355722;chr19:41355886-41356151 chr19:41355723-41355885 5.13 N cassette CUFF.1244 chr7 - chr7:110303778-110603555 chr7:110303778-110526648;chr7:110526752-110603555 chr7:110526649-110526751 57.36 N jcn_only_AA CUFF.587,CUFF.607 chr17 + chr17:61564435-61566008;chr17:61564435-61565930 chr17:61564435-61565721 chr17:61565722-61565930;chr17:61565931-61566008 chr17:61565930-61565931;chr17:61566008-61566009 2.08 N jcn_only_AA CUFF.989 chr3 + chr3:133407209-133418748;chr3:133407209-133419725 chr3:133407209-133410566 65.17 K cassette CUFF.494 chr16 + chr16:21964778-21968737 chr16:21964778-21968555;chr16:21968640-21968737 chr16:21968556-21968639 76.19 K cassette CUFF.236 chr11 - chr11:118532219-118532598 chr11:118532219-118532345;chr11:118532439-118532598 chr11:118532346-118532438 67.18 N cassette CUFF.917 chr22 + chr22:37697061-37699294 chr22:37697061-37697975;chr22:37698073-37699294 chr22:37697976-37698072 4.30 N alternative_donor CUFF.1132 chr6 - chr6:5109726-5113304;chr6:5109726-5260880;chr6:5109726-5132951 chr6:5109726-5144371 chr6:5113305-5132951;chr6:5132952-5144371;chr6:5144372-5260880 chr6:5132951-5132952;chr6:5144371-5144372;chr6:5260880-5260881 0.00 N jcn_only_AD CUFF.780 chr2 - chr2:73198815-73215386 chr2:73198815-73208137 chr2:73208138-73215386 chr2:73215386-73215387 42.44 N alternative_acceptor CUFF.175,CUFF.208 chr11 + chr11:829541-829985 chr11:829541-829967 chr11:829968-829985 chr11:829985-829986 5.59 N jcn_only_AA CUFF.142 chr10 - chr10:73956748-73972944;chr10:73970590-73972944 chr10:73972044-73972944 9.36 N jcn_only_AD CUFF.935 chr3 + chr3:28357915-28360999;chr3:28360371-28360999 chr3:28358351-28360999 chr3:28357915-28358350;chr3:28358351-28360370 chr3:28357914-28357915;chr3:28358350-28358351 7.42 K intron_retention CUFF.52 chr1 + chr1:110212194-110213935 chr1:110212193-110212194;chr1:110213935-110213936 21.09 N jcn_only_AA CUFF.1230 chr7 - chr7:86569432-86571333 chr7:86570702-86571333 chr7:86569432-86570701 chr7:86569431-86569432 chr7:86571334-86571420;chr7:86569326-86569431 22.00 K alternative_first_exon CUFF.197,CUFF.236 chr11 - chr11:34226238-34378247 chr11:34226238-34264021 chr11:34378248-34379555 chr11:34264022-34264051 33.33 N cassette CUFF.1362 chr9 - chr9:130943079-130952607 chr9:130943079-130947825;chr9:130948056-130952607 chr9:130947826-130948055 63.11 K alternative_first_exon CUFF.98 chr1 + chr1:211556268-211564957 chr1:211564013-211564957 chr1:211556145-211556267 chr1:211563906-211564012 41.38 N jcn_only_AA CUFF.814 chr2 + chr2:169711971-169713199 chr2:169711971-169712395 chr2:169712396-169713199 chr2:169713199-169713200 18.89 K jcn_only_AD CUFF.1094 chr5 - chr5:64887330-64887698 chr5:64887330-64887669 chr5:64887670-64887698 chr5:64887698-64887699 40.74 K intron_retention CUFF.707 chr19 + chr19:45261671-45261980 chr19:45261670-45261671;chr19:45261980-45261981 60.00 K alternative_last_exon CUFF.498 chr16 - chr16:25097094-25114671;chr16:25112007-25114671 chr16:25098045-25114671 chr16:25096913-25097093;chr16:25111886-25112006 chr16:25097668-25098044 15.71 N jcn_only_AD CUFF.1387 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 15.67 N alternative_first_exon chr11 - chr11:8474454-8615629 chr11:8474454-8476290 chr11:8615630-8615931 chr11:8476291-8476379 93.62 N jcn_only_AD CUFF.148,CUFF.168 chr10 - chr10:78647274-78649208 chr10:78647274-78647552 chr10:78647553-78649208 chr10:78649208-78649209 3.99 K jcn_only_AA CUFF.1285 chr8 + chr8:71521069-71564047 chr8:71521069-71543339 33.90 N jcn_only_AA chr17 + chr17:29664899-29665042;chr17:29664899-29665019 chr17:29664899-29667522 32.77 K alternative_last_exon CUFF.1132 chr6 - chr6:5113652-5216850,chr6:5144497-5216850;chr6:5138974-5216850 chr6:5187215-5216850 chr6:5138942-5138973 chr6:5186848-5187214 54.88 N alternative_acceptor CUFF.723 chr19 - chr19:51528923-51529793 chr19:51528955-51529793 chr19:51528923-51528954 chr19:51528922-51528923 4.32 K alternative_first_exon CUFF.735 chr19 + chr19:58964634-58965062,chr19:58963121-58965062;chr19:58964150-58965062;chr19:58963111-58965062 chr19:58963072-58965062 chr19:58964020-58964149;chr19:58963101-58963110 chr19:58962971-58963071 44.05 N cassette CUFF.1174 chr6 + chr6:126317187-126319368 chr6:126317187-126319198;chr6:126319281-126319368 chr6:126319199-126319280 91.80 N jcn_only_AD chr3 - chr3:124951499-124953143 chr3:124951499-124951952 40.00 N jcn_only_AA CUFF.1125 chr5 - chr5:178046898-178050256;chr5:178045780-178050256;chr5:178049461-178050256 chr5:178047675-178050256 3.94 K cassette CUFF.148 chr10 - chr10:78729826-78771724 chr10:78729826-78761164;chr10:78761339-78771724 chr10:78761165-78761338 43.71 K alternative_last_exon CUFF.446 chr15 - chr15:83355772-83357487;chr15:83350333-83357487 chr15:83357251-83357487 chr15:83355213-83355771;chr15:83350172-83350332 chr15:83357210-83357250 11.49 K intron_retention CUFF.784 chr2 - chr2:79363203-79363915 chr2:79363202-79363203;chr2:79363915-79363916 16.44 N jcn_only_AD CUFF.1238 chr7 - chr7:102572381-102603979 chr7:102572381-102573767 chr7:102573768-102603979 chr7:102603979-102603980 4.74 K intron_retention CUFF.297 chr12 + chr12:58019248-58019407 chr12:58019247-58019248;chr12:58019407-58019408 47.13 N alternative_acceptor chr8 + chr8:71564130-71564769 chr8:71564130-71564745 chr8:71564746-71564769 chr8:71564769-71564770 6.12 N intron_retention chr16 - chr16:4463406-4465766 chr16:4463405-4463406;chr16:4465766-4465767 72.22 N alternative_donor CUFF.308,CUFF.309 chr12 - chr12:113633695-113645242 chr12:113633695-113635345 chr12:113635346-113645242 chr12:113645242-113645243 8.11 K jcn_only_AA CUFF.817 chr2 - chr2:169826726-169828356 chr2:169826867-169828356 chr2:169826726-169826866 chr2:169826725-169826726 23.08 K intron_retention CUFF.256 chr12 - chr12:7090794-7090971 chr12:7090793-7090794;chr12:7090971-7090972 26.05 N alternative_donor CUFF.1062 chr4 - chr4:152147239-152187237;chr4:152147239-152147319 chr4:152147239-152246392 chr4:152147320-152187237;chr4:152187238-152246392 chr4:152187237-152187238;chr4:152246392-152246393 100.00 N alternative_donor CUFF.1054 chr4 + chr4:120449945-120471533 chr4:120465001-120471533 chr4:120449945-120465000 chr4:120449944-120449945 0.00 N alternative_donor CUFF.171 chr11 - chr11:410028-417293;chr11:410028-414822 chr11:410028-417324 chr11:414823-417293;chr11:417294-417324 chr11:417293-417294;chr11:417324-417325 37.10 N jcn_only_AA CUFF.350 chr14 + chr14:61545646-61550272 chr14:61545646-61550267 chr14:61550268-61550272 chr14:61550272-61550273 49.81 N intron_retention CUFF.935 chr3 + chr3:28357915-28360222 chr3:28357914-28357915;chr3:28360222-28360223 11.48 N coord_cassette CUFF.806 chr2 + chr2:160569118-160585519 chr2:160569118-160571067;chr2:160571110-160572191;chr2:160572278-160585519 chr2:160571068-160571109;chr2:160572192-160572277 10.26 K coord_cassette CUFF.226 chr11 - chr11:102937297-102953984 chr11:102937297-102950637;chr11:102950727-102953476;chr11:102953569-102953984 chr11:102950638-102950726;chr11:102953477-102953568 15.87 N jcn_only_AD CUFF.963 chr3 - chr3:93646252-93647545;chr3:93646252-93677354;chr3:93646252-93692517 chr3:93646252-93692406 chr3:93647546-93677354;chr3:93677355-93692406;chr3:93692407-93692517 chr3:93677354-93677355;chr3:93692406-93692407;chr3:93692517-93692518 68.59 N jcn_only_AA CUFF.911 chr22 + chr22:29521405-29533489 chr22:29521405-29533329 chr22:29533330-29533489 chr22:29533489-29533490 93.48 N alternative_donor CUFF.935 chr3 + chr3:28283304-28304781;chr3:28295257-28304781 chr3:28283393-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 80.77 N alternative_donor CUFF.489 chr16 - chr16:15186472-15188001 chr16:15186472-15187808 chr16:15187809-15188001 chr16:15188001-15188002 10.64 N alternative_donor CUFF.1387 chrX - chrX:20258724-20284681 chrX:20258724-20259710 chrX:20259711-20284681 chrX:20284681-20284682 0.00 K cassette CUFF.222 chr11 - chr11:77885630-77899618 chr11:77885630-77897726;chr11:77897863-77899618 chr11:77897727-77897862 97.78 N intron_retention chr16 + chr16:3119111-3119281 chr16:3119110-3119111;chr16:3119281-3119282 90.84 N alternative_acceptor CUFF.1234 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 90.75 K jcn_only_AA CUFF.337 chr14 + chr14:24572465-24573050 chr14:24572465-24572718 chr14:24572719-24573050 chr14:24573050-24573051 87.50 N jcn_only_AD CUFF.287 chr12 + chr12:53853188-53854798 chr12:53854210-53854798 chr12:53853188-53854209 chr12:53853187-53853188 1.47 K intron_retention CUFF.1281 chr8 - chr8:38002834-38003480 chr8:38002833-38002834;chr8:38003480-38003481 45.00 K intron_retention CUFF.1142 chr6 + chr6:31935897-31936104 chr6:31935896-31935897;chr6:31936104-31936105 20.31 K intron_retention CUFF.1360 chr9 + chr9:125047567-125048058 chr9:125047566-125047567;chr9:125048058-125048059 27.27 K intron_retention CUFF.729 chr19 + chr19:54657578-54659046 chr19:54657577-54657578;chr19:54659046-54659047 31.68 K intron_retention CUFF.1282 chr8 - chr8:56663717-56675193 chr8:56663716-56663717;chr8:56675193-56675194 76.98 N alternative_donor CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106331210-106431371;chr8:106400154-106431371 chr8:106427235-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 0.00 N jcn_only_AD CUFF.69 chr1 + chr1:155180207-155180338 chr1:155180227-155180338 chr1:155180207-155180226 chr1:155180206-155180207 12.79 N intron_retention chr1 - chr1:153924081-153930874 chr1:153924080-153924081;chr1:153930874-153930875 33.33 N jcn_only_AA CUFF.463 chr16 + chr16:583999-596816;chr16:583999-597558 chr16:583999-586028 chr16:586029-596816;chr16:596817-597558 chr16:596816-596817;chr16:597558-597559 11.93 N intron_retention chr10 + chr10:35437420-35467816 chr10:35437419-35437420;chr10:35467816-35467817 9.20 N alternative_donor CUFF.1017 chr4 - chr4:6114725-6201979 chr4:6114725-6196217 chr4:6196218-6201979 chr4:6201979-6201980 0.00 K intron_retention CUFF.1305 chr8 - chr8:99057317-99057574 chr8:99057316-99057317;chr8:99057574-99057575 3.05 N jcn_only_AD CUFF.1362 chr9 - chr9:130929444-130931330;chr9:130929444-130931354 chr9:130929444-130929817 chr9:130929818-130931330;chr9:130931331-130931354 chr9:130931330-130931331;chr9:130931354-130931355 4.50 K intron_retention CUFF.235 chr11 + chr11:118402242-118402489 chr11:118402241-118402242;chr11:118402489-118402490 82.35 N coord_cassette CUFF.631 chr18 + chr18:56001125-56016768 chr18:56001125-56008909;chr18:56009030-56010137;chr18:56010336-56016768 chr18:56008910-56009029;chr18:56010138-56010335 72.15 N cassette CUFF.1163 chr6 + chr6:90276816-90312747 chr6:90276816-90305634;chr6:90305734-90312747 chr6:90305635-90305733 98.74 N cassette CUFF.49 chr1 - chr1:106148712-106161480 chr1:106148712-106155521;chr1:106155567-106161480 chr1:106155522-106155566 56.64 N jcn_only_AA CUFF.84 chr1 + chr1:167345393-167353093 chr1:167345393-167345789 chr1:167345790-167353093 chr1:167353093-167353094 5.23 N alternative_acceptor CUFF.911,CUFF.917 chr22 + chr22:37699444-37705252 chr22:37699444-37700212 chr22:37700213-37705252 chr22:37705252-37705253 0.00 K coord_cassette CUFF.279 chr12 - chr12:49334972-49351092 chr12:49334972-49346895;chr12:49347058-49349880;chr12:49350319-49351092 chr12:49346896-49347057;chr12:49349881-49350318 87.72 N alternative_donor CUFF.198 chr11 + chr11:36317989-36422546;chr11:36415562-36422546;chr11:36399275-36422546;chr11:36398255-36422546;chr11:36420378-36422546 chr11:36371616-36422546 chr11:36317989-36371615;chr11:36371616-36398254;chr11:36398255-36399274;chr11:36399275-36415561;chr11:36415562-36420377 chr11:36317988-36317989;chr11:36371615-36371616;chr11:36398254-36398255;chr11:36399274-36399275;chr11:36415561-36415562 0.00 N alternative_donor CUFF.1411 chrX + chrX:107335067-107369306 chrX:107335110-107369306 chrX:107335067-107335109 chrX:107335066-107335067 11.11 N jcn_only_AD CUFF.210 chr11 + chr11:65486221-65486343 chr11:65486247-65486343 chr11:65486221-65486246 chr11:65486220-65486221 4.67 N jcn_only_AA chr1 + chr1:32541424-32557272 chr1:32541424-32542164 23.81 K jcn_only_AD CUFF.691 chr19 + chr19:35642377-35642535 chr19:35642386-35642535 chr19:35642377-35642385 chr19:35642376-35642377 92.44 K cassette CUFF.391 chr15 + chr15:40545491-40555999 chr15:40545491-40549043;chr15:40549288-40555999 chr15:40549044-40549287 81.32 N alternative_acceptor CUFF.339 chr14 - chr14:31358462-31358589 chr14:31358484-31358589 chr14:31358462-31358483 chr14:31358461-31358462 35.82 N jcn_only_AA CUFF.270 chr12 - chr12:22671072-22676359;chr12:22666325-22676359 chr12:22672174-22676359 chr12:22666325-22671071;chr12:22671072-22672173 chr12:22666324-22666325;chr12:22671071-22671072 38.61 N jcn_only_AA CUFF.450 chr15 - chr15:84873269-84873538 chr15:84873444-84873538 chr15:84873269-84873443 chr15:84873268-84873269 83.33 N alternative_acceptor CUFF.322 chr13 - chr13:25525627-25541529 chr13:25539719-25541529 chr13:25525627-25539718 chr13:25525626-25525627 0.00 N cassette CUFF.870 chr20 + chr20:30132839-30137866 chr20:30132839-30136767;chr20:30136918-30137866 chr20:30136768-30136917 87.00 N alternative_donor CUFF.935 chr3 + chr3:28283393-28304781;chr3:28295257-28304781 chr3:28283304-28304781 chr3:28283304-28283392;chr3:28283393-28295256 chr3:28283303-28283304;chr3:28283392-28283393 15.38 N alternative_acceptor CUFF.193 chr11 - chr11:10821157-10821636 chr11:10821304-10821636 chr11:10821157-10821303 chr11:10821156-10821157 58.16 K intron_retention CUFF.373 chr14 - chr14:104200260-104200703 chr14:104200259-104200260;chr14:104200703-104200704 92.00 N cassette CUFF.355 chr14 - chr14:75143456-75151156 chr14:75143456-75149998;chr14:75150237-75151156 chr14:75149999-75150236 41.38 N jcn_only_AD CUFF.758 chr2 + chr2:38152569-38156404;chr2:38150511-38156404 chr2:38156080-38156404 chr2:38150511-38152568;chr2:38152569-38156079 chr2:38150510-38150511;chr2:38152568-38152569 14.29 N cassette CUFF.729 chr19 + chr19:54656737-54657233 chr19:54656737-54656917;chr19:54657131-54657233 chr19:54656918-54657130 83.33 N jcn_only_AD CUFF.769 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 2.86 N alternative_acceptor CUFF.917 chr22 + chr22:37695348-37696193;chr22:37695348-37696947 chr22:37695348-37696110 chr22:37696111-37696193;chr22:37696194-37696947 chr22:37696193-37696194;chr22:37696947-37696948 0.47 N intron_retention chr2 - chr2:235404481-235404655 chr2:235404480-235404481;chr2:235404655-235404656 37.50 N intron_retention CUFF.373 chr14 - chr14:104202540-104204030 chr14:104202539-104202540;chr14:104204030-104204031 44.19 N jcn_only_AA chr17 + chr17:29687722-29701030 chr17:29687722-29694242 chr17:29694243-29701030 chr17:29701030-29701031 19.57 N intron_retention chr2 - chr2:177042223-177042742 chr2:177042222-177042223;chr2:177042742-177042743 78.89 N cassette CUFF.382 chr15 + chr15:24803469-24811802 chr15:24803469-24811235;chr15:24811360-24811802 chr15:24811236-24811359 40.00 K jcn_only_AD CUFF.705 chr19 + chr19:44764156-44768466;chr19:44764092-44768466 chr19:44764362-44768466 chr19:44764092-44764155;chr19:44764156-44764361 chr19:44764091-44764092;chr19:44764155-44764156 39.81 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272643-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272618-90276552 71.51 K jcn_only_AA CUFF.513 chr16 + chr16:67234872-67235311 chr16:67234872-67235287 chr16:67235288-67235311 chr16:67235311-67235312 93.08 K intron_retention CUFF.243 chr11 - chr11:119290142-119290760 chr11:119290141-119290142;chr11:119290760-119290761 66.32 N coord_cassette CUFF.255 chr12 + chr12:4653078-4655474 chr12:4653078-4654384;chr12:4654479-4654947;chr12:4654999-4655474 chr12:4654385-4654478;chr12:4654948-4654998 18.18 N alternative_acceptor CUFF.325 chr13 + chr13:51805516-51825603 chr13:51805516-51819447 chr13:51819448-51825603 chr13:51825603-51825604 20.00 N cassette CUFF.933 chr3 - chr3:27183074-27203951 chr3:27183074-27184935;chr3:27184966-27203951 chr3:27184936-27184965 78.45 N intron_retention chr4 - chr4:1713655-1713927 chr4:1713654-1713655;chr4:1713927-1713928 70.89 N jcn_only_AD CUFF.1361,CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 46.05 N jcn_only_AD CUFF.1282 chr8 - chr8:56676540-56685827;chr8:56676540-56685534 chr8:56676540-56685785 chr8:56685535-56685785;chr8:56685786-56685827 chr8:56685785-56685786;chr8:56685827-56685828 27.06 N jcn_only_AA CUFF.34 chr1 + chr1:47139892-47152344 chr1:47139892-47147852 chr1:47147853-47152344 chr1:47152344-47152345 28.65 K cassette CUFF.122 chr10 - chr10:27059275-27112066 chr10:27059275-27065993;chr10:27066171-27112066 chr10:27065994-27066170 76.92 K alternative_first_exon CUFF.1385,CUFF.1423 chrX - chrX:152988744-152989409,chrX:152988744-152989470,chrX:152988744-152989941;chrX:152988744-152989788,chrX:152988744-152989655 chrX:152988744-152988962 chrX:152989789-152989838 chrX:152988963-152988981 2.64 K cassette CUFF.1316 chr8 - chr8:120818642-120843916 chr8:120818642-120831585;chr8:120831747-120843916 chr8:120831586-120831746 1.94 N alternative_donor CUFF.69 chr1 + chr1:155180419-155181917 chr1:155181338-155181917 chr1:155180419-155181337 chr1:155180418-155180419 13.46 N jcn_only_AA CUFF.956 chr3 - chr3:57569760-57570110;chr3:57569788-57570110 chr3:57569735-57570110 chr3:57569735-57569759;chr3:57569760-57569787 chr3:57569734-57569735;chr3:57569759-57569760 36.03 N jcn_only_AD CUFF.1174 chr6 + chr6:126307920-126314902;chr6:126307769-126314902 chr6:126307837-126314902 chr6:126307769-126307836;chr6:126307837-126307919 chr6:126307768-126307769;chr6:126307836-126307837 12.57 N jcn_only_AD CUFF.30 chr1 + chr1:32560573-32566042 chr1:32561364-32566042 chr1:32560573-32561363 chr1:32560572-32560573 3.98 N jcn_only_AD CUFF.881 chr20 - chr20:61982380-62005232;chr20:61982380-61986847 chr20:61982380-61987308 chr20:61986848-61987308;chr20:61987309-62005232 chr20:61987308-61987309;chr20:62005232-62005233 27.78 N cassette CUFF.1073 chr5 + chr5:36153145-36177066;chr5:36153145-36166620 chr5:36153145-36163746;chr5:36163859-36166620,chr5:36163859-36177066 chr5:36163747-36163858 35.68 N cassette CUFF.933 chr3 - chr3:27244049-27297786 chr3:27244049-27257222;chr3:27257372-27297786 chr3:27257223-27257371 42.86 K cassette CUFF.446 chr15 - chr15:83358206-83378345 chr15:83358206-83358514;chr15:83358687-83378345 chr15:83358515-83358686 42.03 N cassette ENSG00000130224.10 chrX - chrX:114358566-114364717 chrX:114358566-114361405;chrX:114361457-114364717 chrX:114361406-114361456 25.00 N alternative_donor CUFF.530 chr17 + chr17:1937137-1939263 chr17:1938315-1939263 chr17:1937137-1938314 chr17:1937136-1937137 1.59 N jcn_only_AA CUFF.1368 chr9 - chr9:135742341-135750501 chr9:135749827-135750501 chr9:135742341-135749826 chr9:135742340-135742341 81.43 K jcn_only_AA CUFF.269 chr12 + chr12:21229504-21279051 chr12:21229504-21279041 chr12:21279042-21279051 chr12:21279051-21279052 67.50 N alternative_donor CUFF.1378,CUFF.1410 chrX - chrX:106184863-106185205 chrX:106184863-106185167 chrX:106185168-106185205 chrX:106185205-106185206 21.05 N alternative_donor CUFF.1313 chr8 + chr8:107726214-107749747;chr8:107738486-107749747 chr8:107738538-107749747 chr8:107726214-107738485;chr8:107738486-107738537 chr8:107726213-107726214;chr8:107738485-107738486 0.00 K intron_retention CUFF.526 chr16 + chr16:89804314-89804383 chr16:89804313-89804314;chr16:89804383-89804384 1.93 K intron_retention CUFF.537 chr17 + chr17:6348663-6350782 chr17:6348662-6348663;chr17:6350782-6350783 56.88 N intron_retention chr2 + chr2:220095073-220096981 chr2:220095072-220095073;chr2:220096981-220096982 55.10 N cassette CUFF.287 chr12 + chr12:53848654-53849244 chr12:53848654-53849130;chr12:53849155-53849244 chr12:53849131-53849154 97.24 K jcn_only_AD CUFF.878 chr20 - chr20:34246937-34252800 chr20:34246937-34252723 chr20:34252724-34252800 chr20:34252800-34252801 31.75 K intron_retention chr15 - chr15:83350333-83357487 chr15:83350332-83350333;chr15:83357487-83357488 29.06 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 7.41 N intron_retention chr16 + chr16:3115712-3115781 chr16:3115711-3115712;chr16:3115781-3115782 chr16:3115782-3115827 95.71 N alternative_acceptor CUFF.902 chr22 + chr22:20749709-20754921 chr22:20749709-20753884 chr22:20753885-20754921 chr22:20754921-20754922 chr22:20749623-20749708;chr22:20754922-20755048 17.02 K intron_retention CUFF.695 chr19 - chr19:39924402-39926246 chr19:39924401-39924402;chr19:39926246-39926247 29.86 K intron_retention CUFF.65 chr1 - chr1:153924143-153924493 chr1:153924142-153924143;chr1:153924493-153924494 32.35 N cassette CUFF.500 chr16 - chr16:30005130-30006423 chr16:30005130-30005968;chr16:30006165-30006423 chr16:30005969-30006164 44.35 N jcn_only_AD CUFF.165 chr10 + chr10:124147500-124151818;chr10:124134478-124151818 chr10:124145704-124151818 chr10:124134478-124145703;chr10:124145704-124147499 chr10:124134477-124134478;chr10:124145703-124145704 66.67 K cassette CUFF.81 chr1 + chr1:166810326-166818174 chr1:166810326-166816730;chr1:166816830-166818174 chr1:166816731-166816829 18.06 N alternative_acceptor CUFF.753 chr2 - chr2:27670502-27670678 chr2:27670525-27670678 chr2:27670502-27670524 chr2:27670501-27670502 3.39 N intron_retention chr19 - chr19:21636082-21636351 chr19:21636081-21636082;chr19:21636351-21636352 40.62 N jcn_only_AD CUFF.409 chr15 + chr15:57384090-57458599;chr15:57426699-57458599;chr15:57401516-57458599 chr15:57422171-57458599 chr15:57384090-57401515;chr15:57401516-57422170;chr15:57422171-57426698 chr15:57384089-57384090;chr15:57401515-57401516;chr15:57422170-57422171 18.18 N alternative_donor CUFF.452 chr15 - chr15:90432373-90437112 chr15:90432373-90437108 chr15:90437109-90437112 chr15:90437112-90437113 3.17 K alternative_first_exon CUFF.1040 chr4 - chr4:77097064-77116859 chr4:77097064-77097589 chr4:77116860-77117031 chr4:77097590-77097681 25.93 K mutually_exclusive CUFF.164 chr10 - chr10:123629554-123659380,chr10:123659510-123661905 chr10:123629554-123658355,chr10:123658485-123661905 chr10:123659381-123659509 chr10:123658356-123658484 12.40 N cassette CUFF.870 chr20 + chr20:30137925-30147413 chr20:30137925-30142548;chr20:30142633-30147413 chr20:30142549-30142632 96.87 N jcn_only_AA chr15 + chr15:25207357-25222924 chr15:25207357-25213078 chr15:25213079-25222924 chr15:25222924-25222925 14.06 N alternative_donor CUFF.769 chr2 - chr2:61761039-61763336;chr2:61761039-61761557;chr2:61761039-61764696;chr2:61761039-61764153;chr2:61761039-61765626;chr2:61761039-61761692 chr2:61761039-61763844 chr2:61761558-61761692;chr2:61761693-61763336;chr2:61763337-61763844;chr2:61763845-61764153;chr2:61764154-61764696;chr2:61764697-61765626 chr2:61761692-61761693;chr2:61763336-61763337;chr2:61763844-61763845;chr2:61764153-61764154;chr2:61764696-61764697;chr2:61765626-61765627 0.00 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924161;chr19:39924059-39924157 chr19:39924059-39924133 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 3.87 K jcn_only_AD CUFF.458 chr15 + chr15:97327061-97327382;chr15:97326975-97327382 chr15:97326820-97327382 chr15:97326820-97326974;chr15:97326975-97327060 chr15:97326819-97326820;chr15:97326974-97326975 23.53 K intron_retention CUFF.232 chr11 + chr11:117074601-117074930 chr11:117074600-117074601;chr11:117074930-117074931 31.47 K intron_retention CUFF.493 chr16 + chr16:21716359-21716489 chr16:21716358-21716359;chr16:21716489-21716490 46.15 K intron_retention CUFF.175 chr11 + chr11:830338-830620 chr11:830337-830338;chr11:830620-830621 25.17 N jcn_only_AA CUFF.729 chr19 + chr19:54648069-54649330;chr19:54648069-54649333 chr19:54648069-54649277 chr19:54649278-54649330;chr19:54649331-54649333 chr19:54649330-54649331;chr19:54649333-54649334 25.44 N alternative_donor CUFF.373 chr14 - chr14:104209161-104212709 chr14:104209161-104210227 chr14:104210228-104212709 chr14:104212709-104212710 0.00 N alternative_donor CUFF.1213 chr7 - chr7:38813845-38816278 chr7:38813845-38814788 chr7:38814789-38816278 chr7:38816278-38816279 21.15 K jcn_only_AA CUFF.140 chr10 + chr10:70673036-70673146 chr10:70673036-70673105 chr10:70673106-70673146 chr10:70673146-70673147 22.64 N alternative_last_exon CUFF.102 chr1 + chr1:10494748-10511433 chr1:10494748-10500403 chr1:10511434-10512212 chr1:10500404-10500470 42.55 N intron_retention chr18 + chr18:11981693-11999060 chr18:11981692-11981693;chr18:11999060-11999061 73.44 N alternative_donor CUFF.742 chr2 + chr2:1094097-1099090 chr2:1098397-1099090 chr2:1094097-1098396 chr2:1094096-1094097 4.76 N intron_retention chr16 - chr16:57513601-57521157 chr16:57513600-57513601;chr16:57521157-57521158 60.48 N alternative_donor CUFF.478,CUFF.509 chr16 - chr16:57509870-57513353 chr16:57509870-57512455 chr16:57512456-57513353 chr16:57513353-57513354 0.33 N alternative_donor CUFF.385 chr15 + chr15:29288010-29346047 chr15:29336632-29346047 chr15:29288010-29336631 chr15:29288009-29288010 0.25 N cassette CUFF.270 chr12 - chr12:22643153-22659644 chr12:22643153-22646156;chr12:22646272-22659644 chr12:22646157-22646271 79.88 K alternative_acceptor CUFF.739 chr2 - chr2:280150-283110 chr2:280153-283110 chr2:280150-280152 chr2:280149-280150 3.93 K cassette CUFF.599 chr17 - chr17:76996353-77005745;chr17:76994046-77005745 chr17:76996353-77001453,chr17:76994046-77001453;chr17:77001564-77005745 chr17:77001454-77001563 49.01 N jcn_only_AD CUFF.133 chr10 - chr10:46159291-46167697;chr10:46159291-46167719 chr10:46159291-46168126 chr10:46167698-46167719;chr10:46167720-46168126 chr10:46167719-46167720;chr10:46168126-46168127 chr10:46158990-46159290 26.47 K intron_retention CUFF.1388 chrX + chrX:24382349-24382540 chrX:24382348-24382349;chrX:24382540-24382541 44.74 N jcn_only_AD CUFF.631 chr18 + chr18:56001125-56008909 chr18:56008402-56008909 chr18:56001125-56008401 chr18:56001124-56001125 96.20 N jcn_only_AD CUFF.981 chr3 - chr3:125032501-125042152;chr3:125032501-125033780 chr3:125032501-125042231 chr3:125033781-125042152;chr3:125042153-125042231 chr3:125042152-125042153;chr3:125042231-125042232 20.29 K alternative_last_exon CUFF.823 chr2 - chr2:175234743-175243650;chr2:175216454-175243650 chr2:175223265-175243650 chr2:175216347-175216453 chr2:175222893-175223264 71.03 N cassette CUFF.541 chr17 - chr17:15532513-15539349 chr17:15532513-15534932;chr17:15535029-15539349 chr17:15534933-15535028 81.63 N jcn_only_AA CUFF.758 chr2 + chr2:38156873-38201182 chr2:38156873-38177653 chr2:38177654-38201182 chr2:38201182-38201183 21.43 N alternative_donor CUFF.243 chr11 - chr11:119291640-119293822;chr11:119291640-119295607 chr11:119291640-119292320 chr11:119292321-119293822;chr11:119293823-119295607 chr11:119293822-119293823;chr11:119295607-119295608 16.67 K intron_retention chr1 + chr1:54360029-54360111 chr1:54360028-54360029;chr1:54360111-54360112 60.66 N jcn_only_AD CUFF.428 chr15 + chr15:74754369-74758376;chr15:74754373-74758376 chr15:74754440-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 11.94 N alternative_acceptor CUFF.1108 chr5 - chr5:137194953-137223848 chr5:137219311-137223848 chr5:137194953-137219310 chr5:137194952-137194953 4.76 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110224430;chr1:110214206-110251102 chr1:110214206-110217368 chr1:110224431-110224456;chr1:110251103-110252171 chr1:110217369-110217890 59.29 K jcn_only_AD CUFF.695 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 84.56 K alternative_last_exon CUFF.835 chr2 - chr2:204306804-204309590;chr2:204259813-204309590 chr2:204306137-204309590 chr2:204306192-204306803;chr2:204259068-204259812 chr2:204306092-204306136 10.84 N cassette CUFF.71 chr1 - chr1:156449589-156452228 chr1:156449589-156450625;chr1:156450764-156452228 chr1:156450626-156450763 96.49 K coord_cassette CUFF.361 chr14 + chr14:77934852-77935419 chr14:77934852-77934932;chr14:77935033-77935314;chr14:77935329-77935419 chr14:77934933-77935032;chr14:77935315-77935328 38.76 K jcn_only_AA CUFF.192 chr11 - chr11:8950976-8953688 chr11:8951081-8953688 chr11:8950976-8951080 chr11:8950975-8950976 88.48 N intron_retention chr11 - chr11:10827572-10828856 chr11:10827571-10827572;chr11:10828856-10828857 69.26 K intron_retention CUFF.458 chr15 + chr15:97326820-97327382 chr15:97326819-97326820;chr15:97327382-97327383 79.13 N alternative_acceptor chr7 + chr7:150384176-150389402 chr7:150384176-150386576 chr7:150386577-150389402 chr7:150389402-150389403 51.43 K alternative_first_exon CUFF.921 chr22 + chr22:45181982-45182336,chr22:45173110-45182336;chr22:45131043-45182336;chr22:45162070-45182336;chr22:45122515-45182336 chr22:45148508-45182336 chr22:45130907-45131042;chr22:45161895-45162069;chr22:45122457-45122514 chr22:45148404-45148507 60.58 K intron_retention CUFF.451 chr15 + chr15:89878601-89878879 chr15:89878600-89878601;chr15:89878879-89878880 73.11 K intron_retention CUFF.227 chr11 - chr11:104915386-104916017 chr11:104915385-104915386;chr11:104916017-104916018 63.27 K intron_retention CUFF.226 chr11 - chr11:102960039-102962412 chr11:102960038-102960039;chr11:102962412-102962413 50.79 K alternative_last_exon CUFF.1082 chr5 + chr5:51307437-51374717 chr5:51307437-51339451 chr5:51374718-51374824 chr5:51339452-51339743 86.47 N jcn_only_AD CUFF.48 chr1 - chr1:103975719-104068017 chr1:103975719-104011963 chr1:104011964-104068017 chr1:104068017-104068018 32.35 K intron_retention CUFF.902 chr22 + chr22:20755049-20755566 chr22:20755048-20755049;chr22:20755566-20755567 chr22:20754922-20755048;chr22:20755567-20755662 15.69 K intron_retention chr12 + chr12:58018390-58018506 chr12:58018389-58018390;chr12:58018506-58018507 47.44 N intron_retention chr19 - chr19:41942378-41944139 chr19:41942377-41942378;chr19:41944139-41944140 59.26 K alternative_donor CUFF.712 chr19 - chr19:49316606-49316712 chr19:49316606-49316689 chr19:49316690-49316712 chr19:49316712-49316713 26.83 N alternative_acceptor CUFF.925 chr22 - chr22:51009963-51010434 chr22:51009969-51010434 chr22:51009963-51009968 chr22:51009962-51009963 68.06 K cassette CUFF.1238 chr7 - chr7:102668006-102669797 chr7:102668006-102669046;chr7:102669196-102669797 chr7:102669047-102669195 96.82 K intron_retention chr9 - chr9:130953142-130953710 chr9:130953141-130953142;chr9:130953710-130953711 20.88 K intron_retention CUFF.715 chr19 + chr19:50306263-50306363 chr19:50306262-50306263;chr19:50306363-50306364 13.89 N alternative_acceptor chr10 + chr10:35485071-35495822 chr10:35485071-35490378 chr10:35490379-35495822 chr10:35495822-35495823 5.56 N jcn_only_AA CUFF.1234 chr7 + chr7:107234551-107236313 chr7:107234551-107236311 chr7:107236312-107236313 chr7:107236313-107236314 94.68 N cassette CUFF.541 chr17 - chr17:15580595-15584178 chr17:15580595-15580888;chr17:15581036-15584178 chr17:15580889-15581035 78.79 N intron_retention chr11 + chr11:118402317-118402489 chr11:118402316-118402317;chr11:118402489-118402490 41.94 N alternative_acceptor CUFF.239 chr11 + chr11:119056220-119056633;chr11:119056220-119056630 chr11:119056220-119056557 chr11:119056558-119056630;chr11:119056631-119056633 chr11:119056630-119056631;chr11:119056633-119056634 chr11:119056112-119056219;chr11:119056634-119056950 2.11 K intron_retention CUFF.1378 chrX - chrX:8998402-9000170 chrX:8998401-8998402;chrX:9000170-9000171 5.93 N jcn_only_AD CUFF.1311 chr8 + chr8:106646586-106800945 chr8:106703164-106800945 chr8:106646586-106703163 chr8:106646585-106646586 76.92 K intron_retention CUFF.232 chr11 + chr11:117070149-117073717 chr11:117070148-117070149;chr11:117073717-117073718 67.00 N cassette CUFF.473 chr16 + chr16:3117417-3118180;chr16:3117417-3117984 chr16:3117417-3117554;chr16:3117615-3118180,chr16:3117615-3117984 chr16:3117555-3117614 chr16:3117378-3117416 82.30 N alternative_acceptor CUFF.315 chr13 + chr13:21179245-21189931 chr13:21179245-21188495 chr13:21188496-21189931 chr13:21189931-21189932 2.56 N jcn_only_AA chr3 + chr3:28333446-28357823 chr3:28333446-28334226 chr3:28334227-28357823 chr3:28357823-28357824 17.39 N cassette CUFF.127 chr10 + chr10:35464634-35477127 chr10:35464634-35468061;chr10:35468205-35477127 chr10:35468062-35468204 97.21 K jcn_only_AA CUFF.763 chr2 - chr2:46839484-46842075 chr2:46840925-46842075 38.10 N jcn_only_AD CUFF.1054 chr4 + chr4:120381976-120382871 chr4:120381983-120382871 chr4:120381976-120381982 chr4:120381975-120381976 91.02 N intron_retention chr11 + chr11:118402587-118402811 chr11:118402586-118402587;chr11:118402811-118402812 38.72 N alternative_donor chr7 - chr7:156526952-156540617;chr7:156526952-156529186 chr7:156526952-156549086 chr7:156529187-156540617;chr7:156540618-156549086 chr7:156540617-156540618;chr7:156549086-156549087 97.88 K mutually_exclusive CUFF.122 chr10 - chr10:27040713-27047990,chr10:27048165-27054146 chr10:27040713-27044583,chr10:27044671-27054146 chr10:27047991-27048164 chr10:27044584-27044670 5.63 N alternative_acceptor chr11 - chr11:558980-559346 chr11:559063-559346 chr11:558980-559062 chr11:558979-558980 46.15 K intron_retention CUFF.1425 chrX + chrX:153609163-153609241 chrX:153609162-153609163;chrX:153609241-153609242 1.33 K jcn_only_AD CUFF.572 chr17 - chr17:40738910-40744073 chr17:40738910-40739851 68.22 K intron_retention CUFF.611 chr18 + chr18:210032-210385 chr18:210031-210032;chr18:210385-210386 10.75 N jcn_only_AA CUFF.1391 chrX - chrX:46360771-46387769 chrX:46382561-46387769 chrX:46360771-46382560 chrX:46360770-46360771 85.94 K jcn_only_AD CUFF.861 chr20 - chr20:3171466-3172410 chr20:3171466-3171835 chr20:3171836-3172410 chr20:3172410-3172411 74.53 N jcn_only_AA chr4 - chr4:152091944-152095821;chr4:152086849-152095821 chr4:152080505-152095821 36.36 K intron_retention CUFF.1281 chr8 - chr8:38005878-38006158 chr8:38005877-38005878;chr8:38006158-38006159 21.43 N jcn_only_AA CUFF.382 chr15 + chr15:24811948-24814929;chr15:24811948-24813677;chr15:24811948-24813038 chr15:24811948-24813043 chr15:24813039-24813043;chr15:24813044-24813677;chr15:24813678-24814929 chr15:24813043-24813044;chr15:24813677-24813678;chr15:24814929-24814930 10.14 K jcn_only_AA CUFF.1393 chrX + chrX:47035986-47040613 chrX:47035986-47038501 90.83 K intron_retention CUFF.1281 chr8 - chr8:38001905-38003480 chr8:38001904-38001905;chr8:38003480-38003481 36.36 K intron_retention CUFF.841 chr2 + chr2:219231824-219232152 chr2:219231823-219231824;chr2:219232152-219232153 32.41 N cassette CUFF.856 chr2 - chr2:242441124-242447857;chr2:242441124-242447919 chr2:242441124-242447420;chr2:242447551-242447857,chr2:242447551-242447919 chr2:242447421-242447550 59.28 N jcn_only_AD chr2 - chr2:4009485-4021134 chr2:4009485-4015768 chr2:4015769-4021134 chr2:4021134-4021135 30.43 N cassette CUFF.796 chr2 + chr2:109066146-109068854 chr2:109066146-109067483;chr2:109067569-109068854 chr2:109067484-109067568 65.22 N jcn_only_AA CUFF.1408 chrX - chrX:106059017-106236459;chrX:106235661-106236459 chrX:106229431-106236459 chrX:106059017-106229430;chrX:106229431-106235660 chrX:106059016-106059017;chrX:106229430-106229431 39.29 K intron_retention CUFF.728 chr19 + chr19:52909897-52917456 chr19:52909896-52909897;chr19:52917456-52917457 91.94 N jcn_only_AD CUFF.1311 chr8 + chr8:106370866-106431371;chr8:106427235-106431371;chr8:106331210-106431371 chr8:106400154-106431371 chr8:106331210-106370865;chr8:106370866-106400153;chr8:106400154-106427234 chr8:106331209-106331210;chr8:106370865-106370866;chr8:106400153-106400154 60.56 N cassette CUFF.61 chr1 + chr1:147563999-147566014 chr1:147563999-147564303;chr1:147564350-147566014 chr1:147564304-147564349 26.00 K alternative_last_exon CUFF.52 chr1 + chr1:110214206-110215824;chr1:110214206-110217368;chr1:110214206-110224430 chr1:110214206-110251102 chr1:110217369-110217890;chr1:110224431-110224456 chr1:110251103-110252171 11.43 K alternative_acceptor CUFF.786 chr2 - chr2:86397965-86398330 chr2:86397968-86398330 chr2:86397965-86397967 chr2:86397964-86397965 48.68 N jcn_only_AD CUFF.681 chr19 + chr19:17581517-17597371 chr19:17594931-17597371 chr19:17581517-17594930 chr19:17581516-17581517 11.71 K jcn_only_AA CUFF.668 chr19 + chr19:11468416-11470282;chr19:11468416-11470207 chr19:11468416-11470146 chr19:11470147-11470207;chr19:11470208-11470282 chr19:11470207-11470208;chr19:11470282-11470283 14.57 K alternative_donor CUFF.695 chr19 - chr19:39924059-39924133;chr19:39924059-39924157 chr19:39924059-39924161 chr19:39924134-39924157;chr19:39924158-39924161 chr19:39924157-39924158;chr19:39924161-39924162 88.92 K cassette CUFF.1008 chr4 + chr4:649796-650662 chr4:649796-650033;chr4:650082-650662 chr4:650034-650081 27.08 K intron_retention CUFF.65 chr1 - chr1:153925112-153925280 chr1:153925111-153925112;chr1:153925280-153925281 92.88 K cassette CUFF.967 chr3 - chr3:107595034-107596748 chr3:107595034-107596159;chr3:107596345-107596748 chr3:107596160-107596344 47.33 K jcn_only_AD CUFF.530 chr17 + chr17:1939948-1940128 chr17:1939981-1940128 chr17:1939948-1939980 chr17:1939947-1939948 94.14 K cassette CUFF.1093 chr5 - chr5:60217983-60224690 chr5:60217983-60220117;chr5:60220336-60224690 chr5:60220118-60220335 39.45 K alternative_last_exon CUFF.988 chr3 + chr3:132948196-133022047,chr3:132948196-133097185;chr3:132948196-133109023 chr3:132948196-133098595 chr3:133109024-133109178 chr3:133098596-133099055 65.58 K intron_retention CUFF.735 chr19 + chr19:58965712-58966549 chr19:58965711-58965712;chr19:58966549-58966550 39.33 N intron_retention chr22 - chr22:51011352-51012053 chr22:51011351-51011352;chr22:51012053-51012054 85.33 N alternative_first_exon CUFF.1156 chr6 - chr6:41491964-41513737,chr6:41491964-41515198;chr6:41491964-41516115 chr6:41491964-41513826 chr6:41516116-41516157 chr6:41513827-41513981 47.45 K intron_retention chr1 + chr1:245133746-245180543 chr1:245133745-245133746;chr1:245180543-245180544 23.19 K alternative_acceptor CUFF.408 chr15 - chr15:55790009-55790404 chr15:55790058-55790404 chr15:55790009-55790057 chr15:55790008-55790009 92.05 N jcn_only_AA CUFF.603 chr17 - chr17:79893021-79893998 chr17:79893393-79893998 chr17:79893021-79893392 chr17:79893020-79893021 86.72 K intron_retention CUFF.231 chr11 + chr11:115267610-115267986 chr11:115267609-115267610;chr11:115267986-115267987 82.54 N jcn_only_AA CUFF.904 chr22 - chr22:21830450-21832078;chr22:21831054-21832078 chr22:21831031-21832078 chr22:21830450-21831030;chr22:21831031-21831053 chr22:21830449-21830450;chr22:21831030-21831031 5.30 N jcn_only_AA CUFF.705 chr19 + chr19:44771115-44777051;chr19:44771115-44771532 chr19:44771115-44777457 chr19:44771533-44777051;chr19:44777052-44777457 chr19:44777051-44777052;chr19:44777457-44777458 16.18 N jcn_only_AA CUFF.272 chr12 - chr12:25673010-25679702 chr12:25679153-25679702 83.93 K intron_retention CUFF.1024 chr4 + chr4:20618571-20622026 chr4:20618570-20618571;chr4:20622026-20622027 34.62 K cassette CUFF.753 chr2 - chr2:27668317-27668611 chr2:27668317-27668419;chr2:27668497-27668611 chr2:27668420-27668496 14.67 K alternative_first_exon CUFF.945 chr3 - chr3:38061844-38065827;chr3:38061844-38070996 chr3:38061844-38065646 chr3:38070997-38071330 chr3:38065647-38066084 38.41 K alternative_first_exon CUFF.92 chr1 + chr1:200860531-200867434 chr1:200864216-200867434 chr1:200860147-200860530 chr1:200864101-200864215 44.26 K jcn_only_AA CUFF.619 chr18 + chr18:14797854-14808549 chr18:14797854-14799099 62.50 N jcn_only_AA CUFF.953 chr3 - chr3:49463856-49466540 chr3:49463862-49466540 chr3:49463856-49463861 chr3:49463855-49463856 83.94 K intron_retention CUFF.1158 chr6 + chr6:46644481-46645347 chr6:46644480-46644481;chr6:46645347-46645348 27.93 N intron_retention CUFF.528 chr17 - chr17:1616199-1616996 chr17:1616198-1616199;chr17:1616996-1616997 63.64 N jcn_only_AD CUFF.1296 chr8 - chr8:80963864-80965516 chr8:80963864-80964840 chr8:80964841-80965516 chr8:80965516-80965517 11.53 K cassette CUFF.1038 chr4 - chr4:70465113-70512647 chr4:70465113-70501408;chr4:70501541-70512647 chr4:70501409-70501540 27.27 K alternative_acceptor CUFF.1360 chr9 + chr9:125028060-125033231 chr9:125028060-125033142 chr9:125033143-125033231 chr9:125033231-125033232 81.10 N mutually_exclusive CUFF.171 chr11 - chr11:407958-408694,chr11:408894-414822 chr11:407958-408072,chr11:408207-414822 chr11:408695-408893 chr11:408073-408206 53.45 K alternative_donor CUFF.925 chr22 - chr22:51015464-51015784 chr22:51015464-51015752 chr22:51015753-51015784 chr22:51015784-51015785 48.06 K intron_retention chr12 + chr12:13366756-13367467 chr12:13366755-13366756;chr12:13367467-13367468 35.31 N jcn_only_AA CUFF.593 chr17 + chr17:61904875-61905210;chr17:61904875-61905188;chr17:61904875-61905478;chr17:61904875-61905497 chr17:61904875-61905033 chr17:61905034-61905188;chr17:61905189-61905210;chr17:61905211-61905478;chr17:61905479-61905497 chr17:61905188-61905189;chr17:61905210-61905211;chr17:61905478-61905479;chr17:61905497-61905498 chr17:61904778-61904874;chr17:61905498-61905569 8.64 K cassette CUFF.569 chr17 - chr17:37595447-37596875 chr17:37595447-37596638;chr17:37596772-37596875 chr17:37596639-37596771 33.33 N jcn_only_AD chr7 - chr7:156516873-156526870 chr7:156516873-156518128 95.19 N jcn_only_AA CUFF.148 chr10 - chr10:78644776-78647048;chr10:78637649-78647048 chr10:78637652-78647048 chr10:78637649-78637651;chr10:78637652-78644775 chr10:78637648-78637649;chr10:78637651-78637652 28.91 K jcn_only_AD CUFF.92 chr1 + chr1:200870288-200876961 chr1:200875624-200876961 54.05 N jcn_only_AD chr6 + chr6:90218969-90276552;chr6:90272618-90276552;chr6:90218678-90276552;chr6:90193278-90276552 chr6:90272643-90276552 9.30 K jcn_only_AD CUFF.388 chr15 + chr15:30771397-30776704 chr15:30773111-30776704 30.77 K cassette CUFF.856 chr2 - chr2:242437103-242438053 chr2:242437103-242437649;chr2:242437765-242438053 chr2:242437650-242437764 95.45 N jcn_only_AA CUFF.649 chr19 + chr19:1438892-1439714;chr19:1438892-1440017;chr19:1438892-1439604;chr19:1438892-1439959;chr19:1438892-1440024 chr19:1438892-1439966 chr19:1439605-1439714;chr19:1439715-1439959;chr19:1439960-1439966;chr19:1439967-1440017;chr19:1440018-1440024 chr19:1439714-1439715;chr19:1439959-1439960;chr19:1439966-1439967;chr19:1440017-1440018;chr19:1440024-1440025 3.33 N alternative_donor CUFF.876 chr20 + chr20:33567608-33568380 chr20:33568283-33568380 chr20:33567608-33568282 chr20:33567607-33567608 72.22 N jcn_only_AA CUFF.1175 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 27.59 N alternative_donor CUFF.497,CUFF.500 chr16 - chr16:23504780-23505623 chr16:23504780-23505619 chr16:23505620-23505623 chr16:23505623-23505624 2.36 K intron_retention CUFF.58 chr1 + chr1:145584837-145585355 chr1:145584836-145584837;chr1:145585355-145585356 33.33 N jcn_only_AD chr13 - chr13:24334357-24380088 chr13:24334357-24334671 chr13:24334672-24380088 chr13:24380088-24380089 97.84 N alternative_donor CUFF.336 chr14 + chr14:24459569-24464240 chr14:24460162-24464240 chr14:24459569-24460161 chr14:24459568-24459569 1.84 N alternative_acceptor CUFF.1175 chr6 - chr6:128540242-128561179 chr6:128556750-128561179 chr6:128540242-128556749 chr6:128540241-128540242 0.00 N jcn_only_AA CUFF.1142 chr6 + chr6:31936316-31936462 chr6:31936316-31936399 chr6:31936400-31936462 chr6:31936462-31936463 13.43 K intron_retention CUFF.291 chr12 - chr12:56577715-56577958 chr12:56577714-56577715;chr12:56577958-56577959 chr12:56577645-56577714;chr12:56577959-56578028 14.65 K cassette CUFF.786 chr2 - chr2:86397965-86400772 chr2:86397965-86398330;chr2:86398505-86400772 chr2:86398331-86398504 33.77 K cassette CUFF.155 chr10 + chr10:96954435-96961741 chr10:96954435-96961197;chr10:96961279-96961741 chr10:96961198-96961278 18.94 N jcn_only_AD CUFF.941 chr3 - chr3:33626413-33633886 chr3:33626413-33630196 chr3:33630197-33633886 chr3:33633886-33633887 12.50 N alternative_acceptor ENSG00000187156.4 chr14 + chr14:106938645-106960260 chr14:106938645-106944774 chr14:106944775-106960260 chr14:106960260-106960261 1.96 N jcn_only_AD CUFF.976 chr3 + chr3:119501148-119526075 chr3:119501700-119526075 chr3:119501148-119501699 chr3:119501147-119501148 9.80 N jcn_only_AA CUFF.1378 chrX - chrX:9050777-9130837 chrX:9130355-9130837 chrX:9050777-9130354 chrX:9050776-9050777 30.77 N alternative_donor CUFF.444 chr15 - chr15:80200027-80215793 chr15:80200027-80206929 chr15:80206930-80215793 chr15:80215793-80215794 6.16 N jcn_only_AA CUFF.409 chr15 + chr15:57574797-57578354;chr15:57574797-57591423 chr15:57574797-57583026 chr15:57578355-57583026;chr15:57583027-57591423 chr15:57583026-57583027;chr15:57591423-57591424 2.46 K alternative_last_exon CUFF.1122 chr5 - chr5:162516353-162683856 chr5:162683277-162683856 chr5:162516251-162516352 chr5:162683119-162683276 45.71 N intron_retention chr22 + chr22:21057981-21058255 chr22:21057980-21057981;chr22:21058255-21058256 46.75 K intron_retention CUFF.587 chr17 + chr17:61562428-61562596 chr17:61562427-61562428;chr17:61562596-61562597 49.59 N jcn_only_AD CUFF.255 chr12 + chr12:4658003-4662148 chr12:4659714-4662148 chr12:4658003-4659713 chr12:4658002-4658003 15.09 K cassette CUFF.733 chr19 - chr19:56313106-56320134 chr19:56313106-56319218;chr19:56319381-56320134 chr19:56319219-56319380 71.43 K alternative_acceptor CUFF.171 chr11 - chr11:407535-407816 chr11:407569-407816 chr11:407535-407568 chr11:407534-407535 60.42 N cassette CUFF.753 chr2 - chr2:27676381-27676848 chr2:27676381-27676496;chr2:27676607-27676848 chr2:27676497-27676606 83.61 K intron_retention chr6 + chr6:31928872-31928972 chr6:31928871-31928872;chr6:31928972-31928973 47.37 N cassette CUFF.239 chr11 + chr11:119057400-119058272 chr11:119057400-119057978;chr11:119058169-119058272 chr11:119057979-119058168 chr11:119057188-119057399;chr11:119058273-119058409 63.87 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 82.78 N intron_retention chr2 - chr2:110920710-110922264 chr2:110920709-110920710;chr2:110922264-110922265 39.53 N alternative_donor CUFF.350 chr14 + chr14:61448410-61449225;chr14:61448101-61449225;chr14:61448406-61449225 chr14:61448962-61449225 chr14:61448101-61448405;chr14:61448406-61448409;chr14:61448410-61448961 chr14:61448100-61448101;chr14:61448405-61448406;chr14:61448409-61448410 2.80 N alternative_donor CUFF.1361,CUFF.1362 chr9 - chr9:130941184-130941522;chr9:130941184-130941351 chr9:130941184-130941267 chr9:130941268-130941351;chr9:130941352-130941522 chr9:130941351-130941352;chr9:130941522-130941523 62.61 N jcn_only_AA CUFF.1282 chr8 - chr8:56663717-56668802 chr8:56664106-56668802 chr8:56663717-56664105 chr8:56663716-56663717 6.69 N alternative_acceptor CUFF.277 chr12 - chr12:48393909-48398019;chr12:48394878-48398019 chr12:48396825-48398019 chr12:48393909-48394877;chr12:48394878-48396824 chr12:48393908-48393909;chr12:48394877-48394878 2.90 K alternative_first_exon CUFF.1318 chr8 - chr8:126958427-126963429 chr8:126958427-126963157 chr8:126963430-126963576 chr8:126963158-126963417 70.48 N alternative_first_exon CUFF.1313 chr8 + chr8:107593480-107691437,chr8:107670314-107691437;chr8:107531368-107691437;chr8:107630412-107691437 chr8:107670414-107691437 chr8:107531171-107531367;chr8:107630321-107630411 chr8:107670118-107670413 8.33 N jcn_only_AA CUFF.375 chr14 + chr14:106944969-106950170 chr14:106944969-106946393 chr14:106946394-106950170 chr14:106950170-106950171 45.45 N alternative_acceptor chr2 + chr2:3464108-3464417;chr2:3464108-3466628 chr2:3464108-3469367 chr2:3464418-3466628;chr2:3466629-3469367 chr2:3466628-3466629;chr2:3469367-3469368 98.99 N intron_retention chr17 - chr17:79890840-79891182 chr17:79890839-79890840;chr17:79891182-79891183 79.25 N alternative_donor CUFF.270 chr12 - chr12:22610096-22622642;chr12:22610096-22612425 chr12:22610096-22611417 chr12:22611418-22612425;chr12:22612426-22622642 chr12:22612425-22612426;chr12:22622642-22622643 60.00 K jcn_only_AD CUFF.972 chr3 + chr3:119188106-119188666;chr3:119187954-119188666 chr3:119187854-119188666 chr3:119187854-119187953;chr3:119187954-119188105 chr3:119187853-119187854;chr3:119187953-119187954 17.42 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 83.52 N alternative_donor CUFF.428 chr15 + chr15:74754440-74758376;chr15:74754373-74758376 chr15:74754369-74758376 chr15:74754369-74754372;chr15:74754373-74754439 chr15:74754368-74754369;chr15:74754372-74754373 79.34 K jcn_only_AD CUFF.1067 chr4 + chr4:186185653-186188122 chr4:186185765-186188122 chr4:186185653-186185764 chr4:186185652-186185653 70.83 N alternative_last_exon CUFF.345,CUFF.350 chr14 + chr14:58979346-59003724;chr14:58979346-59006788;chr14:58979346-58987639 chr14:58979346-59014498 chr14:59006789-59006854;chr14:58987640-58987922 chr14:59014499-59015215 7.39 K intron_retention CUFF.175 chr11 + chr11:829184-829359 chr11:829183-829184;chr11:829359-829360 69.23 N jcn_only_AA chr22 - chr22:21841217-21841853 chr22:21841265-21841853 31.71 K cassette CUFF.745 chr2 - chr2:4008147-4021134 chr2:4008147-4009359;chr2:4009394-4021134 chr2:4009360-4009393 76.92 K intron_retention CUFF.753 chr2 - chr2:27688750-27693794 chr2:27688749-27688750;chr2:27693794-27693795 79.63 N alternative_acceptor CUFF.1333,CUFF.1363 chr9 + chr9:43907538-43908435 chr9:43907538-43908111 chr9:43908112-43908435 chr9:43908435-43908436 63.64 N jcn_only_AD CUFF.239 chr11 + chr11:119056220-119056557 chr11:119056338-119056557 chr11:119056220-119056337 chr11:119056219-119056220 chr11:119056112-119056219 63.01 N jcn_only_AA CUFF.1150 chr6 + chr6:33239900-33240404 chr6:33239900-33240363 chr6:33240364-33240404 chr6:33240404-33240405 22.81 K alternative_last_exon CUFF.221 chr11 - chr11:75514563-75522468;chr11:75520420-75522468 chr11:75514771-75522468 chr11:75514472-75514562;chr11:75520322-75520419 chr11:75514580-75514770 49.18